@prefix rdf: . @prefix : . @prefix so: . @prefix obo: . @prefix owl: . @prefix xml: . @prefix xsd: . @prefix rdfs: . @prefix oboInOwl: . obo:BS_00003 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001078 ; a owl:Class ; owl:deprecated true . obo:BS_0000338 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001079 ; a owl:Class ; owl:deprecated true . obo:BS_0000339 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001116 ; a owl:Class ; owl:deprecated true . obo:BS_0000340 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001119 ; a owl:Class ; owl:deprecated true . obo:BS_0000341 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001112 ; a owl:Class ; owl:deprecated true . obo:BS_00012 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000417 ; a owl:Class ; owl:deprecated true . obo:BS_00026 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001104 ; a owl:Class ; owl:deprecated true . obo:BS_00027 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001092 ; a owl:Class ; owl:deprecated true . obo:BS_00028 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001088 ; a owl:Class ; owl:deprecated true . obo:BS_00029 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001091 ; a owl:Class ; owl:deprecated true . obo:BS_00032 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001067 ; a owl:Class ; owl:deprecated true . obo:BS_00033 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000409 ; a owl:Class ; owl:deprecated true . obo:BS_00036 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001148 ; a owl:Class ; owl:deprecated true . obo:BS_00040 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001117 ; a owl:Class ; owl:deprecated true . obo:BS_00041 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001080 ; a owl:Class ; owl:deprecated true . obo:BS_00042 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001111 ; a owl:Class ; owl:deprecated true . obo:BS_00052 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001089 ; a owl:Class ; owl:deprecated true . obo:BS_00055 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000725 ; a owl:Class ; owl:deprecated true . obo:BS_00063 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001061 ; a owl:Class ; owl:deprecated true . obo:BS_00067 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000691 ; a owl:Class ; owl:deprecated true . obo:BS_00068 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001066 ; a owl:Class ; owl:deprecated true . obo:BS_00069 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001085 ; a owl:Class ; owl:deprecated true . obo:BS_00070 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001068 ; a owl:Class ; owl:deprecated true . obo:BS_00071 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001147 ; a owl:Class ; owl:deprecated true . obo:BS_00072 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001084 ; a owl:Class ; owl:deprecated true . obo:BS_00073 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001149 ; a owl:Class ; owl:deprecated true . obo:BS_00076 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001064 ; a owl:Class ; owl:deprecated true . obo:BS_00077 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001062 ; a owl:Class ; owl:deprecated true . obo:BS_00124 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000839 ; a owl:Class ; owl:deprecated true . obo:BS_00125 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001082 ; a owl:Class ; owl:deprecated true . obo:BS_00128 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001071 ; a owl:Class ; owl:deprecated true . obo:BS_00129 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001063 ; a owl:Class ; owl:deprecated true . obo:BS_00131 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001093 ; a owl:Class ; owl:deprecated true . obo:BS_00134 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000417 ; a owl:Class ; owl:deprecated true . obo:BS_00136 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001095 ; a owl:Class ; owl:deprecated true . obo:BS_00137 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001097 ; a owl:Class ; owl:deprecated true . obo:BS_00140 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001099 ; a owl:Class ; owl:deprecated true . obo:BS_00141 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001100 ; a owl:Class ; owl:deprecated true . obo:BS_00142 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001101 ; a owl:Class ; owl:deprecated true . obo:BS_00143 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001102 ; a owl:Class ; owl:deprecated true . obo:BS_00144 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001074 ; a owl:Class ; owl:deprecated true . obo:BS_00145 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001073 ; a owl:Class ; owl:deprecated true . obo:BS_00146 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001096 ; a owl:Class ; owl:deprecated true . obo:BS_00147 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001081 ; a owl:Class ; owl:deprecated true . obo:BS_00148 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001128 ; a owl:Class ; owl:deprecated true . obo:BS_00149 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000419 ; a owl:Class ; owl:deprecated true . obo:BS_00151 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001113 ; a owl:Class ; owl:deprecated true . obo:BS_00152 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001114 ; a owl:Class ; owl:deprecated true . obo:BS_00153 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001118 ; a owl:Class ; owl:deprecated true . obo:BS_00154 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001072 ; a owl:Class ; owl:deprecated true . obo:BS_00155 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001076 ; a owl:Class ; owl:deprecated true . obo:BS_00156 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001075 ; a owl:Class ; owl:deprecated true . obo:BS_00157 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001105 ; a owl:Class ; owl:deprecated true . obo:BS_00158 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001077 ; a owl:Class ; owl:deprecated true . obo:BS_00159 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000418 ; a owl:Class ; owl:deprecated true . obo:BS_00178 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001087 ; a owl:Class ; owl:deprecated true . obo:BS_00181 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001086 ; a owl:Class ; owl:deprecated true . obo:BS_00182 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001083 ; a owl:Class ; owl:deprecated true . obo:BS_00185 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001103 ; a owl:Class ; owl:deprecated true . obo:BS_00186 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001094 ; a owl:Class ; owl:deprecated true . obo:BS_00187 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001098 ; a owl:Class ; owl:deprecated true . obo:BS_00202 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001106 ; a owl:Class ; owl:deprecated true . obo:BS_00203 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000912 ; a owl:Class ; owl:deprecated true . obo:BS_00204 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001130 ; a owl:Class ; owl:deprecated true . obo:BS_00205 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001131 ; a owl:Class ; owl:deprecated true . obo:BS_00206 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001129 ; a owl:Class ; owl:deprecated true . obo:BS_00207 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001132 ; a owl:Class ; owl:deprecated true . obo:BS_00208 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001107 ; a owl:Class ; owl:deprecated true . obo:BS_00209 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001108 ; a owl:Class ; owl:deprecated true . obo:BS_00210 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001109 ; a owl:Class ; owl:deprecated true . obo:BS_00211 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001110 ; a owl:Class ; owl:deprecated true . obo:BS_00212 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001133 ; a owl:Class ; owl:deprecated true . obo:BS_00213 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001135 ; a owl:Class ; owl:deprecated true . obo:BS_00214 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001137 ; a owl:Class ; owl:deprecated true . obo:BS_00215 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001134 ; a owl:Class ; owl:deprecated true . obo:BS_00216 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001136 ; a owl:Class ; owl:deprecated true . obo:BS_00219 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001138 ; a owl:Class ; owl:deprecated true . obo:BS_00220 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001139 ; a owl:Class ; owl:deprecated true . obo:BS_00221 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001140 ; a owl:Class ; owl:deprecated true . obo:BS_00222 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001115 ; a owl:Class ; owl:deprecated true . obo:BS_00223 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001120 ; a owl:Class ; owl:deprecated true . obo:BS_00224 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001121 ; a owl:Class ; owl:deprecated true . obo:BS_00225 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001122 ; a owl:Class ; owl:deprecated true . obo:BS_00226 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001123 ; a owl:Class ; owl:deprecated true . obo:BS_00227 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001125 ; a owl:Class ; owl:deprecated true . obo:BS_00228 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001124 ; a owl:Class ; owl:deprecated true . obo:BS_00229 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001126 ; a owl:Class ; owl:deprecated true . obo:BS_00230 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001127 ; a owl:Class ; owl:deprecated true . obo:BS_00231 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001141 ; a owl:Class ; owl:deprecated true . obo:BS_00232 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001143 ; a owl:Class ; owl:deprecated true . obo:BS_00233 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001145 ; a owl:Class ; owl:deprecated true . obo:BS_00234 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001142 ; a owl:Class ; owl:deprecated true . obo:BS_00235 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001144 ; a owl:Class ; owl:deprecated true . obo:BS_00246 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001090 ; a owl:Class ; owl:deprecated true . obo:BS_00331 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000839 ; a owl:Class ; owl:deprecated true . obo:BS_00336 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001146 ; a owl:Class ; owl:deprecated true . obo:BS_00337 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001070 ; a owl:Class ; owl:deprecated true . obo:IAO_0000115 a owl:AnnotationProperty ; rdfs:label "definition"^^xsd:string . obo:IAO_0000231 a owl:AnnotationProperty . obo:IAO_0100001 a owl:AnnotationProperty ; rdfs:label "term replaced by"^^xsd:string . obo:SO_0000000 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000000"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "Sequence_Ontology"^^xsd:string ; owl:deprecated true . obo:SO_0000001 obo:IAO_0000115 "A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids."^^xsd:string ; oboInOwl:hasExactSynonym "sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000001"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "region"^^xsd:string ; rdfs:subClassOf obo:SO_0000110 . obo:SO_0000002 obo:IAO_0000115 "A folded sequence."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:misc_structure"^^xsd:string, "sequence secondary structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000002"^^xsd:string ; a owl:Class ; rdfs:label "sequence_secondary_structure"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000003 obo:IAO_0000115 "G-quartets are unusual nucleic acid structures consisting of a planar arrangement where each guanine is hydrogen bonded by hoogsteen pairing to another guanine in the quartet."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/G-quadruplex"^^xsd:string ; oboInOwl:hasExactSynonym "G quartet"^^xsd:string, "G tetrad"^^xsd:string, "G-quadruplex"^^xsd:string, "G-quartet"^^xsd:string, "G-tetrad"^^xsd:string, "G_quadruplex"^^xsd:string, "guanine tetrad"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000003"^^xsd:string ; a owl:Class ; rdfs:label "G_quartet"^^xsd:string ; rdfs:subClassOf obo:SO_0000002 . obo:SO_0000004 obo:IAO_0000115 "A coding exon that is not the most 3-prime or the most 5-prime in a given transcript."^^xsd:string ; oboInOwl:hasExactSynonym "interior coding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000004"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "interior_coding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000195 . obo:SO_0000005 obo:IAO_0000115 "The many tandem repeats (identical or related) of a short basic repeating unit; many have a base composition or other property different from the genome average that allows them to be separated from the bulk (main band) genomic DNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Satellite_DNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:satellite"^^xsd:string, "satellite DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000005"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "satellite_DNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000705 . obo:SO_0000006 obo:IAO_0000115 "A region amplified by a PCR reaction."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/RAPD"^^xsd:string ; oboInOwl:hasExactSynonym "PCR product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "amplicon"^^xsd:string ; oboInOwl:id "SO:0000006"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. This term is now located in OBI, with the following ID OBI_0000406."^^xsd:string ; rdfs:label "PCR_product"^^xsd:string ; rdfs:subClassOf obo:SO_0000695 . obo:SO_0000007 obo:IAO_0000115 "One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert."^^xsd:string ; oboInOwl:hasExactSynonym "mate pair"^^xsd:string, "read-pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000007"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "read_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000149 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001790 ] . obo:SO_0000008 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000008"^^xsd:string ; a owl:Class ; rdfs:label "gene_sensu_your_favorite_organism"^^xsd:string ; owl:deprecated true . obo:SO_0000009 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000009"^^xsd:string ; a owl:Class ; rdfs:label "gene_class"^^xsd:string ; owl:deprecated true . obo:SO_0000010 obo:IAO_0000115 "A gene which, when transcribed, can be translated into a protein."^^xsd:string ; oboInOwl:hasExactSynonym "protein-coding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000010"^^xsd:string ; a owl:Class ; rdfs:label "protein_coding"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000011 obo:IAO_0000115 "A gene which can be transcribed, but will not be translated into a protein."^^xsd:string ; oboInOwl:hasExactSynonym "non protein-coding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000011"^^xsd:string ; a owl:Class ; rdfs:label "non_protein_coding"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000012 obo:IAO_0000115 "The primary transcript of any one of several small cytoplasmic RNA molecules present in the cytoplasm and sometimes nucleus of a Eukaryote."^^xsd:string ; oboInOwl:hasExactSynonym "scRNA primary transcript"^^xsd:string, "scRNA transcript"^^xsd:string, "small cytoplasmic RNA transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "small cytoplasmic RNA"^^xsd:string, "small_cytoplasmic_RNA"^^xsd:string ; oboInOwl:id "SO:0000012"^^xsd:string ; a owl:Class ; rdfs:label "scRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000013 obo:IAO_0000115 "A small non coding RNA sequence, present in the cytoplasm."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:scRNA"^^xsd:string, "small cytoplasmic RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000013"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "scRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000012 ] . obo:SO_0000014 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters required for the correct positioning of the polymerase for the start of transcription. Overlaps the TSS. The mammalian consensus sequence is YYAN(T|A)YY; the Drosophila consensus sequence is TCA(G|T)t(T|C). In each the A is at position +1 with respect to the TSS. Functionally similar to the TATA box element."^^xsd:string ; oboInOwl:hasExactSynonym "INR motif"^^xsd:string, "initiator"^^xsd:string, "initiator motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "DMp2"^^xsd:string ; oboInOwl:id "SO:0000014"^^xsd:string ; a owl:Class ; rdfs:comment "Binds TAF1, TAF2."^^xsd:string ; rdfs:label "INR_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0000015 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters; Positioned from +28 to +32 with respect to the TSS (+1). Experimental results suggest that the DPE acts in conjunction with the INR_motif to provide a binding site for TFIID in the absence of a TATA box to mediate transcription of TATA-less promoters. Consensus sequence (A|G)G(A|T)(C|T)(G|A|C)."^^xsd:string ; oboInOwl:hasExactSynonym "DPE motif"^^xsd:string, "downstream core promoter element"^^xsd:string ; oboInOwl:hasNarrowSynonym "CRWMGCGWKCGCTTS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000015"^^xsd:string ; a owl:Class ; rdfs:comment "Binds TAF6, TAF9."^^xsd:string ; rdfs:label "DPE_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0000016 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements at -37 to -32 with respect to the TSS (+1). Consensus sequence is (G|C)(G|C)(G|A)CGCC. Binds TFIIB."^^xsd:string ; oboInOwl:hasExactSynonym "B-recognition element"^^xsd:string, "BRE motif"^^xsd:string, "BREu motif"^^xsd:string, "transcription factor B-recognition element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "BREu"^^xsd:string, "TFIIB recognition element"^^xsd:string ; oboInOwl:id "SO:0000016"^^xsd:string ; a owl:Class ; rdfs:comment "Binds TFIIB."^^xsd:string ; rdfs:label "BREu_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0000017 obo:IAO_0000115 "A sequence element characteristic of the promoters of snRNA genes transcribed by RNA polymerase II or by RNA polymerase III. Located between -45 and -60 relative to the TSS. The human PSE_motif consensus sequence is TCACCNTNA(C|G)TNAAAAG(T|G). The basal transcription factor, snRNA-activating protein complex (SNAPc), binds the PSE_motif and is required for the transcription of both RNA polymerase II and III transcribed small-nuclear RNA genes."^^xsd:string ; oboInOwl:hasExactSynonym "PSE motif"^^xsd:string, "proximal sequence element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000017"^^xsd:string ; a owl:Class ; rdfs:label "PSE_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000167 ] . obo:SO_0000018 obo:IAO_0000115 "A group of loci that can be grouped in a linear order representing the different degrees of linkage among the genes concerned."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Linkage_group"^^xsd:string ; oboInOwl:hasExactSynonym "linkage group"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000018"^^xsd:string ; a owl:Class ; rdfs:label "linkage_group"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000019 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000313 ; a owl:Class ; owl:deprecated true . obo:SO_0000020 obo:IAO_0000115 "A region of double stranded RNA where the bases do not conform to WC base pairing. The loop is closed on both sides by canonical base pairing. If the interruption to base pairing occurs on one strand only, it is known as a bulge."^^xsd:string ; oboInOwl:hasExactSynonym "RNA internal loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000020"^^xsd:string ; a owl:Class ; rdfs:label "RNA_internal_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000715 . obo:SO_0000021 obo:IAO_0000115 "An internal RNA loop where one of the strands includes more bases than the corresponding region on the other strand."^^xsd:string ; oboInOwl:hasExactSynonym "asymmetric RNA internal loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000021"^^xsd:string ; a owl:Class ; rdfs:label "asymmetric_RNA_internal_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000020 . obo:SO_0000022 obo:IAO_0000115 "A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix."^^xsd:string ; oboInOwl:hasExactSynonym "A minor RNA motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000022"^^xsd:string ; a owl:Class ; rdfs:label "A_minor_RNA_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000715 . obo:SO_0000023 obo:IAO_0000115 "The kink turn (K-turn) is an RNA structural motif that creates a sharp (~120 degree) bend between two continuous helices."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/K-turn"^^xsd:string ; oboInOwl:hasExactSynonym "K turn RNA motif"^^xsd:string, "K-turn"^^xsd:string, "kink turn"^^xsd:string, "kink-turn motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000023"^^xsd:string ; a owl:Class ; rdfs:label "K_turn_RNA_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000021 . obo:SO_0000024 obo:IAO_0000115 "A loop in ribosomal RNA containing the sites of attack for ricin and sarcin."^^xsd:string ; oboInOwl:hasExactSynonym "sarcin like RNA motif"^^xsd:string, "sarcin/ricin RNA domain"^^xsd:string, "sarcin/ricin domain"^^xsd:string, "sarcin/ricin loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000024"^^xsd:string ; a owl:Class ; rdfs:label "sarcin_like_RNA_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000021 . obo:SO_0000025 obo:IAO_0000115 "An internal RNA loop where the extent of the loop on both stands is the same size."^^xsd:string ; oboInOwl:hasExactSynonym "A-minor RNA motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000025"^^xsd:string ; a owl:Class ; rdfs:label "symmetric_RNA_internal_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000020 . obo:SO_0000026 oboInOwl:hasExactSynonym "RNA junction loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000026"^^xsd:string ; a owl:Class ; rdfs:label "RNA_junction_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000715 . obo:SO_0000027 oboInOwl:hasExactSynonym "RNA hook turn"^^xsd:string, "hook-turn motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "hook turn"^^xsd:string ; oboInOwl:id "SO:0000027"^^xsd:string ; a owl:Class ; rdfs:label "RNA_hook_turn"^^xsd:string ; rdfs:subClassOf obo:SO_0000026 . obo:SO_0000028 obo:IAO_0000115 "Two bases paired opposite each other by hydrogen bonds creating a secondary structure."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Base_pair"^^xsd:string ; oboInOwl:hasExactSynonym "base pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000028"^^xsd:string ; a owl:Class ; rdfs:label "base_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000002 . obo:SO_0000029 obo:IAO_0000115 "The canonical base pair, where two bases interact via WC edges, with glycosidic bonds oriented cis relative to the axis of orientation."^^xsd:string ; oboInOwl:hasExactSynonym "WC base pair"^^xsd:string, "Watson Crick base pair"^^xsd:string, "Watson-Crick pair"^^xsd:string, "canonical base pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Watson-Crick base pair"^^xsd:string ; oboInOwl:id "SO:0000029"^^xsd:string ; a owl:Class ; rdfs:label "WC_base_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000028 . obo:SO_0000030 obo:IAO_0000115 "A type of non-canonical base-pairing."^^xsd:string ; oboInOwl:hasExactSynonym "sugar edge base pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000030"^^xsd:string ; a owl:Class ; rdfs:label "sugar_edge_base_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000028 . obo:SO_0000031 obo:IAO_0000115 "DNA or RNA molecules that have been selected from random pools based on their ability to bind other molecules."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Aptamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000031"^^xsd:string ; a owl:Class ; rdfs:label "aptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0000032 obo:IAO_0000115 "DNA molecules that have been selected from random pools based on their ability to bind other molecules."^^xsd:string ; oboInOwl:hasExactSynonym "DNA aptamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000032"^^xsd:string ; a owl:Class ; rdfs:label "DNA_aptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000031 . obo:SO_0000033 obo:IAO_0000115 "RNA molecules that have been selected from random pools based on their ability to bind other molecules."^^xsd:string ; oboInOwl:hasExactSynonym "RNA aptamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000033"^^xsd:string ; a owl:Class ; rdfs:label "RNA_aptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000031 . obo:SO_0000034 obo:IAO_0000115 "Morpholino oligos are synthesized from four different Morpholino subunits, each of which contains one of the four genetic bases (A, C, G, T) linked to a 6-membered morpholine ring. Eighteen to 25 subunits of these four subunit types are joined in a specific order by non-ionic phosphorodiamidate intersubunit linkages to give a Morpholino."^^xsd:string ; oboInOwl:hasBroadSynonym "morphant"^^xsd:string ; oboInOwl:hasExactSynonym "morpholino"^^xsd:string, "morpholino oligo"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000034"^^xsd:string ; a owl:Class ; rdfs:label "morpholino_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001247, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001183 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001247 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001183 ] ) ] . obo:SO_0000035 obo:IAO_0000115 "A riboswitch is a part of an mRNA that can act as a direct sensor of small molecules to control their own expression. A riboswitch is a cis element in the 5' end of an mRNA, that acts as a direct sensor of metabolites."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Riboswitch"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:riboswitch"^^xsd:string, "riboswitch RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000035"^^xsd:string ; a owl:Class ; rdfs:label "riboswitch"^^xsd:string ; rdfs:subClassOf obo:SO_0000836, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000234 ] . obo:SO_0000036 obo:IAO_0000115 "A DNA region that is required for the binding of chromatin to the nuclear matrix."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Matrix_attachment_site"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:matrix_attachment_region"^^xsd:string, "MAR"^^xsd:string, "S/MAR"^^xsd:string, "SMAR"^^xsd:string, "matrix association region"^^xsd:string, "matrix attachment region"^^xsd:string, "matrix attachment site"^^xsd:string, "nuclear matrix association region"^^xsd:string, "nuclear matrix attachment site"^^xsd:string, "scaffold attachment site"^^xsd:string, "scaffold matrix attachment region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "S/MAR element"^^xsd:string ; oboInOwl:id "SO:0000036"^^xsd:string ; a owl:Class ; rdfs:label "matrix_attachment_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000626 . obo:SO_0000037 obo:IAO_0000115 "A DNA region that includes DNAse hypersensitive sites located near a gene that confers the high-level, position-independent, and copy number-dependent expression to that gene."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Locus_control_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:locus_control_region"^^xsd:string, "LCR"^^xsd:string, "locus control region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "locus control element"^^xsd:string ; oboInOwl:id "SO:0000037"^^xsd:string ; a owl:Class ; rdfs:comment "Definition updated Nov 10 2020, Colin Logie from GREEKC helped us realize that LCRs can also be located 3' to a gene."^^xsd:string ; rdfs:label "locus_control_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000727 . obo:SO_0000038 obo:IAO_0000115 "A collection of match parts."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000038"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "match_set"^^xsd:string ; owl:deprecated true . obo:SO_0000039 obo:IAO_0000115 "A part of a match, for example an hsp from blast is a match_part."^^xsd:string ; oboInOwl:hasExactSynonym "match part"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000039"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "match_part"^^xsd:string ; rdfs:subClassOf obo:SO_0001410, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000343 ] . obo:SO_0000040 obo:IAO_0000115 "A clone of a DNA region of a genome."^^xsd:string ; oboInOwl:hasExactSynonym "genomic clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000040"^^xsd:string ; a owl:Class ; rdfs:label "genomic_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000151, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000991 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000151 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000991 ] ) ] . obo:SO_0000041 obo:IAO_0000115 "An operation that can be applied to a sequence, that results in a change."^^xsd:string ; oboInOwl:hasExactSynonym "sequence operation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000041"^^xsd:string ; a owl:Class ; rdfs:label "sequence_operation"^^xsd:string ; owl:deprecated true . obo:SO_0000042 obo:IAO_0000115 "An attribute of a pseudogene (SO:0000336)."^^xsd:string ; oboInOwl:hasExactSynonym "pseudogene attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000042"^^xsd:string ; a owl:Class ; rdfs:label "pseudogene_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000043 obo:IAO_0000115 "A pseudogene created via retrotranposition of the mRNA of a functional protein-coding parent gene followed by accumulation of deleterious mutations lacking introns and promoters, often including a polyA tail."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:gene"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:processed"^^xsd:string, "processed pseudogene"^^xsd:string, "retropseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "R psi G"^^xsd:string, "pseudogene by reverse transcription"^^xsd:string ; oboInOwl:id "SO:0000043"^^xsd:string ; a owl:Class ; rdfs:comment "Please not the synonym R psi M uses the spelled out form of the greek letter."^^xsd:string ; rdfs:label "processed_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000336 . obo:SO_0000044 obo:IAO_0000115 "A pseudogene caused by unequal crossing over at recombination."^^xsd:string ; oboInOwl:hasExactSynonym "pseudogene by unequal crossing over"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000044"^^xsd:string ; a owl:Class ; rdfs:label "pseudogene_by_unequal_crossing_over"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0000045 obo:IAO_0000115 "To remove a subsection of sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000045"^^xsd:string ; a owl:Class ; rdfs:label "delete"^^xsd:string ; owl:deprecated true . obo:SO_0000046 obo:IAO_0000115 "To insert a subsection of sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000046"^^xsd:string ; a owl:Class ; rdfs:label "insert"^^xsd:string ; owl:deprecated true . obo:SO_0000047 obo:IAO_0000115 "To invert a subsection of sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000047"^^xsd:string ; a owl:Class ; rdfs:label "invert"^^xsd:string ; owl:deprecated true . obo:SO_0000048 obo:IAO_0000115 "To substitute a subsection of sequence for another."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000048"^^xsd:string ; a owl:Class ; rdfs:label "substitute"^^xsd:string ; owl:deprecated true . obo:SO_0000049 obo:IAO_0000115 "To translocate a subsection of sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000049"^^xsd:string ; a owl:Class ; rdfs:label "translocate"^^xsd:string ; owl:deprecated true . obo:SO_0000050 obo:IAO_0000115 "A part of a gene, that has no other route in the ontology back to region. This concept is necessary for logical inference as these parts must have the properties of region. It also allows us to associate all the parts of genes with a gene."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000050"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "gene_part"^^xsd:string ; owl:deprecated true . obo:SO_0000051 obo:IAO_0000115 "A DNA sequence used experimentally to detect the presence or absence of a complementary nucleic acid."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Hybridization_probe"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000051"^^xsd:string ; a owl:Class ; rdfs:label "probe"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0000052 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "assortment-derived_deficiency"^^xsd:string ; oboInOwl:id "SO:0000052"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_deficiency"^^xsd:string ; owl:deprecated true . obo:SO_0000053 obo:IAO_0000115 "A sequence_variant_effect which changes the regulatory region of a gene."^^xsd:string ; obo:IAO_0100001 "SO:0001556"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting regulatory region"^^xsd:string ; oboInOwl:id "SO:0000053"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_regulatory_region"^^xsd:string ; owl:deprecated true . obo:SO_0000054 obo:IAO_0000115 "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Aneuploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000054"^^xsd:string ; a owl:Class ; rdfs:label "aneuploid"^^xsd:string ; rdfs:subClassOf obo:SO_1000182 . obo:SO_0000055 obo:IAO_0000115 "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as extra chromosomes are present."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Hyperploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000055"^^xsd:string ; a owl:Class ; rdfs:label "hyperploid"^^xsd:string ; rdfs:subClassOf obo:SO_0000054 . obo:SO_0000056 obo:IAO_0000115 "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as some chromosomes are missing."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Hypoploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000056"^^xsd:string ; a owl:Class ; rdfs:label "hypoploid"^^xsd:string ; rdfs:subClassOf obo:SO_0000054 . obo:SO_0000057 obo:IAO_0000115 "A regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Operator_(biology)#Operator"^^xsd:string ; oboInOwl:hasExactSynonym "operator segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000057"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Moved to transcriptional_cis_regulatory_region (SO:0001055) from gene_group_regulatory_region (SO:0000752) on 11 Feb 2021 when SO:0000752 was merged into SO:0001055. See GitHub Issue #529."^^xsd:string ; rdfs:label "operator"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0000058 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "assortment-derived_aneuploid"^^xsd:string ; oboInOwl:id "SO:0000058"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_aneuploid"^^xsd:string ; owl:deprecated true . obo:SO_0000059 obo:IAO_0000115 "A binding site that, of a nucleotide molecule, that interacts selectively and non-covalently with polypeptide residues of a nuclease."^^xsd:string ; oboInOwl:hasExactSynonym "nuclease binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000059"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nuclease_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001654 . obo:SO_0000060 obo:IAO_0000115 "One arm of a compound chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "compound chromosome arm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000060"^^xsd:string ; a owl:Class ; rdfs:comment "FLAG - this term is should probably be a part of rather than an is_a."^^xsd:string ; rdfs:label "compound_chromosome_arm"^^xsd:string ; rdfs:subClassOf obo:SO_1000042 . obo:SO_0000061 obo:IAO_0000115 "A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a restriction enzyme."^^xsd:string ; oboInOwl:hasExactSynonym "restriction endonuclease binding site"^^xsd:string, "restriction enzyme binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000061"^^xsd:string ; a owl:Class ; rdfs:comment "A region of a molecule that binds to a restriction enzyme."^^xsd:string ; rdfs:label "restriction_enzyme_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000059 . obo:SO_0000062 obo:IAO_0000115 "An intrachromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining."^^xsd:string ; oboInOwl:hasExactSynonym "deficient intrachromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000062"^^xsd:string ; a owl:Class ; rdfs:label "deficient_intrachromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000029, obo:SO_1000041, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000159 ] . obo:SO_0000063 obo:IAO_0000115 "An interchromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining."^^xsd:string ; oboInOwl:hasExactSynonym "deficient interchromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000063"^^xsd:string ; a owl:Class ; rdfs:label "deficient_interchromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000155 . obo:SO_0000064 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000064"^^xsd:string ; a owl:Class ; rdfs:comment "This classes of attributes was added by MA to allow the broad description of genes based on qualities of the transcript(s). A product of SO meeting 2004."^^xsd:string ; rdfs:label "gene_by_transcript_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000065 obo:IAO_0000115 "A chromosome structure variation whereby an arm exists as an individual chromosome element."^^xsd:string ; oboInOwl:hasExactSynonym "free chromosome arm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000065"^^xsd:string ; a owl:Class ; rdfs:label "free_chromosome_arm"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_0000066 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000066"^^xsd:string ; a owl:Class ; rdfs:label "gene_by_polyadenylation_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000067 oboInOwl:hasExactSynonym "gene to gene feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000067"^^xsd:string ; a owl:Class ; rdfs:label "gene_to_gene_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000068 obo:IAO_0000115 "An attribute describing a gene that has a sequence that overlaps the sequence of another gene."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000068"^^xsd:string ; a owl:Class ; rdfs:label "overlapping"^^xsd:string ; rdfs:subClassOf obo:SO_0000067 . obo:SO_0000069 obo:IAO_0000115 "An attribute to describe a gene when it is located within the intron of another gene."^^xsd:string ; oboInOwl:hasExactSynonym "inside intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000069"^^xsd:string ; a owl:Class ; rdfs:label "inside_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000068 . obo:SO_0000070 obo:IAO_0000115 "An attribute to describe a gene when it is located within the intron of another gene and on the opposite strand."^^xsd:string ; oboInOwl:hasExactSynonym "inside intron antiparallel"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000070"^^xsd:string ; a owl:Class ; rdfs:label "inside_intron_antiparallel"^^xsd:string ; rdfs:subClassOf obo:SO_0000069 . obo:SO_0000071 obo:IAO_0000115 "An attribute to describe a gene when it is located within the intron of another gene and on the same strand."^^xsd:string ; oboInOwl:hasExactSynonym "inside intron parallel"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000071"^^xsd:string ; a owl:Class ; rdfs:label "inside_intron_parallel"^^xsd:string ; rdfs:subClassOf obo:SO_0000069 . obo:SO_0000072 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000072"^^xsd:string ; a owl:Class ; rdfs:label "end_overlapping_gene"^^xsd:string ; owl:deprecated true . obo:SO_0000073 obo:IAO_0000115 "An attribute to describe a gene when the five prime region overlaps with another gene's 3' region."^^xsd:string ; oboInOwl:hasExactSynonym "five prime-three prime overlap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000073"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_three_prime_overlap"^^xsd:string ; rdfs:subClassOf obo:SO_0000068 . obo:SO_0000074 obo:IAO_0000115 "An attribute to describe a gene when the five prime region overlaps with another gene's five prime region."^^xsd:string ; oboInOwl:hasExactSynonym "five prime-five prime overlap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000074"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_five_prime_overlap"^^xsd:string ; rdfs:subClassOf obo:SO_0000068 . obo:SO_0000075 obo:IAO_0000115 "An attribute to describe a gene when the 3' region overlaps with another gene's 3' region."^^xsd:string ; oboInOwl:hasExactSynonym "three prime-three prime overlap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000075"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_three_prime_overlap"^^xsd:string ; rdfs:subClassOf obo:SO_0000068 . obo:SO_0000076 obo:IAO_0000115 "An attribute to describe a gene when the 3' region overlaps with another gene's 5' region."^^xsd:string ; oboInOwl:hasExactSynonym "5' 3' overlap"^^xsd:string, "three prime five prime overlap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000076"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_five_prime_overlap"^^xsd:string ; rdfs:subClassOf obo:SO_0000068 . obo:SO_0000077 obo:IAO_0000115 "A region sequence that is complementary to a sequence of messenger RNA."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Antisense"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000077"^^xsd:string ; a owl:Class ; rdfs:label "antisense"^^xsd:string ; rdfs:subClassOf obo:SO_0000068 . obo:SO_0000078 obo:IAO_0000115 "A transcript that is polycistronic."^^xsd:string ; oboInOwl:hasExactSynonym "polycistronic transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000078"^^xsd:string ; a owl:Class ; rdfs:label "polycistronic_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000880 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000880 ] ) ] . obo:SO_0000079 obo:IAO_0000115 "A transcript that is dicistronic."^^xsd:string ; oboInOwl:hasExactSynonym "dicistronic transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000079"^^xsd:string ; a owl:Class ; rdfs:label "dicistronic_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000078, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000879 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000879 ] ) ] . obo:SO_0000080 obo:IAO_0000115 "A gene that is a member of an operon, which is a set of genes transcribed together as a unit."^^xsd:string ; oboInOwl:hasExactSynonym "operon member"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000080"^^xsd:string ; a owl:Class ; rdfs:label "operon_member"^^xsd:string ; rdfs:subClassOf obo:SO_0000081 . obo:SO_0000081 oboInOwl:hasExactSynonym "gene array member"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000081"^^xsd:string ; a owl:Class ; rdfs:label "gene_array_member"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000082 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000082"^^xsd:string ; a owl:Class ; rdfs:label "processed_transcript_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000083 obo:IAO_0000115 "DNA belonging to the macronuclei of ciliates."^^xsd:string ; oboInOwl:hasExactSynonym "macronuclear sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000083"^^xsd:string ; a owl:Class ; rdfs:label "macronuclear_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000736 . obo:SO_0000084 obo:IAO_0000115 "DNA belonging to the micronuclei of a cell."^^xsd:string ; oboInOwl:hasExactSynonym "micronuclear sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000084"^^xsd:string ; a owl:Class ; rdfs:label "micronuclear_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000736 . obo:SO_0000085 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000085"^^xsd:string ; a owl:Class ; rdfs:label "gene_by_genome_location"^^xsd:string ; owl:deprecated true . obo:SO_0000086 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000086"^^xsd:string ; a owl:Class ; rdfs:label "gene_by_organelle_of_genome"^^xsd:string ; owl:deprecated true . obo:SO_0000087 obo:IAO_0000115 "A gene from nuclear sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Nuclear_gene"^^xsd:string ; oboInOwl:hasExactSynonym "nuclear gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000087"^^xsd:string ; a owl:Class ; rdfs:label "nuclear_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000738 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000738 ] ) ] . obo:SO_0000088 obo:IAO_0000115 "A gene located in mitochondrial sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Mitochondrial_gene"^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial gene"^^xsd:string, "mt gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000088"^^xsd:string ; a owl:Class ; rdfs:label "mt_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] ) ] . obo:SO_0000089 obo:IAO_0000115 "A gene located in kinetoplast sequence."^^xsd:string ; oboInOwl:hasExactSynonym "kinetoplast gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000089"^^xsd:string ; a owl:Class ; rdfs:label "kinetoplast_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000088, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000741 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000088 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000741 ] ) ] . obo:SO_0000090 obo:IAO_0000115 "A gene from plastid sequence."^^xsd:string ; oboInOwl:hasExactSynonym "plastid gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000090"^^xsd:string ; a owl:Class ; rdfs:label "plastid_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000740 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000740 ] ) ] . obo:SO_0000091 obo:IAO_0000115 "A gene from apicoplast sequence."^^xsd:string ; oboInOwl:hasExactSynonym "apicoplast gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000091"^^xsd:string ; a owl:Class ; rdfs:label "apicoplast_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000090, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000743 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000090 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000743 ] ) ] . obo:SO_0000092 obo:IAO_0000115 "A gene from chloroplast sequence."^^xsd:string ; oboInOwl:hasExactSynonym "chloroplast gene"^^xsd:string, "ct gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000092"^^xsd:string ; a owl:Class ; rdfs:label "ct_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000090, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000745 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000090 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000745 ] ) ] . obo:SO_0000093 obo:IAO_0000115 "A gene from chromoplast_sequence."^^xsd:string ; oboInOwl:hasExactSynonym "chromoplast gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000093"^^xsd:string ; a owl:Class ; rdfs:label "chromoplast_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000090, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000744 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000090 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000744 ] ) ] . obo:SO_0000094 obo:IAO_0000115 "A gene from cyanelle sequence."^^xsd:string ; oboInOwl:hasExactSynonym "cyanelle gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000094"^^xsd:string ; a owl:Class ; rdfs:label "cyanelle_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000090, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000746 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000090 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000746 ] ) ] . obo:SO_0000095 obo:IAO_0000115 "A plastid gene from leucoplast sequence."^^xsd:string ; oboInOwl:hasExactSynonym "leucoplast gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000095"^^xsd:string ; a owl:Class ; rdfs:label "leucoplast_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000090, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000747 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000090 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000747 ] ) ] . obo:SO_0000096 obo:IAO_0000115 "A gene from proplastid sequence."^^xsd:string ; oboInOwl:hasExactSynonym "proplastid gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000096"^^xsd:string ; a owl:Class ; rdfs:label "proplastid_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000090, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000748 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000090 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000748 ] ) ] . obo:SO_0000097 obo:IAO_0000115 "A gene from nucleomorph sequence."^^xsd:string ; oboInOwl:hasExactSynonym "nucleomorph gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000097"^^xsd:string ; a owl:Class ; rdfs:label "nucleomorph_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000739 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000739 ] ) ] . obo:SO_0000098 obo:IAO_0000115 "A gene from plasmid sequence."^^xsd:string ; oboInOwl:hasExactSynonym "plasmid gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000098"^^xsd:string ; a owl:Class ; rdfs:label "plasmid_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000749 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000749 ] ) ] . obo:SO_0000099 obo:IAO_0000115 "A gene from proviral sequence."^^xsd:string ; oboInOwl:hasExactSynonym "proviral gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000099"^^xsd:string ; a owl:Class ; rdfs:label "proviral_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000751 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000751 ] ) ] . obo:SO_0000100 obo:IAO_0000115 "A proviral gene with origin endogenous retrovirus."^^xsd:string ; oboInOwl:hasExactSynonym "endogenous retroviral gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000100"^^xsd:string ; a owl:Class ; rdfs:label "endogenous_retroviral_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000099, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000903 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000099 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000903 ] ) ] . obo:SO_0000101 obo:IAO_0000115 "A transposon or insertion sequence. An element that can insert in a variety of DNA sequences."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Transposable_element"^^xsd:string ; oboInOwl:hasExactSynonym "transposable element"^^xsd:string, "transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000101"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "transposable_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001039 . obo:SO_0000102 obo:IAO_0000115 "A match to an EST or cDNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "expressed sequence match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000102"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "expressed_sequence_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000347 . obo:SO_0000103 obo:IAO_0000115 "The end of the clone insert."^^xsd:string ; oboInOwl:hasExactSynonym "clone insert end"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000103"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "clone_insert_end"^^xsd:string ; rdfs:subClassOf obo:SO_0000699, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000753 ] . obo:SO_0000104 obo:IAO_0000115 "A sequence of amino acids linked by peptide bonds which may lack appreciable tertiary structure and may not be liable to irreversible denaturation."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000358"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Polypeptide"^^xsd:string ; oboInOwl:hasExactSynonym "protein"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000104"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology. The term 'protein' was merged with 'polypeptide'. Although 'protein' was a sequence_attribute and therefore meant to describe the quality rather than an actual feature, it was being used erroneously. It is replaced by 'peptidyl' as the polymer attribute."^^xsd:string ; rdfs:label "polypeptide"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000316 ] . obo:SO_0000105 obo:IAO_0000115 "A region of the chromosome between the centromere and the telomere. Human chromosomes have two arms, the p arm (short) and the q arm (long) which are separated from each other by the centromere."^^xsd:string ; oboInOwl:hasExactSynonym "chromosome arm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000105"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_arm"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0000106 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000106"^^xsd:string ; a owl:Class ; rdfs:label "non_capped_primary_transcript"^^xsd:string ; owl:deprecated true . obo:SO_0000107 obo:IAO_0000115 "A single stranded oligo used for polymerase chain reaction."^^xsd:string ; oboInOwl:hasExactSynonym "sequencing primer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000107"^^xsd:string ; a owl:Class ; rdfs:label "sequencing_primer"^^xsd:string ; rdfs:subClassOf obo:SO_0000112 . obo:SO_0000108 obo:IAO_0000115 "An mRNA with a frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "frameshifted mRNA"^^xsd:string, "mRNA with frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000108"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_with_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000865 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000865 ] ) ] . obo:SO_0000109 obo:IAO_0000115 "A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation"^^xsd:string ; oboInOwl:id "SO:0000109"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "sequence_variant_obs"^^xsd:string ; owl:deprecated true . obo:SO_0000110 obo:IAO_0000115 "Any extent of continuous biological sequence."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:misc_feature"^^xsd:string, "INSDC_note:other"^^xsd:string, "INSDC_note:sequence_feature"^^xsd:string, "located_sequence_feature"^^xsd:string, "sequence feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "located sequence feature"^^xsd:string ; oboInOwl:id "SO:0000110"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "sequence_feature"^^xsd:string ; owl:disjointWith obo:SO_0000400 . obo:SO_0000111 obo:IAO_0000115 "A gene encoded within a transposable element. For example gag, int, env and pol are the transposable element genes of the TY element in yeast."^^xsd:string ; oboInOwl:hasExactSynonym "transposable element gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000111"^^xsd:string ; a owl:Class ; rdfs:label "transposable_element_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000101 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000101 ] ) ] . obo:SO_0000112 obo:IAO_0000115 "An oligo to which new deoxyribonucleotides can be added by DNA polymerase."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Primer_(molecular_biology)"^^xsd:string ; oboInOwl:hasExactSynonym "DNA primer"^^xsd:string, "primer oligonucleotide"^^xsd:string, "primer polynucleotide"^^xsd:string, "primer sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000112"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "primer"^^xsd:string ; rdfs:subClassOf obo:SO_0000441 . obo:SO_0000113 obo:IAO_0000115 "A viral sequence which has integrated into a host genome."^^xsd:string ; oboInOwl:hasExactSynonym "proviral region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "proviral sequence"^^xsd:string ; oboInOwl:id "SO:0000113"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "proviral_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001039 . obo:SO_0000114 obo:IAO_0000115 "A methylated deoxy-cytosine."^^xsd:string ; oboInOwl:hasExactSynonym "methylated C"^^xsd:string, "methylated cytosine"^^xsd:string, "methylated cytosine base"^^xsd:string, "methylated cytosine residue"^^xsd:string, "methylated_C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000114"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "methylated_cytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000306, obo:SO_0001963 . obo:SO_0000115 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000115"^^xsd:string ; a owl:Class ; rdfs:label "transcript_feature"^^xsd:string ; owl:deprecated true . obo:SO_0000116 obo:IAO_0000115 "An attribute describing a sequence that is modified by editing."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000116"^^xsd:string ; a owl:Class ; rdfs:label "edited"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000117 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000117"^^xsd:string ; a owl:Class ; rdfs:label "transcript_with_readthrough_stop_codon"^^xsd:string ; owl:deprecated true . obo:SO_0000118 obo:IAO_0000115 "A transcript with a translational frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "transcript with translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000118"^^xsd:string ; a owl:Class ; rdfs:label "transcript_with_translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000887 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000887 ] ) ] . obo:SO_0000119 obo:IAO_0000115 "An attribute to describe a sequence that is regulated."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000119"^^xsd:string ; a owl:Class ; rdfs:label "regulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000120 obo:IAO_0000115 "A primary transcript that, at least in part, encodes one or more proteins."^^xsd:string ; oboInOwl:hasExactSynonym "protein coding primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "pre mRNA"^^xsd:string ; oboInOwl:id "SO:0000120"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "May contain introns."^^xsd:string ; rdfs:label "protein_coding_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000185 . obo:SO_0000121 obo:IAO_0000115 "A single stranded oligo used for polymerase chain reaction."^^xsd:string ; oboInOwl:hasExactSynonym "DNA forward primer"^^xsd:string, "forward DNA primer"^^xsd:string, "forward primer"^^xsd:string, "forward primer oligo"^^xsd:string, "forward primer oligonucleotide"^^xsd:string, "forward primer polynucleotide"^^xsd:string, "forward primer sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000121"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "forward_primer"^^xsd:string ; rdfs:subClassOf obo:SO_0000112, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001030 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000112 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001030 ] ) ] . obo:SO_0000122 obo:IAO_0000115 "A folded RNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "RNA sequence secondary structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000122"^^xsd:string ; a owl:Class ; rdfs:label "RNA_sequence_secondary_structure"^^xsd:string ; rdfs:subClassOf obo:SO_0000002 . obo:SO_0000123 obo:IAO_0000115 "An attribute describing a gene that is regulated at transcription."^^xsd:string ; oboInOwl:hasExactSynonym "transcriptionally regulated"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000123"^^xsd:string ; a owl:Class ; rdfs:comment "By:."^^xsd:string ; rdfs:label "transcriptionally_regulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000119 . obo:SO_0000124 obo:IAO_0000115 "Expressed in relatively constant amounts without regard to cellular environmental conditions such as the concentration of a particular substrate."^^xsd:string ; oboInOwl:hasExactSynonym "transcriptionally constitutive"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000124"^^xsd:string ; a owl:Class ; rdfs:label "transcriptionally_constitutive"^^xsd:string ; rdfs:subClassOf obo:SO_0000123 . obo:SO_0000125 obo:IAO_0000115 "An inducer molecule is required for transcription to occur."^^xsd:string ; oboInOwl:hasExactSynonym "transcriptionally induced"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000125"^^xsd:string ; a owl:Class ; rdfs:label "transcriptionally_induced"^^xsd:string ; rdfs:subClassOf obo:SO_0000123 . obo:SO_0000126 obo:IAO_0000115 "A repressor molecule is required for transcription to stop."^^xsd:string ; oboInOwl:hasExactSynonym "transcriptionally repressed"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000126"^^xsd:string ; a owl:Class ; rdfs:label "transcriptionally_repressed"^^xsd:string ; rdfs:subClassOf obo:SO_0000123 . obo:SO_0000127 obo:IAO_0000115 "A gene that is silenced."^^xsd:string ; oboInOwl:hasExactSynonym "silenced gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000127"^^xsd:string ; a owl:Class ; rdfs:label "silenced_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000893 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000893 ] ) ] . obo:SO_0000128 obo:IAO_0000115 "A gene that is silenced by DNA modification."^^xsd:string ; oboInOwl:hasExactSynonym "gene silenced by DNA modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000128"^^xsd:string ; a owl:Class ; rdfs:label "gene_silenced_by_DNA_modification"^^xsd:string ; rdfs:subClassOf obo:SO_0000127, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000894 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000894 ] ) ] . obo:SO_0000129 obo:IAO_0000115 "A gene that is silenced by DNA methylation."^^xsd:string ; oboInOwl:hasExactSynonym "gene silenced by DNA methylation"^^xsd:string, "methylation-silenced gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000129"^^xsd:string ; a owl:Class ; rdfs:label "gene_silenced_by_DNA_methylation"^^xsd:string ; rdfs:subClassOf obo:SO_0000128, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000895 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000128 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000895 ] ) ] . obo:SO_0000130 obo:IAO_0000115 "An attribute describing a gene that is regulated after it has been translated."^^xsd:string ; oboInOwl:hasExactSynonym "post translationally regulated"^^xsd:string, "post-translationally regulated"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000130"^^xsd:string ; a owl:Class ; rdfs:label "post_translationally_regulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000119 . obo:SO_0000131 obo:IAO_0000115 "An attribute describing a gene that is regulated as it is translated."^^xsd:string ; oboInOwl:hasExactSynonym "translationally regulated"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000131"^^xsd:string ; a owl:Class ; rdfs:label "translationally_regulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000119 . obo:SO_0000132 obo:IAO_0000115 "A single stranded oligo used for polymerase chain reaction."^^xsd:string ; oboInOwl:hasExactSynonym "DNA reverse primer"^^xsd:string, "reverse DNA primer"^^xsd:string, "reverse primer"^^xsd:string, "reverse primer oligo"^^xsd:string, "reverse primer oligonucleotide"^^xsd:string, "reverse primer sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000132"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "reverse_primer"^^xsd:string ; rdfs:subClassOf obo:SO_0000112, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001031 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000112 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001031 ] ) ] . obo:SO_0000133 obo:IAO_0000115 "This attribute describes a gene where heritable changes other than those in the DNA sequence occur. These changes include: modification to the DNA (such as DNA methylation, the covalent modification of cytosine), and post-translational modification of histones."^^xsd:string ; oboInOwl:hasExactSynonym "epigenetically modified"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000133"^^xsd:string ; a owl:Class ; rdfs:label "epigenetically_modified"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000134 obo:IAO_0000115 "Imprinted genes are epigenetically modified genes that are expressed monoallelically according to their parent of origin."^^xsd:string ; oboInOwl:hasBroadSynonym "imprinted"^^xsd:string ; oboInOwl:hasDbXref "http:http://en.wikipedia.org/wiki/Genomic_imprinting"^^xsd:string ; oboInOwl:hasExactSynonym "genomically imprinted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000134"^^xsd:string ; a owl:Class ; rdfs:label "genomically_imprinted"^^xsd:string ; rdfs:subClassOf obo:SO_0000119, obo:SO_0000133 . obo:SO_0000135 obo:IAO_0000115 "The maternal copy of the gene is modified, rendering it transcriptionally silent."^^xsd:string ; oboInOwl:hasExactSynonym "maternally imprinted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000135"^^xsd:string ; a owl:Class ; rdfs:label "maternally_imprinted"^^xsd:string ; rdfs:subClassOf obo:SO_0000134 . obo:SO_0000136 obo:IAO_0000115 "The paternal copy of the gene is modified, rendering it transcriptionally silent."^^xsd:string ; oboInOwl:hasExactSynonym "paternally imprinted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000136"^^xsd:string ; a owl:Class ; rdfs:label "paternally_imprinted"^^xsd:string ; rdfs:subClassOf obo:SO_0000134 . obo:SO_0000137 obo:IAO_0000115 "Allelic exclusion is a process occurring in diploid organisms, where a gene is inactivated and not expressed in that cell."^^xsd:string ; oboInOwl:hasExactSynonym "allelically excluded"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000137"^^xsd:string ; a owl:Class ; rdfs:comment "Examples are x-inactivation and immunoglobulin formation."^^xsd:string ; rdfs:label "allelically_excluded"^^xsd:string ; rdfs:subClassOf obo:SO_0000133 . obo:SO_0000138 obo:IAO_0000115 "An epigenetically modified gene, rearranged at the DNA level."^^xsd:string ; oboInOwl:hasExactSynonym "gene rearranged at DNA level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000138"^^xsd:string ; a owl:Class ; rdfs:label "gene_rearranged_at_DNA_level"^^xsd:string ; rdfs:subClassOf obo:SO_0000898, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000904 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000898 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000904 ] ) ] . obo:SO_0000139 obo:IAO_0000115 "Region in mRNA where ribosome assembles."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:ribosome_binding_site"^^xsd:string, "ribosome entry site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000139"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "ribosome_entry_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000836, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000204 ] . obo:SO_0000140 obo:IAO_0000115 "A sequence segment located within the five prime end of an mRNA that causes premature termination of translation."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Attenuator"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:attenuator"^^xsd:string, "attenuator sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000140"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "attenuator"^^xsd:string ; rdfs:subClassOf obo:SO_0001680, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000234 ] . obo:SO_0000141 obo:IAO_0000115 "The sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Terminator_(genetics)"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:terminator"^^xsd:string, "terminator sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000141"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "terminator"^^xsd:string ; rdfs:subClassOf obo:SO_0001055, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000673 ] . obo:SO_0000142 obo:IAO_0000115 "A folded DNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "DNA sequence secondary structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000142"^^xsd:string ; a owl:Class ; rdfs:label "DNA_sequence_secondary_structure"^^xsd:string ; rdfs:subClassOf obo:SO_0000002 . obo:SO_0000143 obo:IAO_0000115 "A region of known length which may be used to manufacture a longer region."^^xsd:string ; oboInOwl:hasExactSynonym "assembly component"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000143"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "assembly_component"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0000144 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000144"^^xsd:string ; a owl:Class ; rdfs:label "primary_transcript_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000145 obo:IAO_0000115 "A codon that has been redefined at translation. The redefinition may be as a result of translational bypass, translational frameshifting or stop codon readthrough."^^xsd:string ; oboInOwl:hasExactSynonym "recoded codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000145"^^xsd:string ; a owl:Class ; rdfs:label "recoded_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000360 . obo:SO_0000146 obo:IAO_0000115 "An attribute describing when a sequence, usually an mRNA is capped by the addition of a modified guanine nucleotide at the 5' end."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000146"^^xsd:string ; a owl:Class ; rdfs:label "capped"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000147 obo:IAO_0000115 "A region of the transcript sequence within a gene which is not removed from the primary RNA transcript by RNA splicing."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Exon"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000147"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000833 . obo:SO_0000148 obo:IAO_0000115 "One or more contigs that have been ordered and oriented using end-read information. Contains gaps that are filled with N's."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "scaffold"^^xsd:string ; oboInOwl:id "SO:0000148"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "supercontig"^^xsd:string ; rdfs:subClassOf obo:SO_0001876, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000719 ] . obo:SO_0000149 obo:IAO_0000115 "A contiguous sequence derived from sequence assembly. Has no gaps, but may contain N's from unavailable bases."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Contig"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000149"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "contig"^^xsd:string ; rdfs:subClassOf obo:SO_0000143, obo:SO_0000353, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000148 ] . obo:SO_0000150 obo:IAO_0000115 "A sequence obtained from a single sequencing experiment. Typically a read is produced when a base calling program interprets information from a chromatogram trace file produced from a sequencing machine."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000150"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "read"^^xsd:string ; rdfs:subClassOf obo:SO_0000143, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000149 ] . obo:SO_0000151 obo:IAO_0000115 "A piece of DNA that has been inserted in a vector so that it can be propagated in a host bacterium or some other organism."^^xsd:string ; oboInOwl:hasDbXref "http:http://en.wikipedia.org/wiki/Clone_(genetics)"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000151"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000695 . obo:SO_0000152 obo:IAO_0000115 "Yeast Artificial Chromosome, a vector constructed from the telomeric, centromeric, and replication origin sequences needed for replication in yeast cells."^^xsd:string ; oboInOwl:hasExactSynonym "yeast artificial chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000152"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "YAC"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000153 obo:IAO_0000115 "Bacterial Artificial Chromosome, a cloning vector that can be propagated as mini-chromosomes in a bacterial host."^^xsd:string ; oboInOwl:hasExactSynonym "bacterial artificial chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000153"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "BAC"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000154 obo:IAO_0000115 "The P1-derived artificial chromosome are DNA constructs that are derived from the DNA of P1 bacteriophage. They can carry large amounts (about 100-300 kilobases) of other sequences for a variety of bioengineering purposes. It is one type of vector used to clone DNA fragments (100- to 300-kb insert size; average, 150 kb) in Escherichia coli cells."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/P1-derived_artificial_chromosome"^^xsd:string ; oboInOwl:hasExactSynonym "P1"^^xsd:string, "P1 artificial chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000154"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology. Drosophila melanogaster PACs carry an average insert size of 80 kb. The library represents a 6-fold coverage of the genome."^^xsd:string ; rdfs:label "PAC"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000155 obo:IAO_0000115 "A self replicating, using the hosts cellular machinery, often circular nucleic acid molecule that is distinct from a chromosome in the organism."^^xsd:string ; oboInOwl:hasExactSynonym "plasmid sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000155"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0001235 . obo:SO_0000156 obo:IAO_0000115 "A cloning vector that is a hybrid of lambda phages and a plasmid that can be propagated as a plasmid or packaged as a phage,since they retain the lambda cos sites."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Cosmid"^^xsd:string ; oboInOwl:hasExactSynonym "cosmid vector"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000156"^^xsd:string ; a owl:Class ; rdfs:comment "Paper: vans GA et al. High efficiency vectors for cosmid microcloning and genomic analysis. Gene 1989; 79(1):9-20. This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "cosmid"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000157 obo:IAO_0000115 "A plasmid which carries within its sequence a bacteriophage replication origin. When the host bacterium is infected with \"helper\" phage, a phagemid is replicated along with the phage DNA and packaged into phage capsids."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Phagemid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "phagemid vector"^^xsd:string ; oboInOwl:id "SO:0000157"^^xsd:string ; a owl:Class ; rdfs:label "phagemid"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000158 obo:IAO_0000115 "A cloning vector that utilizes the E. coli F factor."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Fosmid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "fosmid vector"^^xsd:string ; oboInOwl:id "SO:0000158"^^xsd:string ; a owl:Class ; rdfs:comment "Birren BW et al. A human chromosome 22 fosmid resource: mapping and analysis of 96 clones. Genomics 1996."^^xsd:string ; rdfs:label "fosmid"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000159 obo:IAO_0000115 "The point at which one or more contiguous nucleotides were excised."^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000033"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Nucleotide_deletion"^^xsd:string, "loinc:LA6692-3"^^xsd:string ; oboInOwl:hasExactSynonym "deleted_sequence"^^xsd:string, "nucleotide deletion"^^xsd:string, "nucleotide_deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000159"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0001059, obo:SO_0001411 . obo:SO_0000160 obo:IAO_0000115 "A linear clone derived from lambda bacteriophage. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000160"^^xsd:string ; a owl:Class ; rdfs:label "lambda_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000161 obo:IAO_0000115 "A modified base in which adenine has been methylated."^^xsd:string ; oboInOwl:hasExactSynonym "methylated A"^^xsd:string, "methylated adenine"^^xsd:string, "methylated adenine base"^^xsd:string, "methylated adenine residue"^^xsd:string, "methylated_A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000161"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "methylated_adenine"^^xsd:string ; rdfs:subClassOf obo:SO_0000306, obo:SO_0001962 . obo:SO_0000162 obo:IAO_0000115 "Consensus region of primary transcript bordering junction of splicing. A region that overlaps exactly 2 base and adjacent_to splice_junction."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Splice_site"^^xsd:string ; oboInOwl:hasExactSynonym "splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000162"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "With spliceosomal introns, the splice sites bind the spliceosomal machinery."^^xsd:string ; rdfs:label "splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000835 . obo:SO_0000163 obo:IAO_0000115 "Intronic 2 bp region bordering the exon, at the 5' edge of the intron. A splice_site that is downstream_adjacent_to exon and starts intron."^^xsd:string ; oboInOwl:hasExactSynonym "5' splice site"^^xsd:string, "donor splice site"^^xsd:string, "five prime splice site"^^xsd:string, "splice donor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "donor"^^xsd:string ; oboInOwl:id "SO:0000163"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "five_prime_cis_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001419 . obo:SO_0000164 obo:IAO_0000115 "Intronic 2 bp region bordering the exon, at the 3' edge of the intron. A splice_site that is upstream_adjacent_to exon and finishes intron."^^xsd:string ; oboInOwl:hasExactSynonym "acceptor splice site"^^xsd:string, "splice acceptor site"^^xsd:string, "three prime splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' splice site"^^xsd:string, "acceptor"^^xsd:string ; oboInOwl:id "SO:0000164"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "three_prime_cis_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001419 . obo:SO_0000165 obo:IAO_0000115 "A cis-acting sequence that increases the utilization of (some) eukaryotic promoters, and can function in either orientation and in any location (upstream or downstream) relative to the promoter."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Enhancer_(genetics)"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:enhancer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000165"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "An enhancer may participate in an enhanceosome GO:0034206. A protein-DNA complex formed by the association of a distinct set of general and specific transcription factors with a region of enhancer DNA. The cooperative assembly of an enhanceosome confers specificity of transcriptional regulation. This comment is a place holder should we start to make cross products with GO."^^xsd:string ; rdfs:label "enhancer"^^xsd:string ; rdfs:subClassOf obo:SO_0000727 . obo:SO_0000166 obo:IAO_0000115 "An enhancer bound by a factor."^^xsd:string ; oboInOwl:hasExactSynonym "enhancer bound by factor"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000166"^^xsd:string ; a owl:Class ; rdfs:label "enhancer_bound_by_factor"^^xsd:string ; rdfs:subClassOf obo:SO_0000165, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000277 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000165 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000277 ] ) ] . obo:SO_0000167 obo:IAO_0000115 "A regulatory_region composed of the TSS(s) and binding sites for TF_complexes of the core transcription machinery. A region (DNA) to which RNA polymerase binds, to begin transcription."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Promoter"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:promoter"^^xsd:string, "promoter sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000167"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology. The region on a DNA molecule involved in RNA polymerase binding to initiate transcription. Moved from is_a: SO:0001055 transcriptional_cis_regulatory_region as per request from GREEKC initiative in August 2020. Merged with RNA_polymerase_promoter (SO:0001203) Aug 2020. Moved up one level from is_a CRM (SO:0000727) to is_a transcriptional_cis_regulatory_region (SO:0001055) as part of the GREEKC work January 2021. Pascale Gaudet from Gene Ontology pointed out that CRM can be located upstream of the promoter and therefore cannot include the promoter."^^xsd:string ; rdfs:label "promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000842, obo:SO_0001055 . obo:SO_0000168 obo:IAO_0000115 "A specific nucleotide sequence of DNA at or near which a particular restriction enzyme cuts the DNA."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000168"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_cut_site"^^xsd:string ; owl:deprecated true . obo:SO_0000169 obo:IAO_0000115 "A DNA sequence in eukaryotic DNA to which RNA polymerase I binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "RNA polymerase A promoter"^^xsd:string, "RNApol I promoter"^^xsd:string, "pol I promoter"^^xsd:string, "polymerase I promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000169"^^xsd:string ; a owl:Class ; rdfs:comment "parent term RNA_polymerase_promoter SO:0001203 was obsoleted in Aug 2020, so term has been moved to eukaryotic_promoter SO:0002221."^^xsd:string ; rdfs:label "RNApol_I_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0002221 . obo:SO_0000170 obo:IAO_0000115 "A DNA sequence in eukaryotic DNA to which RNA polymerase II binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "RNA polymerase B promoter"^^xsd:string, "RNApol II promoter"^^xsd:string, "polymerase II promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "pol II promoter"^^xsd:string ; oboInOwl:id "SO:0000170"^^xsd:string ; a owl:Class ; rdfs:comment "parent term RNA_polymerase_promoter SO:0001203 was obsoleted in Aug 2020, so term has been moved to eukaryotic_promoter SO:0002221."^^xsd:string ; rdfs:label "RNApol_II_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0002221 . obo:SO_0000171 obo:IAO_0000115 "A DNA sequence in eukaryotic DNA to which RNA polymerase III binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "RNA polymerase C promoter"^^xsd:string, "RNApol III promoter"^^xsd:string, "pol III promoter"^^xsd:string, "polymerase III promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000171"^^xsd:string ; a owl:Class ; rdfs:comment "parent term RNA_polymerase_promoter SO:0001203 was obsoleted in Aug 2020, so term has been moved to eukaryotic_promoter SO:0002221."^^xsd:string ; rdfs:label "RNApol_III_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0002221 . obo:SO_0000172 obo:IAO_0000115 "Part of a conserved sequence located about 75-bp upstream of the start point of eukaryotic transcription units which may be involved in RNA polymerase binding; consensus=GG(C|T)CAATCT."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/CAAT_box"^^xsd:string ; oboInOwl:hasExactSynonym "CAAT box"^^xsd:string, "CAAT signal"^^xsd:string, "CAAT-box"^^xsd:string, "INSDC_qualifier:CAAT_signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000172"^^xsd:string ; a owl:Class ; rdfs:label "CAAT_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0000173 obo:IAO_0000115 "A conserved GC-rich region located upstream of the start point of eukaryotic transcription units which may occur in multiple copies or in either orientation; consensus=GGGCGG."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "GC rich promoter region"^^xsd:string, "GC-rich region"^^xsd:string, "INSDC_qualifier:GC_rich_promoter_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000173"^^xsd:string ; a owl:Class ; rdfs:label "GC_rich_promoter_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0000174 obo:IAO_0000115 "A conserved AT-rich septamer found about 25-bp before the start point of many eukaryotic RNA polymerase II transcript units; may be involved in positioning the enzyme for correct initiation; consensus=TATA(A|T)A(A|T)."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/TATA_box"^^xsd:string ; oboInOwl:hasExactSynonym "Goldstein-Hogness box"^^xsd:string, "INSDC_qualifier:TATA_box"^^xsd:string, "TATA box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000174"^^xsd:string ; a owl:Class ; rdfs:comment "Binds TBP."^^xsd:string ; rdfs:label "TATA_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001660 . obo:SO_0000175 obo:IAO_0000115 "A conserved region about 10-bp upstream of the start point of bacterial transcription units which may be involved in binding RNA polymerase; consensus=TAtAaT. This region is associated with sigma factor 70."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Pribnow_box"^^xsd:string ; oboInOwl:hasExactSynonym "-10 signal"^^xsd:string, "INSDC_qualifier:minus_10_signal"^^xsd:string, "Pribnow Schaller box"^^xsd:string, "Pribnow box"^^xsd:string, "Pribnow-Schaller box"^^xsd:string, "minus 10 signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000175"^^xsd:string ; a owl:Class ; rdfs:comment "Changed from is_a SO:0000713 DNA_motif to is_a SO:0002312 core_prokaryotic_promoter_element in response to GREEKC Initiative Dave Sant Aug 2020. Changed from is_a SO:0002312 core_prokaryotic_promoter_element back to is_a SO:0000713 DNA_motif to be consistent with minus_12_signal and minus_24_signal on 12 July 2021."^^xsd:string ; rdfs:label "minus_10_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001671 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001913 ] . obo:SO_0000176 obo:IAO_0000115 "A conserved hexamer about 35-bp upstream of the start point of bacterial transcription units; consensus=TTGACa or TGTTGACA. This region is associated with sigma factor 70."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "-35 signal"^^xsd:string, "INSDC_qualifier:minus_35_signal"^^xsd:string, "minus 35 signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000176"^^xsd:string ; a owl:Class ; rdfs:comment "Changed from is_a SO:0000713 DNA_motif to is_a SO:0002312 core_prokaryotic_promoter_element in response to GREEKC Initiative Dave Sant Aug 2020. Changed from is_a SO:0002312 core_prokaryotic_promoter_element back to is_a SO:0000713 DNA_motif to be consistent with minus_12_signal and minus_24_signal on 12 July 2021."^^xsd:string ; rdfs:label "minus_35_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001671 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001913 ] . obo:SO_0000177 obo:IAO_0000115 "A nucleotide match against a sequence from another organism."^^xsd:string ; oboInOwl:hasExactSynonym "cross genome match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000177"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "cross_genome_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000347 . obo:SO_0000178 obo:IAO_0000115 "The DNA region of a group of adjacent genes whose transcription is coordinated on one or several mutually overlapping transcription units transcribed in the same direction and sharing at least one gene."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Operon"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:operon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000178"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology. Definition updated with per Mejia-Almonte et.al Redefining fundamental concepts of transcription initiation in prokaryotes Aug 5 2020."^^xsd:string ; rdfs:label "operon"^^xsd:string ; rdfs:subClassOf obo:SO_0005855 . obo:SO_0000179 obo:IAO_0000115 "The start of the clone insert."^^xsd:string ; oboInOwl:hasExactSynonym "clone insert start"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000179"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "clone_insert_start"^^xsd:string ; rdfs:subClassOf obo:SO_0000699, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000753 ] . obo:SO_0000180 obo:IAO_0000115 "A transposable element that is incorporated into a chromosome by a mechanism that requires reverse transcriptase."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Retrotransposon"^^xsd:string ; oboInOwl:hasExactSynonym "class I transposon"^^xsd:string, "retrotransposon element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "class I"^^xsd:string ; oboInOwl:id "SO:0000180"^^xsd:string ; a owl:Class ; rdfs:label "retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000101 . obo:SO_0000181 obo:IAO_0000115 "A match against a translated sequence."^^xsd:string ; oboInOwl:hasExactSynonym "translated nucleotide match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000181"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "translated_nucleotide_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000347 . obo:SO_0000182 obo:IAO_0000115 "A transposon where the mechanism of transposition is via a DNA intermediate."^^xsd:string ; oboInOwl:hasExactSynonym "DNA transposon"^^xsd:string, "class II transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "class II"^^xsd:string ; oboInOwl:id "SO:0000182"^^xsd:string ; a owl:Class ; rdfs:label "DNA_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000101 . obo:SO_0000183 obo:IAO_0000115 "A region of the gene which is not transcribed."^^xsd:string ; oboInOwl:hasExactSynonym "non transcribed region"^^xsd:string, "non-transcribed sequence"^^xsd:string, "nontranscribed region"^^xsd:string, "nontranscribed sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000183"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "non_transcribed_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000842 . obo:SO_0000184 obo:IAO_0000115 "A major type of spliceosomal intron spliced by the U2 spliceosome, that includes U1, U2, U4/U6 and U5 snRNAs."^^xsd:string ; oboInOwl:hasExactSynonym "U2 intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000184"^^xsd:string ; a owl:Class ; rdfs:comment "May have either GT-AG or AT-AG 5' and 3' boundaries."^^xsd:string ; rdfs:label "U2_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000662 . obo:SO_0000185 obo:IAO_0000115 "A transcript that in its initial state requires modification to be functional."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Primary_transcript"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:precursor_RNA"^^xsd:string, "INSDC_feature:prim_transcript"^^xsd:string, "precursor RNA"^^xsd:string, "primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000185"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673 . obo:SO_0000186 obo:IAO_0000115 "A retrotransposon flanked by long terminal repeat sequences."^^xsd:string ; oboInOwl:hasExactSynonym "LTR retrotransposon"^^xsd:string, "long terminal repeat retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000186"^^xsd:string ; a owl:Class ; rdfs:label "LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000180 . obo:SO_0000187 obo:IAO_0000115 "A group of characterized repeat sequences."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000187"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "repeat_family"^^xsd:string ; owl:deprecated true . obo:SO_0000188 obo:IAO_0000115 "A region of a primary transcript that is transcribed, but removed from within the transcript by splicing together the sequences (exons) on either side of it."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Intron"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000188"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000835 . obo:SO_0000189 obo:IAO_0000115 "A retrotransposon without long terminal repeat sequences."^^xsd:string ; oboInOwl:hasExactSynonym "non LTR retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000189"^^xsd:string ; a owl:Class ; rdfs:label "non_LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000180 . obo:SO_0000190 obo:IAO_0000115 "An intron that is the most 5-prime in a given transcript."^^xsd:string ; oboInOwl:hasExactSynonym "5' intron"^^xsd:string, "5' intron sequence"^^xsd:string, "five prime intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000190"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0000191 obo:IAO_0000115 "An intron that is not the most 3-prime or the most 5-prime in a given transcript."^^xsd:string ; oboInOwl:hasExactSynonym "interior intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000191"^^xsd:string ; a owl:Class ; rdfs:label "interior_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0000192 obo:IAO_0000115 "An intron that is the most 3-prime in a given transcript."^^xsd:string ; oboInOwl:hasExactSynonym "3' intron"^^xsd:string, "three prime intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' intron sequence"^^xsd:string ; oboInOwl:id "SO:0000192"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0000193 obo:IAO_0000115 "A DNA fragment used as a reagent to detect the polymorphic genomic loci by hybridizing against the genomic DNA digested with a given restriction enzyme."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Restriction_fragment_length_polymorphism"^^xsd:string ; oboInOwl:hasExactSynonym "RFLP"^^xsd:string, "RFLP fragment"^^xsd:string, "restriction fragment length polymorphism"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000193"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "RFLP_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000412 . obo:SO_0000194 obo:IAO_0000115 "A dispersed repeat family with many copies, each from 1 to 6 kb long. New elements are generated by retroposition of a transcribed copy. Typically the LINE contains 2 ORF's one of which is reverse transcriptase, and 3'and 5' direct repeats."^^xsd:string ; oboInOwl:hasExactSynonym "LINE"^^xsd:string, "LINE element"^^xsd:string, "Long interspersed element"^^xsd:string, "Long interspersed nuclear element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000194"^^xsd:string ; a owl:Class ; rdfs:label "LINE_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000189 . obo:SO_0000195 obo:IAO_0000115 "An exon whereby at least one base is part of a codon (here, 'codon' is inclusive of the stop_codon)."^^xsd:string ; oboInOwl:hasExactSynonym "coding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000195"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "coding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000147 . obo:SO_0000196 obo:IAO_0000115 "The sequence of the five_prime_coding_exon that codes for protein."^^xsd:string ; oboInOwl:hasExactSynonym "five prime exon coding region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000196"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "five_prime_coding_exon_coding_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001215, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000200 ] . obo:SO_0000197 obo:IAO_0000115 "The sequence of the three_prime_coding_exon that codes for protein."^^xsd:string ; oboInOwl:hasExactSynonym "three prime exon coding region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000197"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "three_prime_coding_exon_coding_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001215, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000202 ] . obo:SO_0000198 obo:IAO_0000115 "An exon that does not contain any codons."^^xsd:string ; oboInOwl:hasExactSynonym "noncoding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000198"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "noncoding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000147 . obo:SO_0000199 obo:IAO_0000115 "A region of nucleotide sequence that has translocated to a new position. The observed adjacency of two previously separated regions."^^xsd:string ; oboInOwl:hasExactSynonym "translocated sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "transchr"^^xsd:string ; oboInOwl:id "SO:0000199"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0001785 . obo:SO_0000200 obo:IAO_0000115 "The 5' most coding exon."^^xsd:string ; oboInOwl:hasExactSynonym "5' coding exon"^^xsd:string, "five prime coding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000200"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "five_prime_coding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000195 . obo:SO_0000201 obo:IAO_0000115 "An exon that is bounded by 5' and 3' splice sites."^^xsd:string ; oboInOwl:hasExactSynonym "interior exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000201"^^xsd:string ; a owl:Class ; rdfs:label "interior_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000147 . obo:SO_0000202 obo:IAO_0000115 "The coding exon that is most 3-prime on a given transcript."^^xsd:string ; oboInOwl:hasExactSynonym "three prime coding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' coding exon"^^xsd:string ; oboInOwl:id "SO:0000202"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_coding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000195 . obo:SO_0000203 obo:IAO_0000115 "Messenger RNA sequences that are untranslated and lie five prime or three prime to sequences which are translated."^^xsd:string ; oboInOwl:hasExactSynonym "untranslated region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000203"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "UTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000836 . obo:SO_0000204 obo:IAO_0000115 "A region at the 5' end of a mature transcript (preceding the initiation codon) that is not translated into a protein."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/5'_UTR"^^xsd:string ; oboInOwl:hasExactSynonym "5' UTR"^^xsd:string, "INSDC_feature:5'UTR"^^xsd:string, "five prime UTR"^^xsd:string, "five_prime_untranslated_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000204"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "five_prime_UTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000203 . obo:SO_0000205 obo:IAO_0000115 "A region at the 3' end of a mature transcript (following the stop codon) that is not translated into a protein."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Three_prime_untranslated_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:3'UTR"^^xsd:string, "three prime UTR"^^xsd:string, "three prime untranslated region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000205"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "three_prime_UTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000203 . obo:SO_0000206 obo:IAO_0000115 "A repetitive element, a few hundred base pairs long, that is dispersed throughout the genome. A common human SINE is the Alu element."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Short_interspersed_nuclear_element"^^xsd:string ; oboInOwl:hasExactSynonym "SINE element"^^xsd:string, "Short interspersed element"^^xsd:string, "Short interspersed nuclear element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000206"^^xsd:string ; a owl:Class ; rdfs:label "SINE_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000189 . obo:SO_0000207 obo:IAO_0000115 "SSLP are a kind of sequence alteration where the number of repeated sequences in intergenic regions may differ."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Simple_sequence_length_polymorphism"^^xsd:string ; oboInOwl:hasExactSynonym "simple sequence length variation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "SSLP"^^xsd:string, "simple sequence length polymorphism"^^xsd:string ; oboInOwl:id "SO:0000207"^^xsd:string ; a owl:Class ; rdfs:label "simple_sequence_length_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0000248 . obo:SO_0000208 obo:IAO_0000115 "A DNA transposable element defined as having termini with perfect, or nearly perfect short inverted repeats, generally 10 - 40 nucleotides long."^^xsd:string ; oboInOwl:hasExactSynonym "TIR element"^^xsd:string, "terminal inverted repeat element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000208"^^xsd:string ; a owl:Class ; rdfs:label "terminal_inverted_repeat_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000182 . obo:SO_0000209 obo:IAO_0000115 "A primary transcript encoding a ribosomal RNA."^^xsd:string ; oboInOwl:hasExactSynonym "rRNA primary transcript"^^xsd:string, "ribosomal RNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000209"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "rRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000210 obo:IAO_0000115 "A primary transcript encoding a transfer RNA (SO:0000253)."^^xsd:string ; oboInOwl:hasExactSynonym "tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000210"^^xsd:string ; a owl:Class ; rdfs:label "tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000211 obo:IAO_0000115 "A primary transcript encoding alanyl tRNA."^^xsd:string ; oboInOwl:hasExactSynonym "alanine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000211"^^xsd:string ; a owl:Class ; rdfs:label "alanine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000212 obo:IAO_0000115 "A primary transcript encoding arginyl tRNA (SO:0000255)."^^xsd:string ; oboInOwl:hasExactSynonym "arginine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000212"^^xsd:string ; a owl:Class ; rdfs:label "arginine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000213 obo:IAO_0000115 "A primary transcript encoding asparaginyl tRNA (SO:0000256)."^^xsd:string ; oboInOwl:hasExactSynonym "asparagine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000213"^^xsd:string ; a owl:Class ; rdfs:label "asparagine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000214 obo:IAO_0000115 "A primary transcript encoding aspartyl tRNA (SO:0000257)."^^xsd:string ; oboInOwl:hasExactSynonym "aspartic acid tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000214"^^xsd:string ; a owl:Class ; rdfs:label "aspartic_acid_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000215 obo:IAO_0000115 "A primary transcript encoding cysteinyl tRNA (SO:0000258)."^^xsd:string ; oboInOwl:hasExactSynonym "cysteine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000215"^^xsd:string ; a owl:Class ; rdfs:label "cysteine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000216 obo:IAO_0000115 "A primary transcript encoding glutaminyl tRNA (SO:0000260)."^^xsd:string ; oboInOwl:hasExactSynonym "glutamic acid tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000216"^^xsd:string ; a owl:Class ; rdfs:label "glutamic_acid_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000217 obo:IAO_0000115 "A primary transcript encoding glutamyl tRNA (SO:0000260)."^^xsd:string ; oboInOwl:hasExactSynonym "glutamine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000217"^^xsd:string ; a owl:Class ; rdfs:label "glutamine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000218 obo:IAO_0000115 "A primary transcript encoding glycyl tRNA (SO:0000263)."^^xsd:string ; oboInOwl:hasExactSynonym "glycine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000218"^^xsd:string ; a owl:Class ; rdfs:label "glycine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000219 obo:IAO_0000115 "A primary transcript encoding histidyl tRNA (SO:0000262)."^^xsd:string ; oboInOwl:hasExactSynonym "histidine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000219"^^xsd:string ; a owl:Class ; rdfs:label "histidine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000220 obo:IAO_0000115 "A primary transcript encoding isoleucyl tRNA (SO:0000263)."^^xsd:string ; oboInOwl:hasExactSynonym "isoleucine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000220"^^xsd:string ; a owl:Class ; rdfs:label "isoleucine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000221 obo:IAO_0000115 "A primary transcript encoding leucyl tRNA (SO:0000264)."^^xsd:string ; oboInOwl:hasExactSynonym "leucine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000221"^^xsd:string ; a owl:Class ; rdfs:label "leucine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000222 obo:IAO_0000115 "A primary transcript encoding lysyl tRNA (SO:0000265)."^^xsd:string ; oboInOwl:hasExactSynonym "lysine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000222"^^xsd:string ; a owl:Class ; rdfs:label "lysine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000223 obo:IAO_0000115 "A primary transcript encoding methionyl tRNA (SO:0000266)."^^xsd:string ; oboInOwl:hasExactSynonym "methionine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000223"^^xsd:string ; a owl:Class ; rdfs:label "methionine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000224 obo:IAO_0000115 "A primary transcript encoding phenylalanyl tRNA (SO:0000267)."^^xsd:string ; oboInOwl:hasExactSynonym "phenylalanine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000224"^^xsd:string ; a owl:Class ; rdfs:label "phenylalanine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000225 obo:IAO_0000115 "A primary transcript encoding prolyl tRNA (SO:0000268)."^^xsd:string ; oboInOwl:hasExactSynonym "proline tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000225"^^xsd:string ; a owl:Class ; rdfs:label "proline_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000226 obo:IAO_0000115 "A primary transcript encoding seryl tRNA (SO:000269)."^^xsd:string ; oboInOwl:hasExactSynonym "serine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000226"^^xsd:string ; a owl:Class ; rdfs:label "serine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000227 obo:IAO_0000115 "A primary transcript encoding threonyl tRNA (SO:000270)."^^xsd:string ; oboInOwl:hasExactSynonym "threonine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000227"^^xsd:string ; a owl:Class ; rdfs:label "threonine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000228 obo:IAO_0000115 "A primary transcript encoding tryptophanyl tRNA (SO:000271)."^^xsd:string ; oboInOwl:hasExactSynonym "tryptophan tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000228"^^xsd:string ; a owl:Class ; rdfs:label "tryptophan_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000229 obo:IAO_0000115 "A primary transcript encoding tyrosyl tRNA (SO:000272)."^^xsd:string ; oboInOwl:hasExactSynonym "tyrosine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000229"^^xsd:string ; a owl:Class ; rdfs:label "tyrosine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000230 obo:IAO_0000115 "A primary transcript encoding valyl tRNA (SO:000273)."^^xsd:string ; oboInOwl:hasExactSynonym "valine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000230"^^xsd:string ; a owl:Class ; rdfs:label "valine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0000231 obo:IAO_0000115 "A primary transcript encoding a small nuclear RNA (SO:0000274)."^^xsd:string ; oboInOwl:hasExactSynonym "snRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000231"^^xsd:string ; a owl:Class ; rdfs:label "snRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000232 obo:IAO_0000115 "A primary transcript encoding one or more small nucleolar RNAs (SO:0000275)."^^xsd:string ; oboInOwl:hasExactSynonym "snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000232"^^xsd:string ; a owl:Class ; rdfs:comment "This definition was broadened 26 Jan 2021 to reflect that a single transcript can encode one or more snoRNAs. Brought to our attention by FlyBase. GitHub Issue #520 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/520)."^^xsd:string ; rdfs:label "snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000233 obo:IAO_0000115 "A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Mature_transcript"^^xsd:string ; oboInOwl:hasExactSynonym "mature transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000233"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A processed transcript cannot contain introns."^^xsd:string ; rdfs:label "mature_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000185 ] . obo:SO_0000234 obo:IAO_0000115 "Messenger RNA is the intermediate molecule between DNA and protein. It includes UTR and coding sequences. It does not contain introns."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/MRNA"^^xsd:string, "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:mRNA"^^xsd:string, "messenger RNA"^^xsd:string, "protein_coding_transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000234"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "An mRNA does not contain introns as it is a processed_transcript. The equivalent kind of primary_transcript is protein_coding_primary_transcript (SO:0000120) which may contain introns. This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000233 . obo:SO_0000235 obo:IAO_0000115 "A DNA site where a transcription factor binds."^^xsd:string ; oboInOwl:hasExactSynonym "TF binding site"^^xsd:string, "transcription factor binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000235"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Definition updated along with definitions in Mejia-Almonte et.al PMID:32665585. Added relationship part_of SO:0000727 CRM in place of previous CRM relationship has_part TF_binding_site August 2020 in response to requests from GREEKC initiative. Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "TF_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001055, obo:SO_0001654, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000727 ] . obo:SO_0000236 obo:IAO_0000115 "The in-frame interval between the stop codons of a reading frame which when read as sequential triplets, has the potential of encoding a sequential string of amino acids. TER(NNN)nTER."^^xsd:string ; oboInOwl:hasExactSynonym "open reading frame"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000236"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "The definition was modified by Rama. ORF is defined by the sequence, whereas the CDS is defined according to whether a polypeptide is made. This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "ORF"^^xsd:string ; rdfs:subClassOf obo:SO_0000717 . obo:SO_0000237 obo:IAO_0000115 "An attribute describing a transcript."^^xsd:string ; oboInOwl:hasExactSynonym "transcript attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000237"^^xsd:string ; a owl:Class ; rdfs:label "transcript_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000238 obo:IAO_0000115 "A transposable element with extensive secondary structure, characterized by large modular imperfect long inverted repeats."^^xsd:string ; oboInOwl:hasExactSynonym "foldback element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "LVR element"^^xsd:string, "long inverted repeat element"^^xsd:string ; oboInOwl:id "SO:0000238"^^xsd:string ; a owl:Class ; rdfs:label "foldback_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000182 . obo:SO_0000239 obo:IAO_0000115 "The sequences extending on either side of a specific region."^^xsd:string ; oboInOwl:hasExactSynonym "flanking region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000239"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "flanking_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001412 . obo:SO_0000240 obo:IAO_0000115 "A deviation in chromosome structure or number."^^xsd:string ; oboInOwl:hasExactSynonym "chromosome variation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000240"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0001507, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001524 ] . obo:SO_0000241 obo:IAO_0000115 "A UTR bordered by the terminal and initial codons of two CDSs in a polycistronic transcript. Every UTR is either 5', 3' or internal."^^xsd:string ; oboInOwl:hasExactSynonym "internal UTR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000241"^^xsd:string ; a owl:Class ; rdfs:label "internal_UTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000203 . obo:SO_0000242 obo:IAO_0000115 "The untranslated sequence separating the 'cistrons' of multicistronic mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "untranslated region polycistronic mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000242"^^xsd:string ; a owl:Class ; rdfs:label "untranslated_region_polycistronic_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000203 . obo:SO_0000243 obo:IAO_0000115 "Sequence element that recruits a ribosomal subunit to internal mRNA for translation initiation."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Internal_ribosome_entry_site"^^xsd:string ; oboInOwl:hasExactSynonym "IRES"^^xsd:string, "internal ribosomal entry sequence"^^xsd:string, "internal ribosomal entry site"^^xsd:string, "internal ribosome entry site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "internal ribosome entry sequence"^^xsd:string ; oboInOwl:id "SO:0000243"^^xsd:string ; a owl:Class ; rdfs:label "internal_ribosome_entry_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000139 . obo:SO_0000244 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "4-cutter_restriction_site"^^xsd:string, "four-cutter_restriction_sit"^^xsd:string ; oboInOwl:id "SO:0000244"^^xsd:string ; a owl:Class ; rdfs:label "four_cutter_restriction_site"^^xsd:string ; owl:deprecated true . obo:SO_0000245 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000245"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_by_polyadenylation_status"^^xsd:string ; owl:deprecated true . obo:SO_0000246 obo:IAO_0000115 "A attribute describing the addition of a poly A tail to the 3' end of a mRNA molecule."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000246"^^xsd:string ; a owl:Class ; rdfs:label "polyadenylated"^^xsd:string ; rdfs:subClassOf obo:SO_0000863 . obo:SO_0000247 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000247"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_not_polyadenylated"^^xsd:string ; owl:deprecated true . obo:SO_0000248 obo:IAO_0000115 "A kind of kind of sequence alteration where the copies of a region present varies across a population."^^xsd:string ; oboInOwl:hasExactSynonym "sequence length alteration"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000248"^^xsd:string ; a owl:Class ; rdfs:label "sequence_length_alteration"^^xsd:string ; rdfs:subClassOf obo:SO_0001059 . obo:SO_0000249 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "6-cutter_restriction_site"^^xsd:string, "six-cutter_restriction_site"^^xsd:string ; oboInOwl:id "SO:0000249"^^xsd:string ; a owl:Class ; rdfs:label "six_cutter_restriction_site"^^xsd:string ; owl:deprecated true . obo:SO_0000250 obo:IAO_0000115 "A post_transcriptionally modified base."^^xsd:string ; oboInOwl:hasExactSynonym "modified RNA base feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000250"^^xsd:string ; a owl:Class ; rdfs:label "modified_RNA_base_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0001236 . obo:SO_0000251 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "8-cutter_restriction_site"^^xsd:string, "eight-cutter_restriction_site"^^xsd:string ; oboInOwl:id "SO:0000251"^^xsd:string ; a owl:Class ; rdfs:label "eight_cutter_restriction_site"^^xsd:string ; owl:deprecated true . obo:SO_0000252 obo:IAO_0000115 "rRNA is an RNA component of a ribosome that can provide both structural scaffolding and catalytic activity."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_qualifier:unknown"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/RRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:rRNA"^^xsd:string, "ribosomal RNA"^^xsd:string, "ribosomal ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000252"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Definition updated 10 June 2021 as part of restructuring rRNA terms and reforming definitions to have similar structures. Request from EBI. See GitHub Issue #493"^^xsd:string ; rdfs:label "rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000209 ] . obo:SO_0000253 obo:IAO_0000115 "Transfer RNA (tRNA) molecules are approximately 80 nucleotides in length. Their secondary structure includes four short double-helical elements and three loops (D, anti-codon, and T loops). Further hydrogen bonds mediate the characteristic L-shaped molecular structure. Transfer RNAs have two regions of fundamental functional importance: the anti-codon, which is responsible for specific mRNA codon recognition, and the 3' end, to which the tRNA's corresponding amino acid is attached (by aminoacyl-tRNA synthetases). Transfer RNAs cope with the degeneracy of the genetic code in two manners: having more than one tRNA (with a specific anti-codon) for a particular amino acid; and 'wobble' base-pairing, i.e. permitting non-standard base-pairing at the 3rd anti-codon position."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_qualifier:unknown"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/TRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "transfer RNA"^^xsd:string, "transfer ribonucleic acid"^^xsd:string ; oboInOwl:id "SO:0000253"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002247, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000210 ] . obo:SO_0000254 obo:IAO_0000115 "A tRNA sequence that has an alanine anticodon, and a 3' alanine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "alanyl tRNA"^^xsd:string, "alanyl-transfer RNA"^^xsd:string, "alanyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000254"^^xsd:string ; a owl:Class ; rdfs:label "alanyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000211 ] . obo:SO_0000255 obo:IAO_0000115 "A primary transcript encoding a small ribosomal subunit RNA."^^xsd:string ; oboInOwl:hasExactSynonym "rRNA small subunit primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000255"^^xsd:string ; a owl:Class ; rdfs:label "rRNA_small_subunit_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000209 . obo:SO_0000256 obo:IAO_0000115 "A tRNA sequence that has an asparagine anticodon, and a 3' asparagine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "asparaginyl tRNA"^^xsd:string, "asparaginyl-transfer RNA"^^xsd:string, "asparaginyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000256"^^xsd:string ; a owl:Class ; rdfs:label "asparaginyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000213 ] . obo:SO_0000257 obo:IAO_0000115 "A tRNA sequence that has an aspartic acid anticodon, and a 3' aspartic acid binding region."^^xsd:string ; oboInOwl:hasExactSynonym "aspartyl tRNA"^^xsd:string, "aspartyl-transfer RNA"^^xsd:string, "aspartyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000257"^^xsd:string ; a owl:Class ; rdfs:label "aspartyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000214 ] . obo:SO_0000258 obo:IAO_0000115 "A tRNA sequence that has a cysteine anticodon, and a 3' cysteine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "cysteinyl tRNA"^^xsd:string, "cysteinyl-transfer RNA"^^xsd:string, "cysteinyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000258"^^xsd:string ; a owl:Class ; rdfs:label "cysteinyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000215 ] . obo:SO_0000259 obo:IAO_0000115 "A tRNA sequence that has a glutamine anticodon, and a 3' glutamine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "glutaminyl tRNA"^^xsd:string, "glutaminyl-transfer RNA"^^xsd:string, "glutaminyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000259"^^xsd:string ; a owl:Class ; rdfs:label "glutaminyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000216 ] . obo:SO_0000260 obo:IAO_0000115 "A tRNA sequence that has a glutamic acid anticodon, and a 3' glutamic acid binding region."^^xsd:string ; oboInOwl:hasExactSynonym "glutamyl tRNA"^^xsd:string, "glutamyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "glutamyl-transfer RNA"^^xsd:string ; oboInOwl:id "SO:0000260"^^xsd:string ; a owl:Class ; rdfs:label "glutamyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000217 ] . obo:SO_0000261 obo:IAO_0000115 "A tRNA sequence that has a glycine anticodon, and a 3' glycine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "glycyl tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "glycyl-transfer RNA"^^xsd:string, "glycyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:id "SO:0000261"^^xsd:string ; a owl:Class ; rdfs:label "glycyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000218 ] . obo:SO_0000262 obo:IAO_0000115 "A tRNA sequence that has a histidine anticodon, and a 3' histidine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "histidyl tRNA"^^xsd:string, "histidyl-transfer RNA"^^xsd:string, "histidyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000262"^^xsd:string ; a owl:Class ; rdfs:label "histidyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000219 ] . obo:SO_0000263 obo:IAO_0000115 "A tRNA sequence that has an isoleucine anticodon, and a 3' isoleucine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "isoleucyl tRNA"^^xsd:string, "isoleucyl-transfer RNA"^^xsd:string, "isoleucyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000263"^^xsd:string ; a owl:Class ; rdfs:label "isoleucyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000220 ] . obo:SO_0000264 obo:IAO_0000115 "A tRNA sequence that has a leucine anticodon, and a 3' leucine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "leucyl tRNA"^^xsd:string, "leucyl-transfer RNA"^^xsd:string, "leucyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000264"^^xsd:string ; a owl:Class ; rdfs:label "leucyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000221 ] . obo:SO_0000265 obo:IAO_0000115 "A tRNA sequence that has a lysine anticodon, and a 3' lysine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "lysyl tRNA"^^xsd:string, "lysyl-transfer RNA"^^xsd:string, "lysyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000265"^^xsd:string ; a owl:Class ; rdfs:label "lysyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000222 ] . obo:SO_0000266 obo:IAO_0000115 "A tRNA sequence that has a methionine anticodon, and a 3' methionine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "methionyl tRNA"^^xsd:string, "methionyl-transfer RNA"^^xsd:string, "methionyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000266"^^xsd:string ; a owl:Class ; rdfs:label "methionyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000223 ] . obo:SO_0000267 obo:IAO_0000115 "A tRNA sequence that has a phenylalanine anticodon, and a 3' phenylalanine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "phenylalanyl tRNA"^^xsd:string, "phenylalanyl-transfer RNA"^^xsd:string, "phenylalanyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000267"^^xsd:string ; a owl:Class ; rdfs:label "phenylalanyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000224 ] . obo:SO_0000268 obo:IAO_0000115 "A tRNA sequence that has a proline anticodon, and a 3' proline binding region."^^xsd:string ; oboInOwl:hasExactSynonym "prolyl tRNA"^^xsd:string, "prolyl-transfer RNA"^^xsd:string, "prolyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000268"^^xsd:string ; a owl:Class ; rdfs:label "prolyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000225 ] . obo:SO_0000269 obo:IAO_0000115 "A tRNA sequence that has a serine anticodon, and a 3' serine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "seryl tRNA"^^xsd:string, "seryl-transfer RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "seryl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:id "SO:0000269"^^xsd:string ; a owl:Class ; rdfs:label "seryl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000226 ] . obo:SO_0000270 obo:IAO_0000115 "A tRNA sequence that has a threonine anticodon, and a 3' threonine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "threonyl tRNA"^^xsd:string, "threonyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "threonyl-transfer RNA"^^xsd:string ; oboInOwl:id "SO:0000270"^^xsd:string ; a owl:Class ; rdfs:label "threonyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000227 ] . obo:SO_0000271 obo:IAO_0000115 "A tRNA sequence that has a tryptophan anticodon, and a 3' tryptophan binding region."^^xsd:string ; oboInOwl:hasExactSynonym "tryptophanyl tRNA"^^xsd:string, "tryptophanyl-transfer RNA"^^xsd:string, "tryptophanyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000271"^^xsd:string ; a owl:Class ; rdfs:label "tryptophanyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000228 ] . obo:SO_0000272 obo:IAO_0000115 "A tRNA sequence that has a tyrosine anticodon, and a 3' tyrosine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "tyrosyl tRNA"^^xsd:string, "tyrosyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "tyrosyl-transfer RNA"^^xsd:string ; oboInOwl:id "SO:0000272"^^xsd:string ; a owl:Class ; rdfs:label "tyrosyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000229 ] . obo:SO_0000273 obo:IAO_0000115 "A tRNA sequence that has a valine anticodon, and a 3' valine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "valyl tRNA"^^xsd:string, "valyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "valyl-transfer RNA"^^xsd:string ; oboInOwl:id "SO:0000273"^^xsd:string ; a owl:Class ; rdfs:label "valyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000230 ] . obo:SO_0000274 obo:IAO_0000115 "A small nuclear RNA molecule involved in pre-mRNA splicing and processing."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/SnRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:snRNA"^^xsd:string, "small nuclear RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000274"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002247, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000231 ] . obo:SO_0000275 obo:IAO_0000115 "A snoRNA (small nucleolar RNA) is any one of a class of small RNAs that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins. They participate in the processing or modifications of many RNAs, mostly ribosomal RNAs (rRNAs) though snoRNAs are also known to target other classes of RNA, including spliceosomal RNAs, tRNAs, and mRNAs via a stretch of sequence that is complementary to a sequence in the targeted RNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/SnoRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:snoRNA"^^xsd:string, "small nucleolar RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000275"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002247, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000232 ] . obo:SO_0000276 obo:IAO_0000115 "Small, ~22-nt, RNA molecule that is the endogenous transcript of a miRNA gene (or the product of other non coding RNA genes. Micro RNAs are produced from precursor molecules (SO:0000647) that can form local hairpin structures, which ordinarily are processed (usually via the Dicer pathway) such that a single miRNA molecule accumulates from one arm of a hairpin precursor molecule. Micro RNAs may trigger the cleavage of their target molecules or act as translational repressors."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000649"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/MiRNA"^^xsd:string, "http://en.wikipedia.org/wiki/StRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:miRNA"^^xsd:string, "micro RNA"^^xsd:string, "microRNA"^^xsd:string, "small temporal RNA"^^xsd:string, "stRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000276"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "miRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0000277 obo:IAO_0000115 "An attribute describing a sequence that is bound by another molecule."^^xsd:string ; oboInOwl:hasExactSynonym "bound by factor"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000277"^^xsd:string ; a owl:Class ; rdfs:comment "Formerly called transcript_by_bound_factor."^^xsd:string ; rdfs:label "bound_by_factor"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000278 obo:IAO_0000115 "A transcript that is bound by a nucleic acid."^^xsd:string ; oboInOwl:hasExactSynonym "transcript bound by nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000278"^^xsd:string ; a owl:Class ; rdfs:comment "Formerly called transcript_by_bound_nucleic_acid."^^xsd:string ; rdfs:label "transcript_bound_by_nucleic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000876 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000876 ] ) ] . obo:SO_0000279 obo:IAO_0000115 "A transcript that is bound by a protein."^^xsd:string ; oboInOwl:hasExactSynonym "transcript bound by protein"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000279"^^xsd:string ; a owl:Class ; rdfs:comment "Formerly called transcript_by_bound_protein."^^xsd:string ; rdfs:label "transcript_bound_by_protein"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000875 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000875 ] ) ] . obo:SO_0000280 obo:IAO_0000115 "A gene that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000280"^^xsd:string ; a owl:Class ; rdfs:label "engineered_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000281 obo:IAO_0000115 "A gene that is engineered and foreign."^^xsd:string ; oboInOwl:hasExactSynonym "engineered foreign gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000281"^^xsd:string ; a owl:Class ; rdfs:label "engineered_foreign_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000280, obo:SO_0000285, obo:SO_0000805, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000280 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000282 obo:IAO_0000115 "An mRNA with a minus 1 frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA with minus 1 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000282"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_with_minus_1_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000108, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000866 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000108 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000866 ] ) ] . obo:SO_0000283 obo:IAO_0000115 "A transposable_element that is engineered and foreign."^^xsd:string ; oboInOwl:hasExactSynonym "engineered foreign transposable element gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000283"^^xsd:string ; a owl:Class ; rdfs:label "engineered_foreign_transposable_element_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000111, obo:SO_0000281, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000111 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000284 obo:IAO_0000115 "The recognition site is bipartite and interrupted."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000284"^^xsd:string ; a owl:Class ; rdfs:label "type_I_enzyme_restriction_site"^^xsd:string ; owl:deprecated true . obo:SO_0000285 obo:IAO_0000115 "A gene that is foreign."^^xsd:string ; oboInOwl:hasExactSynonym "foreign gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000285"^^xsd:string ; a owl:Class ; rdfs:label "foreign_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000286 obo:IAO_0000115 "A sequence directly repeated at both ends of a defined sequence, of the sort typically found in retroviruses."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Long_terminal_repeat"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:long_terminal_repeat"^^xsd:string, "LTR"^^xsd:string, "long terminal repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "direct terminal repeat"^^xsd:string ; oboInOwl:id "SO:0000286"^^xsd:string ; a owl:Class ; rdfs:label "long_terminal_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000186 ] . obo:SO_0000287 obo:IAO_0000115 "A gene that is a fusion."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Fusion_gene"^^xsd:string ; oboInOwl:hasExactSynonym "fusion gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000287"^^xsd:string ; a owl:Class ; rdfs:label "fusion_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000806 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000806 ] ) ] . obo:SO_0000288 obo:IAO_0000115 "A fusion gene that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered fusion gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000288"^^xsd:string ; a owl:Class ; rdfs:label "engineered_fusion_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000280, obo:SO_0000287, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000287 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000289 obo:IAO_0000115 "A repeat_region containing repeat_units of 2 to 10 bp repeated in tandem."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Microsatellite"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:microsatellite"^^xsd:string, "STR"^^xsd:string, "microsatellite locus"^^xsd:string, "microsatellite marker"^^xsd:string, "short tandem repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000289"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "microsatellite"^^xsd:string ; rdfs:subClassOf obo:SO_0000005 . obo:SO_0000290 obo:IAO_0000115 "A region of a repeating dinucleotide sequence (two bases)."^^xsd:string ; oboInOwl:hasExactSynonym "dinucleotide repeat microsatellite"^^xsd:string, "dinucleotide repeat microsatellite feature"^^xsd:string, "dinucleotide repeat microsatellite locus"^^xsd:string, "dinucleotide repeat microsatellite marker"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000290"^^xsd:string ; a owl:Class ; rdfs:label "dinucleotide_repeat_microsatellite_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000289 . obo:SO_0000291 obo:IAO_0000115 "A region of a repeating trinucleotide sequence (three bases)."^^xsd:string ; oboInOwl:hasExactSynonym "rinucleotide repeat microsatellite"^^xsd:string, "trinucleotide repeat microsatellite feature"^^xsd:string, "trinucleotide repeat microsatellite locus"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "dinucleotide repeat microsatellite marker"^^xsd:string ; oboInOwl:id "SO:0000291"^^xsd:string ; a owl:Class ; rdfs:label "trinucleotide_repeat_microsatellite_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000289 . obo:SO_0000292 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000292"^^xsd:string ; a owl:Class ; rdfs:label "repetitive_element"^^xsd:string ; owl:deprecated true . obo:SO_0000293 obo:IAO_0000115 "A repetitive element that is engineered and foreign."^^xsd:string ; oboInOwl:hasExactSynonym "engineered foreign repetitive element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000293"^^xsd:string ; a owl:Class ; rdfs:label "engineered_foreign_repetitive_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000657, obo:SO_0000805, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000657 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000294 obo:IAO_0000115 "The sequence is complementarily repeated on the opposite strand. It is a palindrome, and it may, or may not be hyphenated. Examples: GCTGATCAGC, or GCTGA-----TCAGC."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Inverted_repeat"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:inverted"^^xsd:string, "inverted repeat"^^xsd:string, "inverted repeat sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000294"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "inverted_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0000295 obo:IAO_0000115 "A type of spliceosomal intron spliced by the U12 spliceosome, that includes U11, U12, U4atac/U6atac and U5 snRNAs."^^xsd:string ; oboInOwl:hasExactSynonym "U12 intron"^^xsd:string, "U12-dependent intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000295"^^xsd:string ; a owl:Class ; rdfs:comment "May have either GT-AC or AT-AC 5' and 3' boundaries."^^xsd:string ; rdfs:label "U12_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000662 . obo:SO_0000296 obo:IAO_0000115 "A region of nucleic acid from which replication initiates; includes sequences that are recognized by replication proteins, the site from which the first separation of complementary strands occurs, and specific replication start sites."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Origin_of_replication"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:rep_origin"^^xsd:string, "ori"^^xsd:string, "origin of replication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000296"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "origin_of_replication"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001235 ] . obo:SO_0000297 obo:IAO_0000115 "Displacement loop; a region within mitochondrial DNA in which a short stretch of RNA is paired with one strand of DNA, displacing the original partner DNA strand in this region; also used to describe the displacement of a region of one strand of duplex DNA by a single stranded invader in the reaction catalyzed by RecA protein."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/D_loop"^^xsd:string ; oboInOwl:hasExactSynonym "D-loop"^^xsd:string, "INSDC_feature:D-loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "displacement loop"^^xsd:string ; oboInOwl:id "SO:0000297"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from is_a: SO:0000296 origin_of_replication to is_a: SO:0001411 biological_region after Terrence Murphy (INSDC) pointed out that the D loop can also refer to a loop in DNA repair, which is not an origin of replication. See GitHub Issue #417 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/417)"^^xsd:string ; rdfs:label "D_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000298 obo:IAO_0000115 "A feature where there has been exchange of genetic material in the event of mitosis or meiosis"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_recomb"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:other"^^xsd:string, "recombination feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000298"^^xsd:string ; a owl:Class ; rdfs:label "recombination_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000299 obo:IAO_0000115 "A location where recombination or occurs during mitosis or meiosis."^^xsd:string ; oboInOwl:hasExactSynonym "specific recombination site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000299"^^xsd:string ; a owl:Class ; rdfs:label "specific_recombination_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000669 . obo:SO_0000300 obo:IAO_0000115 "A location where a gene is rearranged due to recombination during mitosis or meiosis."^^xsd:string ; oboInOwl:hasExactSynonym "recombination feature of rearranged gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000300"^^xsd:string ; a owl:Class ; rdfs:label "recombination_feature_of_rearranged_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000299 . obo:SO_0000301 obo:IAO_0000115 "A feature where recombination has occurred for the purpose of generating a diversity in the immune system."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immune system gene recombination feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000301"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immune_system_gene_recombination_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000300 . obo:SO_0000302 obo:IAO_0000115 "Recombination signal including J-heptamer, J-spacer and J-nonamer in 5' of J-region of a J-gene or J-sequence."^^xsd:string ; oboInOwl:hasExactSynonym "J gene recombination feature"^^xsd:string, "J-RS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000302"^^xsd:string ; a owl:Class ; rdfs:label "J_gene_recombination_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000939 . obo:SO_0000303 obo:IAO_0000115 "Part of the primary transcript that is clipped off during processing."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000303"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "clip"^^xsd:string ; rdfs:subClassOf obo:SO_0000835 . obo:SO_0000304 obo:IAO_0000115 "The recognition site is either palindromic, partially palindromic or an interrupted palindrome. Cleavage occurs within the recognition site."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000304"^^xsd:string ; a owl:Class ; rdfs:label "type_II_enzyme_restriction_site"^^xsd:string ; owl:deprecated true . obo:SO_0000305 obo:IAO_0000115 "A modified nucleotide, i.e. a nucleotide other than A, T, C. G."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:modified_base"^^xsd:string, "modified base site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000305"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Modified base:."^^xsd:string ; rdfs:label "modified_DNA_base"^^xsd:string ; rdfs:subClassOf obo:SO_0001236, obo:SO_0001720 . obo:SO_0000306 obo:IAO_0000115 "A nucleotide modified by methylation."^^xsd:string ; oboInOwl:hasExactSynonym "methylated base feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000306"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "methylated_DNA_base_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000305 . obo:SO_0000307 obo:IAO_0000115 "Regions of a few hundred to a few thousand bases in vertebrate genomes that are relatively GC and CpG rich; they are typically unmethylated and often found near the 5' ends of genes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/CpG_island"^^xsd:string ; oboInOwl:hasExactSynonym "CG island"^^xsd:string, "CpG island"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000307"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "CpG_island"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000308 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000308"^^xsd:string ; a owl:Class ; rdfs:label "sequence_feature_locating_method"^^xsd:string ; owl:deprecated true . obo:SO_0000309 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000309"^^xsd:string ; a owl:Class ; rdfs:label "computed_feature"^^xsd:string ; owl:deprecated true . obo:SO_0000310 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000310"^^xsd:string ; a owl:Class ; rdfs:label "predicted_ab_initio_computation"^^xsd:string ; owl:deprecated true . obo:SO_0000311 obo:IAO_0000115 "."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000311"^^xsd:string ; a owl:Class ; rdfs:comment "similar to:"^^xsd:string ; rdfs:label "computed_feature_by_similarity"^^xsd:string ; owl:deprecated true . obo:SO_0000312 obo:IAO_0000115 "Attribute to describe a feature that has been experimentally verified."^^xsd:string ; oboInOwl:hasExactSynonym "experimentally determined"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000312"^^xsd:string ; a owl:Class ; rdfs:label "experimentally_determined"^^xsd:string ; rdfs:subClassOf obo:SO_0000789 . obo:SO_0000313 obo:IAO_0000115 "A double-helical region of nucleic acid formed by base-pairing between adjacent (inverted) complementary sequences."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000019"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Stem_loop"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:stem_loop"^^xsd:string, "RNA_hairpin_loop"^^xsd:string, "stem loop"^^xsd:string, "stem-loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000313"^^xsd:string ; a owl:Class ; rdfs:label "stem_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000122 . obo:SO_0000314 obo:IAO_0000115 "A repeat where the same sequence is repeated in the same direction. Example: GCTGA-followed by-GCTGA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Direct_repeat"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:direct"^^xsd:string, "direct repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000314"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "direct_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0000315 obo:IAO_0000115 "The first base where RNA polymerase begins to synthesize the RNA transcript."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:transcription_start_site"^^xsd:string, "transcription start site"^^xsd:string, "transcription_start_site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000315"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Added relationship is_a SO:0002309 core_promoter_element with the creation of core_promoter_element as part of GREEKC initiative August 2020 - Dave Sant."^^xsd:string ; rdfs:label "TSS"^^xsd:string ; rdfs:subClassOf obo:SO_0000835, obo:SO_0002309 . obo:SO_0000316 obo:IAO_0000115 "A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:CDS"^^xsd:string, "coding sequence"^^xsd:string, "coding_sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000316"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000836 . obo:SO_0000317 obo:IAO_0000115 "Complementary DNA; A piece of DNA copied from an mRNA and spliced into a vector for propagation in a suitable host."^^xsd:string ; oboInOwl:hasExactSynonym "cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000317"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000151, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000756 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000151 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000756 ] ) ] . obo:SO_0000318 obo:IAO_0000115 "First codon to be translated by a ribosome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Start_codon"^^xsd:string ; oboInOwl:hasExactSynonym "initiation codon"^^xsd:string, "start codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000318"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "start_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000360 . obo:SO_0000319 obo:IAO_0000115 "In mRNA, a set of three nucleotides that indicates the end of information for protein synthesis."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Stop_codon"^^xsd:string ; oboInOwl:hasExactSynonym "stop codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000319"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "stop_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000360 . obo:SO_0000320 obo:IAO_0000115 "Sequences within the intron that modulate splice site selection for some introns."^^xsd:string ; oboInOwl:hasExactSynonym "intronic splice enhancer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000320"^^xsd:string ; a owl:Class ; rdfs:label "intronic_splice_enhancer"^^xsd:string ; rdfs:subClassOf obo:SO_0000344, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000841 ] . obo:SO_0000321 obo:IAO_0000115 "An mRNA with a plus 1 frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA with plus 1 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000321"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_with_plus_1_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000108, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000868 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000108 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000868 ] ) ] . obo:SO_0000322 obo:IAO_0000115 "A region of nucleotide sequence targeted by a nuclease enzyme that is found cleaved more than would be expected by chance."^^xsd:string ; oboInOwl:hasExactSynonym "nuclease hypersensitive site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000322"^^xsd:string ; a owl:Class ; rdfs:comment "Relationship to accessible_DNA_region added 11 Feb 2021. GREEKC pointed out that this is an assay based term, but we need a biological term for the accessible DNA. See GitHub Issue #531."^^xsd:string ; rdfs:label "nuclease_hypersensitive_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000684, obo:SO_0002331 . obo:SO_0000323 obo:IAO_0000115 "The first base to be translated into protein."^^xsd:string ; oboInOwl:hasExactSynonym "coding start"^^xsd:string, "translation initiation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "translation start"^^xsd:string ; oboInOwl:id "SO:0000323"^^xsd:string ; a owl:Class ; rdfs:label "coding_start"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0000324 obo:IAO_0000115 "A nucleotide sequence that may be used to identify a larger sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000324"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "tag"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0000325 obo:IAO_0000115 "A primary transcript encoding a large ribosomal subunit RNA."^^xsd:string ; oboInOwl:hasExactSynonym "35S rRNA primary transcript"^^xsd:string, "rRNA large subunit primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000325"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "rRNA_large_subunit_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000209 . obo:SO_0000326 obo:IAO_0000115 "A short diagnostic sequence tag, serial analysis of gene expression (SAGE), that allows the quantitative and simultaneous analysis of a large number of transcripts."^^xsd:string ; oboInOwl:hasExactSynonym "SAGE tag"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000326"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "SAGE_tag"^^xsd:string ; rdfs:subClassOf obo:SO_0000324 . obo:SO_0000327 obo:IAO_0000115 "The last base to be translated into protein. It does not include the stop codon."^^xsd:string ; oboInOwl:hasExactSynonym "coding end"^^xsd:string, "translation termination site"^^xsd:string, "translation_end"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000327"^^xsd:string ; a owl:Class ; rdfs:label "coding_end"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0000328 obo:IAO_0000115 "A DNA sequence used experimentally to detect the presence or absence of a complementary nucleic acid."^^xsd:string ; oboInOwl:hasExactSynonym "microarray oligo"^^xsd:string, "microarray oligonucleotide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000328"^^xsd:string ; a owl:Class ; rdfs:label "microarray_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0000051 . obo:SO_0000329 obo:IAO_0000115 "An mRNA with a plus 2 frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA with plus 2 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000329"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_with_plus_2_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000108, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000869 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000108 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000869 ] ) ] . obo:SO_0000330 obo:IAO_0000115 "Region of sequence similarity by descent from a common ancestor."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Conserved_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:conserved_region"^^xsd:string, "conserved region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000330"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "conserved_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0000331 obo:IAO_0000115 "Short (typically a few hundred base pairs) DNA sequence that has a single occurrence in a genome and whose location and base sequence are known."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:STS"^^xsd:string, "sequence tag site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000331"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "STS"^^xsd:string ; rdfs:subClassOf obo:SO_0000324 . obo:SO_0000332 obo:IAO_0000115 "Coding region of sequence similarity by descent from a common ancestor."^^xsd:string ; oboInOwl:hasExactSynonym "coding conserved region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000332"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "coding_conserved_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000330 . obo:SO_0000333 obo:IAO_0000115 "The boundary between two exons in a processed transcript."^^xsd:string ; oboInOwl:hasExactSynonym "exon junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000333"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "exon_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0000699, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000233 ] . obo:SO_0000334 obo:IAO_0000115 "Non-coding region of sequence similarity by descent from a common ancestor."^^xsd:string ; oboInOwl:hasExactSynonym "conserved non-coding element"^^xsd:string, "conserved non-coding sequence"^^xsd:string, "nc conserved region"^^xsd:string, "noncoding conserved region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000334"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nc_conserved_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000330 . obo:SO_0000335 obo:IAO_0000115 "A mRNA with a minus 2 frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA with minus 2 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000335"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_with_minus_2_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000108, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000867 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000108 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000867 ] ) ] . obo:SO_0000336 obo:IAO_0000115 "A sequence that closely resembles a known functional gene, at another locus within a genome, that is non-functional as a consequence of (usually several) mutations that prevent either its transcription or translation (or both). In general, pseudogenes result from either reverse transcription of a transcript of their \"normal\" paralog (SO:0000043) (in which case the pseudogene typically lacks introns and includes a poly(A) tail) or from recombination (SO:0000044) (in which case the pseudogene is typically a tandem duplication of its \"normal\" paralog)."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:gene"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Pseudogene"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:pseudo"^^xsd:string, "INSDC_qualifier:unknown"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000336"^^xsd:string ; oboInOwl:inSubset so:Alliance_of_Genome_Resources, so:SOFA ; a owl:Class ; rdfs:label "pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:non_functional_homolog_of ; owl:someValuesFrom obo:SO_0000704 ] . obo:SO_0000337 obo:IAO_0000115 "A double stranded RNA duplex, at least 20bp long, used experimentally to inhibit gene function by RNA interference."^^xsd:string ; oboInOwl:hasExactSynonym "RNAi reagent"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000337"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "RNAi_reagent"^^xsd:string ; rdfs:subClassOf obo:SO_0000442 . obo:SO_0000338 obo:IAO_0000115 "A highly repetitive and short (100-500 base pair) transposable element with terminal inverted repeats (TIR) and target site duplication (TSD). MITEs do not encode proteins."^^xsd:string ; oboInOwl:hasExactSynonym "miniature inverted repeat transposable element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000338"^^xsd:string ; a owl:Class ; rdfs:label "MITE"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0000339 obo:IAO_0000115 "A region in a genome which promotes recombination."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Recombination_hotspot"^^xsd:string ; oboInOwl:hasExactSynonym "recombination hotspot"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000339"^^xsd:string ; a owl:Class ; rdfs:label "recombination_hotspot"^^xsd:string ; rdfs:subClassOf obo:SO_0000298 . obo:SO_0000340 obo:IAO_0000115 "Structural unit composed of a nucleic acid molecule which controls its own replication through the interaction of specific proteins at one or more origins of replication."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000340"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0001235 . obo:SO_0000341 obo:IAO_0000115 "A cytologically distinguishable feature of a chromosome, often made visible by staining, and usually alternating light and dark."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Cytological_band"^^xsd:string ; oboInOwl:hasExactSynonym "chromosome band"^^xsd:string, "cytoband"^^xsd:string, "cytological band"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000341"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "chromosome_band"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0000342 obo:IAO_0000115 "A region specifically recognised by a recombinase where recombination can occur during mitosis or meiosis."^^xsd:string ; oboInOwl:hasExactSynonym "site specific recombination target region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000342"^^xsd:string ; a owl:Class ; rdfs:label "site_specific_recombination_target_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000299 . obo:SO_0000343 obo:IAO_0000115 "A region of sequence, aligned to another sequence with some statistical significance, using an algorithm such as BLAST or SIM4."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000343"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "match"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0000344 obo:IAO_0000115 "Region of a transcript that regulates splicing."^^xsd:string ; oboInOwl:hasExactSynonym "splice enhancer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000344"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "splice_enhancer"^^xsd:string ; rdfs:subClassOf obo:SO_0001056 . obo:SO_0000345 obo:IAO_0000115 "A tag produced from a single sequencing read from a cDNA clone or PCR product; typically a few hundred base pairs long."^^xsd:string ; oboInOwl:hasExactSynonym "expressed sequence tag"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000345"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "EST"^^xsd:string ; rdfs:subClassOf obo:SO_0000324, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000234 ] . obo:SO_0000346 obo:IAO_0000115 "Cre-Recombination target sequence."^^xsd:string ; oboInOwl:hasExactSynonym "loxP site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Cre-recombination target region"^^xsd:string ; oboInOwl:id "SO:0000346"^^xsd:string ; a owl:Class ; rdfs:label "loxP_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000947 . obo:SO_0000347 obo:IAO_0000115 "A match against a nucleotide sequence."^^xsd:string ; oboInOwl:hasExactSynonym "nucleotide match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000347"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nucleotide_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000343 . obo:SO_0000348 obo:IAO_0000115 "An attribute describing a sequence consisting of nucleobases bound to repeating units. The forms found in nature are deoxyribonucleic acid (DNA), where the repeating units are 2-deoxy-D-ribose rings connected to a phosphate backbone, and ribonucleic acid (RNA), where the repeating units are D-ribose rings connected to a phosphate backbone."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Nucleic_acid"^^xsd:string ; oboInOwl:hasExactSynonym "nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000348"^^xsd:string ; a owl:Class ; rdfs:label "nucleic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0000443 . obo:SO_0000349 obo:IAO_0000115 "A match against a protein sequence."^^xsd:string ; oboInOwl:hasExactSynonym "protein match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000349"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "protein_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000343 . obo:SO_0000350 obo:IAO_0000115 "An inversion site found on the Saccharomyces cerevisiae 2 micron plasmid."^^xsd:string ; oboInOwl:hasExactSynonym "FLP recombination target region"^^xsd:string, "FRT site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000350"^^xsd:string ; a owl:Class ; rdfs:label "FRT_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000948 . obo:SO_0000351 obo:IAO_0000115 "An attribute to decide a sequence of nucleotides, nucleotide analogs, or amino acids that has been designed by an experimenter and which may, or may not, correspond with any natural sequence."^^xsd:string ; oboInOwl:hasExactSynonym "synthetic sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000351"^^xsd:string ; a owl:Class ; rdfs:label "synthetic_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000443 . obo:SO_0000352 obo:IAO_0000115 "An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a 2-deoxy-D-ribose ring connected to a phosphate backbone."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000352"^^xsd:string ; a owl:Class ; rdfs:label "DNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0000353 obo:IAO_0000115 "A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Sequence_assembly"^^xsd:string ; oboInOwl:hasExactSynonym "sequence assembly"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000353"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "sequence_assembly"^^xsd:string ; rdfs:subClassOf obo:SO_0001248 . obo:SO_0000354 obo:IAO_0000115 "A region of intronic nucleotide sequence targeted by a nuclease enzyme."^^xsd:string ; oboInOwl:hasExactSynonym "group 1 intron homing endonuclease target region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000354"^^xsd:string ; a owl:Class ; rdfs:label "group_1_intron_homing_endonuclease_target_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000684 . obo:SO_0000355 obo:IAO_0000115 "A region of the genome which is co-inherited as the result of the lack of historic recombination within it."^^xsd:string ; oboInOwl:hasExactSynonym "haplotype block"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000355"^^xsd:string ; a owl:Class ; rdfs:label "haplotype_block"^^xsd:string ; rdfs:subClassOf obo:SO_0000298 . obo:SO_0000356 obo:IAO_0000115 "An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a D-ribose ring connected to a phosphate backbone."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000356"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0000357 obo:IAO_0000115 "An attribute describing a region that is bounded either side by a particular kind of region."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000357"^^xsd:string ; a owl:Class ; rdfs:label "flanked"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000358 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000104 ; a owl:Class ; owl:deprecated true . obo:SO_0000359 obo:IAO_0000115 "An attribute describing sequence that is flanked by Lox-P sites."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Floxed"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000359"^^xsd:string ; a owl:Class ; rdfs:label "floxed"^^xsd:string ; rdfs:subClassOf obo:SO_0000357 . obo:SO_0000360 obo:IAO_0000115 "A set of (usually) three nucleotide bases in a DNA or RNA sequence, which together code for a unique amino acid or the termination of translation and are contained within the CDS."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000360"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0000361 obo:IAO_0000115 "An attribute to describe sequence that is flanked by the FLP recombinase recognition site, FRT."^^xsd:string ; oboInOwl:hasExactSynonym "FRT flanked"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000361"^^xsd:string ; a owl:Class ; rdfs:label "FRT_flanked"^^xsd:string ; rdfs:subClassOf obo:SO_0000357 . obo:SO_0000362 obo:IAO_0000115 "A cDNA clone constructed from more than one mRNA. Usually an experimental artifact."^^xsd:string ; oboInOwl:hasExactSynonym "invalidated by chimeric cDNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000362"^^xsd:string ; a owl:Class ; rdfs:label "invalidated_by_chimeric_cDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000790 . obo:SO_0000363 obo:IAO_0000115 "A transgene that is floxed."^^xsd:string ; oboInOwl:hasExactSynonym "floxed gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000363"^^xsd:string ; a owl:Class ; rdfs:label "floxed_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000902, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000359 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000902 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000359 ] ) ] . obo:SO_0000364 obo:IAO_0000115 "The region of sequence surrounding a transposable element."^^xsd:string ; oboInOwl:hasExactSynonym "transposable element flanking region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000364"^^xsd:string ; a owl:Class ; rdfs:label "transposable_element_flanking_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000239 . obo:SO_0000365 obo:IAO_0000115 "A region encoding an integrase which acts at a site adjacent to it (attI_site) to insert DNA which must include but is not limited to an attC_site."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Integron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000365"^^xsd:string ; a owl:Class ; rdfs:label "integron"^^xsd:string ; rdfs:subClassOf obo:SO_0001039 . obo:SO_0000366 obo:IAO_0000115 "The junction where an insertion occurred."^^xsd:string ; oboInOwl:hasExactSynonym "insertion site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000366"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "insertion_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000699 . obo:SO_0000367 obo:IAO_0000115 "A region within an integron, adjacent to an integrase, at which site specific recombination involving an attC_site takes place."^^xsd:string ; oboInOwl:hasExactSynonym "attI site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000367"^^xsd:string ; a owl:Class ; rdfs:label "attI_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000365 ] . obo:SO_0000368 obo:IAO_0000115 "The junction in a genome where a transposable_element has inserted."^^xsd:string ; oboInOwl:hasExactSynonym "transposable element insertion site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000368"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "transposable_element_insertion_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000366 . obo:SO_0000369 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000369"^^xsd:string ; a owl:Class ; rdfs:label "integrase_coding_region"^^xsd:string ; owl:deprecated true . obo:SO_0000370 obo:IAO_0000115 "A non-coding RNA less than 200 nucleotides long, usually with a specific secondary structure, that acts to regulate gene expression. These include short ncRNAs such as piRNA, miRNA and siRNAs (among others)."^^xsd:string ; oboInOwl:hasExactSynonym "small regulatory ncRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000370"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "small_regulatory_ncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002247 . obo:SO_0000371 obo:IAO_0000115 "A transposon that encodes function required for conjugation."^^xsd:string ; oboInOwl:hasExactSynonym "conjugative transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000371"^^xsd:string ; a owl:Class ; rdfs:label "conjugative_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000182 . obo:SO_0000372 obo:IAO_0000115 "An RNA sequence that has catalytic activity with or without an associated ribonucleoprotein."^^xsd:string ; oboInOwl:hasExactSynonym "enzymatic RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000372"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This was moved to be a child of transcript (SO:0000673) because some enzymatic RNA regions are part of primary transcripts and some are part of processed transcripts."^^xsd:string ; rdfs:label "enzymatic_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001185 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001185 ] ) ] . obo:SO_0000373 obo:IAO_0000115 "A recombinationally rearranged gene by inversion."^^xsd:string ; oboInOwl:hasExactSynonym "recombinationally inverted gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000373"^^xsd:string ; a owl:Class ; rdfs:label "recombinationally_inverted_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000456, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_1000036 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000456 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_1000036 ] ) ] . obo:SO_0000374 obo:IAO_0000115 "An RNA with catalytic activity."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Ribozyme"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:ribozyme"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000374"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "ribozyme"^^xsd:string ; rdfs:subClassOf obo:SO_0000372, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001186 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000372 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001186 ] ) ] . obo:SO_0000375 obo:IAO_0000115 "Cytosolic 5.8S rRNA is an RNA component of the large subunit of cytosolic ribosomes in eukaryotes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/5.8S_ribosomal_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 5.8S LSU rRNA"^^xsd:string, "cytosolic 5.8S rRNA"^^xsd:string, "cytosolic 5.8S ribosomal RNA"^^xsd:string, "cytosolic rRNA 5 8S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000375"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Dave Sant removed '5_8S rRNA is also found in archaea.' from definition due to lack of references mentioning this on 1 Feb 2021. See GitHub Issue #505. Renamed from rRNA_5_8S to cytosolic_5_8S_rRNA on 10 June 2021 with the restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_5_8S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000651 . obo:SO_0000376 obo:IAO_0000115 "A small (184-nt in E. coli) RNA that forms a hairpin type structure. 6S RNA associates with RNA polymerase in a highly specific manner. 6S RNA represses expression from a sigma70-dependent promoter during stationary phase."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/6S_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "6S RNA"^^xsd:string, "RNA 6S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000376"^^xsd:string ; a owl:Class ; rdfs:label "RNA_6S"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000377 obo:IAO_0000115 "An enterobacterial RNA that binds the CsrA protein. The CsrB RNAs contain a conserved motif CAGGXXG that is found in up to 18 copies and has been suggested to bind CsrA. The Csr regulatory system has a strong negative regulatory effect on glycogen biosynthesis, glyconeogenesis and glycogen catabolism and a positive regulatory effect on glycolysis. In other bacteria such as Erwinia caratovara the RsmA protein has been shown to regulate the production of virulence determinants, such extracellular enzymes. RsmA binds to RsmB regulatory RNA which is also a member of this family."^^xsd:string ; oboInOwl:hasExactSynonym "CsrB RsmB RNA"^^xsd:string, "CsrB-RsmB RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000377"^^xsd:string ; a owl:Class ; rdfs:label "CsrB_RsmB_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000378 obo:IAO_0000115 "DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress sigma factor, RpoS. These two activities of DsrA can be separated by mutation: the first of three stem-loops of the 85 nucleotide RNA is necessary for RpoS translation but not for anti-H-NS action, while the second stem-loop is essential for antisilencing and less critical for RpoS translation. The third stem-loop, which behaves as a transcription terminator, can be substituted by the trp transcription terminator without loss of either DsrA function. The sequence of the first stem-loop of DsrA is complementary with the upstream leader portion of RpoS messenger RNA, suggesting that pairing of DsrA with the RpoS message might be important for translational regulation."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/DsrA_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "DsrA RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000378"^^xsd:string ; a owl:Class ; rdfs:label "DsrA_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000379 obo:IAO_0000115 "A small untranslated RNA involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/GcvB_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "GcvB RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000379"^^xsd:string ; a owl:Class ; rdfs:label "GcvB_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000378 . obo:SO_0000380 obo:IAO_0000115 "A small catalytic RNA motif that catalyzes self-cleavage reaction. Its name comes from its secondary structure which resembles a carpenter's hammer. The hammerhead ribozyme is involved in the replication of some viroid and some satellite RNAs."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Hammerhead_ribozyme"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:hammerhead_ribozyme"^^xsd:string, "hammerhead ribozyme"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000380"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "hammerhead_ribozyme"^^xsd:string ; rdfs:subClassOf obo:SO_0000715, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001186 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000715 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001186 ] ) ] . obo:SO_0000381 obo:IAO_0000115 "A group II intron that recognizes IBS1/EBS1 and IBS2/EBS2 for the 5-prime exon and gamma/gamma-prime for the 3-prime exon."^^xsd:string ; oboInOwl:hasExactSynonym "group IIA intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000381"^^xsd:string ; a owl:Class ; rdfs:label "group_IIA_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000603 . obo:SO_0000382 obo:IAO_0000115 "A group II intron that recognizes IBS1/EBS1 and IBS2/EBS2 for the 5-prime exon and IBS3/EBS3 for the 3-prime exon."^^xsd:string ; oboInOwl:hasExactSynonym "group IIB intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000382"^^xsd:string ; a owl:Class ; rdfs:label "group_IIB_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000603 . obo:SO_0000383 obo:IAO_0000115 "A non-translated 93 nt antisense RNA that binds its target ompF mRNA and regulates ompF expression by inhibiting translation and inducing degradation of the message."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/MicF_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "MicF RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000383"^^xsd:string ; a owl:Class ; rdfs:label "MicF_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000644 . obo:SO_0000384 obo:IAO_0000115 "A small untranslated RNA which is induced in response to oxidative stress in Escherichia coli. Acts as a global regulator to activate or repress the expression of as many as 40 genes, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s) subunit of RNA polymerase. OxyS is bound by the Hfq protein, that increases the OxyS RNA interaction with its target messages."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/OxyS_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "OxyS RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000384"^^xsd:string ; a owl:Class ; rdfs:label "OxyS_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000385 obo:IAO_0000115 "The RNA molecule essential for the catalytic activity of RNase MRP, an enzymatically active ribonucleoprotein with two distinct roles in eukaryotes. In mitochondria it plays a direct role in the initiation of mitochondrial DNA replication. In the nucleus it is involved in precursor rRNA processing, where it cleaves the internal transcribed spacer 1 between 18S and 5.8S rRNAs."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:RNase_MRP_RNA"^^xsd:string, "RNase MRP RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000385"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "RNase_MRP_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000386 obo:IAO_0000115 "The RNA component of Ribonuclease P (RNase P), a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterized activity is the generation of mature 5 prime ends of tRNAs by cleaving the 5 prime leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzymes have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous. Helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:RNase_P_RNA"^^xsd:string, "RNase P RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000386"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "RNase_P_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000387 obo:IAO_0000115 "Translational regulation of the stationary phase sigma factor RpoS is mediated by the formation of a double-stranded RNA stem-loop structure in the upstream region of the rpoS messenger RNA, occluding the translation initiation site. Clones carrying rprA (RpoS regulator RNA) increased the translation of RpoS. The rprA gene encodes a 106 nucleotide regulatory RNA. As with DsrA Rfam:RF00014, RprA is predicted to form three stem-loops. Thus, at least two small RNAs, DsrA and RprA, participate in the positive regulation of RpoS translation. Unlike DsrA, RprA does not have an extensive region of complementarity to the RpoS leader, leaving its mechanism of action unclear. RprA is non-essential."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/RprA_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "RprA RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000387"^^xsd:string ; a owl:Class ; rdfs:label "RprA_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000388 obo:IAO_0000115 "The Rev response element (RRE) is encoded within the HIV-env gene. Rev is an essential regulatory protein of HIV that binds an internal loop of the RRE leading, encouraging further Rev-RRE binding. This RNP complex is critical for mRNA export and hence for expression of the HIV structural proteins."^^xsd:string ; oboInOwl:hasExactSynonym "RRE RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000388"^^xsd:string ; a owl:Class ; rdfs:label "RRE_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000389 obo:IAO_0000115 "A 109-nucleotide RNA of E. coli that seems to have a regulatory role on the galactose operon. Changes in Spot 42 levels are implicated in affecting DNA polymerase I levels."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Spot_42_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "spot-42 RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000389"^^xsd:string ; a owl:Class ; rdfs:label "spot_42_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000390 obo:IAO_0000115 "The RNA component of telomerase, a reverse transcriptase that synthesizes telomeric DNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Telomerase_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:telomerase_RNA"^^xsd:string, "telomerase RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000390"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "telomerase_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000391 obo:IAO_0000115 "U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U1_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U1 small nuclear RNA"^^xsd:string, "U1 snRNA"^^xsd:string, "small nuclear RNA U1"^^xsd:string, "snRNA U1"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000391"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U1_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000392 obo:IAO_0000115 "U2 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Complementary binding between U2 snRNA (in an area lying towards the 5' end but 3' to hairpin I) and the branchpoint sequence (BPS) of the intron results in the bulging out of an unpaired adenine, on the BPS, which initiates a nucleophilic attack at the intronic 5' splice site, thus starting the first of two transesterification reactions that mediate splicing."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U2_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U2 small nuclear RNA"^^xsd:string, "U2 snRNA"^^xsd:string, "small nuclear RNA U2"^^xsd:string, "snRNA U2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000392"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U2_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000393 obo:IAO_0000115 "U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to refold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U4_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U4 small nuclear RNA"^^xsd:string, "U4 snRNA"^^xsd:string, "small nuclear RNA U4"^^xsd:string, "snRNA U4"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000393"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U4_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000394 obo:IAO_0000115 "An snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U6atac_snRNA (SO:0000397)."^^xsd:string ; oboInOwl:hasExactSynonym "U4atac small nuclear RNA"^^xsd:string, "U4atac snRNA"^^xsd:string, "small nuclear RNA U4atac"^^xsd:string, "snRNA U4atac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000394"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U4atac_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000395 obo:IAO_0000115 "U5 RNA is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5' loop is required for splice site selection and p220 binding, and that both the 3' stem-loop and the Sm site are important for Sm protein binding and cap methylation."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U5_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U5 small nuclear RNA"^^xsd:string, "U5 snRNA"^^xsd:string, "small nuclear RNA U5"^^xsd:string, "snRNA U5"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000395"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U5_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000396 obo:IAO_0000115 "U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5' stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U6_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U6 small nuclear RNA"^^xsd:string, "U6 snRNA"^^xsd:string, "small nuclear RNA U6"^^xsd:string, "snRNA U6"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000396"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U6_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000397 obo:IAO_0000115 "U6atac_snRNA is an snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U4atac_snRNA (SO:0000394)."^^xsd:string ; oboInOwl:hasExactSynonym "U6atac small nuclear RNA"^^xsd:string, "U6atac snRNA"^^xsd:string, "snRNA U6atac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000397"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U6atac_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000398 obo:IAO_0000115 "U11 snRNA plays a role in splicing of the minor U12-dependent class of eukaryotic nuclear introns, similar to U1 snRNA in the major class spliceosome it base pairs to the conserved 5' splice site sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U11_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U11 small nuclear RNA"^^xsd:string, "U11 snRNA"^^xsd:string, "small nuclear RNA U11"^^xsd:string, "snRNA U11"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000398"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U11_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000399 obo:IAO_0000115 "The U12 small nuclear (snRNA), together with U4atac/U6atac, U5, and U11 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/U12_snRNA"^^xsd:string ; oboInOwl:hasExactSynonym "U12 small nuclear RNA"^^xsd:string, "U12 snRNA"^^xsd:string, "small nuclear RNA U12"^^xsd:string, "snRNA U12"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000399"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "U12_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0000400 obo:IAO_0000115 "An attribute describes a quality of sequence."^^xsd:string ; oboInOwl:hasExactSynonym "sequence attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000400"^^xsd:string ; a owl:Class ; rdfs:label "sequence_attribute"^^xsd:string . obo:SO_0000401 obo:IAO_0000115 "An attribute describing a gene."^^xsd:string ; oboInOwl:hasExactSynonym "gene attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000401"^^xsd:string ; a owl:Class ; rdfs:label "gene_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000402 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000402"^^xsd:string ; a owl:Class ; rdfs:label "enhancer_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000403 obo:IAO_0000115 "U14 small nucleolar RNA (U14 snoRNA) is required for early cleavages of eukaryotic precursor rRNAs. In yeasts, this molecule possess a stem-loop region (known as the Y-domain) which is essential for function. A similar structure, but with a different consensus sequence, is found in plants, but is absent in vertebrates."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0005839"^^xsd:string ; oboInOwl:hasExactSynonym "U14 small nucleolar RNA"^^xsd:string, "U14 snoRNA"^^xsd:string, "small nucleolar RNA U14"^^xsd:string, "snoRNA U14"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000403"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "An evolutionarily conserved eukaryotic low molecular weight RNA capable of intermolecular hybridization with both homologous and heterologous 18S rRNA."^^xsd:string ; rdfs:label "U14_snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000593, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0005837 ] . obo:SO_0000404 obo:IAO_0000115 "A family of RNAs are found as part of the enigmatic vault ribonucleoprotein complex. The complex consists of a major vault protein (MVP), two minor vault proteins (VPARP and TEP1), and several small untranslated RNA molecules. It has been suggested that the vault complex is involved in drug resistance."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Vault_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:vault_RNA"^^xsd:string, "vault RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000404"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "vault_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000405 obo:IAO_0000115 "Y RNAs are components of the Ro ribonucleoprotein particle (Ro RNP), in association with Ro60 and La proteins. The Y RNAs and Ro60 and La proteins are well conserved, but the function of the Ro RNP is not known. In humans the RNA component can be one of four small RNAs: hY1, hY3, hY4 and hY5. These small RNAs are predicted to fold into a conserved secondary structure containing three stem structures. The largest of the four, hY1, contains an additional hairpin."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Y_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:Y_RNA"^^xsd:string, "Y RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000405"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "Y_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000406 obo:IAO_0000115 "An intron within an intron. Twintrons are group II or III introns, into which another group II or III intron has been transposed."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Twintron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000406"^^xsd:string ; a owl:Class ; rdfs:label "twintron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0000407 obo:IAO_0000115 "Cytosolic 18S rRNA is an RNA component of the small subunit of cytosolic ribosomes in eukaryotes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/18S_ribosomal_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 18S rRNA"^^xsd:string, "cytosolic 18S ribosomal RNA"^^xsd:string, "cytosolic rRNA 18S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000407"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed to cytosolic_18S_rRNA from rRNA_18S on 10 June 2021 as per restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Request from EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_18S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000650 . obo:SO_0000408 obo:IAO_0000115 "The interbase position where something (eg an aberration) occurred."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000408"^^xsd:string ; a owl:Class ; rdfs:label "site"^^xsd:string ; owl:deprecated true . obo:SO_0000409 obo:IAO_0000115 "A biological_region of sequence that, in the molecule, interacts selectively and non-covalently with other molecules. A region on the surface of a molecule that may interact with another molecule. When applied to polypeptides: Amino acids involved in binding or interactions. It can also apply to an amino acid bond which is represented by the positions of the two flanking amino acids."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00033"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Binding_site"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:misc_binding"^^xsd:string, "binding site"^^xsd:string, "binding_or_interaction_site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "site"^^xsd:string ; oboInOwl:id "SO:0000409"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "See GO:0005488 : binding."^^xsd:string ; rdfs:label "binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000410 obo:IAO_0000115 "A binding site that, in the molecule, interacts selectively and non-covalently with polypeptide molecules."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:protein_bind"^^xsd:string, "protein binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000410"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "See GO:0042277 : peptide binding."^^xsd:string ; rdfs:label "protein_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000409 . obo:SO_0000411 obo:IAO_0000115 "A region that rescues."^^xsd:string ; oboInOwl:hasExactSynonym "rescue fragment"^^xsd:string, "rescue region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "rescue segment"^^xsd:string ; oboInOwl:id "SO:0000411"^^xsd:string ; a owl:Class ; rdfs:label "rescue_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000695, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000814 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000695 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000814 ] ) ] . obo:SO_0000412 obo:IAO_0000115 "A region of polynucleotide sequence produced by digestion with a restriction endonuclease."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Restriction_fragment"^^xsd:string ; oboInOwl:hasExactSynonym "restriction fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000412"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "restriction_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000143 . obo:SO_0000413 obo:IAO_0000115 "A region where the sequence differs from that of a specified sequence."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:misc_difference"^^xsd:string, "sequence difference"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000413"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "sequence_difference"^^xsd:string ; rdfs:subClassOf obo:SO_0000700 . obo:SO_0000414 obo:IAO_0000115 "An attribute to describe a feature that is invalidated due to genomic contamination."^^xsd:string ; oboInOwl:hasExactSynonym "invalidated by genomic contamination"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000414"^^xsd:string ; a owl:Class ; rdfs:label "invalidated_by_genomic_contamination"^^xsd:string ; rdfs:subClassOf obo:SO_0000790 . obo:SO_0000415 obo:IAO_0000115 "An attribute to describe a feature that is invalidated due to polyA priming."^^xsd:string ; oboInOwl:hasExactSynonym "invalidated by genomic polyA primed cDNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000415"^^xsd:string ; a owl:Class ; rdfs:label "invalidated_by_genomic_polyA_primed_cDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000790 . obo:SO_0000416 obo:IAO_0000115 "An attribute to describe a feature that is invalidated due to partial processing."^^xsd:string ; oboInOwl:hasExactSynonym "invalidated by partial processing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000416"^^xsd:string ; a owl:Class ; rdfs:label "invalidated_by_partial_processing"^^xsd:string ; rdfs:subClassOf obo:SO_0000790 . obo:SO_0000417 obo:IAO_0000115 "A structurally or functionally defined protein region. In proteins with multiple domains, the combination of the domains determines the function of the protein. A region which has been shown to recur throughout evolution."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00012"^^xsd:string, "BS:00134"^^xsd:string, "SO:0001069"^^xsd:string ; oboInOwl:hasBroadSynonym "domain"^^xsd:string, "structural domain"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide domain"^^xsd:string, "polypeptide_structural_domain"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000417"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range. Old definition from before biosapiens: A region of a single polypeptide chain that folds into an independent unit and exhibits biological activity. A polypeptide chain may have multiple domains."^^xsd:string ; rdfs:label "polypeptide_domain"^^xsd:string ; rdfs:subClassOf obo:SO_0001070, obo:SO_0100021 . obo:SO_0000418 obo:IAO_0000115 "The signal_peptide is a short region of the peptide located at the N-terminus that directs the protein to be secreted or part of membrane components."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00159"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Signal_peptide"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:sig_peptide"^^xsd:string, "signal peptide"^^xsd:string, "signal peptide coding sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "signal"^^xsd:string ; oboInOwl:id "SO:0000418"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "Old def before biosapiens:The sequence for an N-terminal domain of a secreted protein; this domain is involved in attaching nascent polypeptide to the membrane leader sequence."^^xsd:string ; rdfs:label "signal_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0001527, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002251 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001062 ] . obo:SO_0000419 obo:IAO_0000115 "The polypeptide sequence that remains when the cleaved peptide regions have been cleaved from the immature peptide."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00149"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:mat_peptide"^^xsd:string, "mature protein region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "chain"^^xsd:string, "mature peptide"^^xsd:string ; oboInOwl:id "SO:0000419"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "This term mature peptide, merged with the biosapiens term mature protein region and took that to be the new name. Old def: The coding sequence for the mature or final peptide or protein product following post-translational modification."^^xsd:string ; rdfs:label "mature_protein_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002249 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001063 ] . obo:SO_0000420 obo:IAO_0000115 "An inverted repeat (SO:0000294) occurring at the 5-prime termini of a DNA transposon."^^xsd:string ; oboInOwl:hasExactSynonym "5' TIR"^^xsd:string, "five prime terminal inverted repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000420"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_terminal_inverted_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000481 . obo:SO_0000421 obo:IAO_0000115 "An inverted repeat (SO:0000294) occurring at the 3-prime termini of a DNA transposon."^^xsd:string ; oboInOwl:hasExactSynonym "3' TIR"^^xsd:string, "three prime terminal inverted repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000421"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_terminal_inverted_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000481 . obo:SO_0000422 obo:IAO_0000115 "The U5 segment of the long terminal repeats."^^xsd:string ; oboInOwl:hasExactSynonym "U5 LTR region"^^xsd:string, "U5 long terminal repeat region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000422"^^xsd:string ; a owl:Class ; rdfs:label "U5_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000848 . obo:SO_0000423 obo:IAO_0000115 "The R segment of the long terminal repeats."^^xsd:string ; oboInOwl:hasExactSynonym "R LTR region"^^xsd:string, "R long terminal repeat region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000423"^^xsd:string ; a owl:Class ; rdfs:label "R_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000848 . obo:SO_0000424 obo:IAO_0000115 "The U3 segment of the long terminal repeats."^^xsd:string ; oboInOwl:hasExactSynonym "U3 LTR region"^^xsd:string, "U3 long terminal repeat region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000424"^^xsd:string ; a owl:Class ; rdfs:label "U3_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000848 . obo:SO_0000425 obo:IAO_0000115 "The long terminal repeat found at the five-prime end of the sequence to be inserted into the host genome."^^xsd:string ; oboInOwl:hasExactSynonym "5' LTR"^^xsd:string, "5' long terminal repeat"^^xsd:string, "five prime LTR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000425"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_LTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000286 . obo:SO_0000426 obo:IAO_0000115 "The long terminal repeat found at the three-prime end of the sequence to be inserted into the host genome."^^xsd:string ; oboInOwl:hasExactSynonym "3' LTR"^^xsd:string, "3' long terminal repeat"^^xsd:string, "three prime LTR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000426"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_LTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000286 . obo:SO_0000427 obo:IAO_0000115 "The R segment of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "R 5' long term repeat region"^^xsd:string, "R five prime LTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000427"^^xsd:string ; a owl:Class ; rdfs:label "R_five_prime_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000423, obo:SO_0000850 . obo:SO_0000428 obo:IAO_0000115 "The U5 segment of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "U5 5' long terminal repeat region"^^xsd:string, "U5 five prime LTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000428"^^xsd:string ; a owl:Class ; rdfs:label "U5_five_prime_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000422, obo:SO_0000850 . obo:SO_0000429 obo:IAO_0000115 "The U3 segment of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "U3 5' long term repeat region"^^xsd:string, "U3 five prime LTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000429"^^xsd:string ; a owl:Class ; rdfs:label "U3_five_prime_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000424, obo:SO_0000850 . obo:SO_0000430 obo:IAO_0000115 "The R segment of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "R 3' long terminal repeat region"^^xsd:string, "R three prime LTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000430"^^xsd:string ; a owl:Class ; rdfs:label "R_three_prime_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000849 . obo:SO_0000431 obo:IAO_0000115 "The U3 segment of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "U3 3' long terminal repeat region"^^xsd:string, "U3 three prime LTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000431"^^xsd:string ; a owl:Class ; rdfs:label "U3_three_prime_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000849 . obo:SO_0000432 obo:IAO_0000115 "The U5 segment of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "U5 3' long terminal repeat region"^^xsd:string, "U5 three prime LTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000432"^^xsd:string ; a owl:Class ; rdfs:label "U5_three_prime_LTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000849 . obo:SO_0000433 obo:IAO_0000115 "A polymeric tract, such as poly(dA), within a non_LTR_retrotransposon."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:non_ltr_retrotransposon_polymeric_tract"^^xsd:string, "non LTR retrotransposon polymeric tract"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000433"^^xsd:string ; a owl:Class ; rdfs:label "non_LTR_retrotransposon_polymeric_tract"^^xsd:string ; rdfs:subClassOf obo:SO_0000657, obo:SO_0000840, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000189 ] . obo:SO_0000434 obo:IAO_0000115 "A sequence of the target DNA that is duplicated when a transposable element or phage inserts; usually found at each end the insertion."^^xsd:string ; oboInOwl:hasExactSynonym "target site duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000434"^^xsd:string ; a owl:Class ; rdfs:label "target_site_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_0000314, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000101 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000314 [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000101 ] ) ] . obo:SO_0000435 obo:IAO_0000115 "A polypurine tract within an LTR_retrotransposon."^^xsd:string ; oboInOwl:hasExactSynonym "RR tract"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "LTR retrotransposon poly purine tract"^^xsd:string ; oboInOwl:id "SO:0000435"^^xsd:string ; a owl:Class ; rdfs:label "RR_tract"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000186 ] . obo:SO_0000436 obo:IAO_0000115 "A sequence that can autonomously replicate, as a plasmid, when transformed into a bacterial host."^^xsd:string ; oboInOwl:hasExactSynonym "autonomously replicating sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000436"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "ARS"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0000437 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000437"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_duplication"^^xsd:string ; owl:deprecated true . obo:SO_0000438 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000438"^^xsd:string ; a owl:Class ; rdfs:label "gene_not_polyadenylated"^^xsd:string ; owl:deprecated true . obo:SO_0000439 obo:IAO_0000115 "A ring chromosome is a chromosome whose arms have fused together to form a ring in an inverted fashion, often with the loss of the ends of the chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "inverted ring chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000439"^^xsd:string ; a owl:Class ; rdfs:label "inverted_ring_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000030, obo:SO_1000045 . obo:SO_0000440 obo:IAO_0000115 "A replicon that has been modified to act as a vector for foreign sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Vector_(molecular_biology)"^^xsd:string ; oboInOwl:hasExactSynonym "vector"^^xsd:string, "vector replicon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000440"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "vector_replicon"^^xsd:string ; rdfs:subClassOf obo:SO_0001235, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000151 ] . obo:SO_0000441 obo:IAO_0000115 "A single stranded oligonucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "single strand oligo"^^xsd:string, "single strand oligonucleotide"^^xsd:string, "single stranded oligonucleotide"^^xsd:string, "ss oligo"^^xsd:string, "ss oligonucleotide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000441"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "ss_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0000442 obo:IAO_0000115 "A double stranded oligonucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "double stranded oligonucleotide"^^xsd:string, "ds oligo"^^xsd:string, "ds-oligonucleotide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000442"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "ds_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0000443 obo:IAO_0000115 "An attribute to describe the kind of biological sequence."^^xsd:string ; oboInOwl:hasExactSynonym "polymer attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000443"^^xsd:string ; a owl:Class ; rdfs:label "polymer_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000400 . obo:SO_0000444 obo:IAO_0000115 "Non-coding exon in the 3' UTR."^^xsd:string ; oboInOwl:hasExactSynonym "three prime noncoding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000444"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_noncoding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000198 . obo:SO_0000445 obo:IAO_0000115 "Non-coding exon in the 5' UTR."^^xsd:string ; oboInOwl:hasExactSynonym "5' nc exon"^^xsd:string, "5' non coding exon"^^xsd:string, "five prime noncoding exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000445"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_noncoding_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000198 . obo:SO_0000446 obo:IAO_0000115 "Intron located in the untranslated region."^^xsd:string ; oboInOwl:hasExactSynonym "UTR intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000446"^^xsd:string ; a owl:Class ; rdfs:label "UTR_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0000447 obo:IAO_0000115 "An intron located in the 5' UTR."^^xsd:string ; oboInOwl:hasExactSynonym "five prime UTR intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000447"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_UTR_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000446 . obo:SO_0000448 obo:IAO_0000115 "An intron located in the 3' UTR."^^xsd:string ; oboInOwl:hasExactSynonym "three prime UTR intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000448"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_UTR_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000446 . obo:SO_0000449 obo:IAO_0000115 "A sequence of nucleotides or amino acids which, by design, has a \"random\" order of components, given a predetermined input frequency of these components."^^xsd:string ; oboInOwl:hasExactSynonym "random sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000449"^^xsd:string ; a owl:Class ; rdfs:label "random_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000351 . obo:SO_0000450 obo:IAO_0000115 "A light region between two darkly staining bands in a polytene chromosome."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "chromosome interband"^^xsd:string ; oboInOwl:id "SO:0000450"^^xsd:string ; a owl:Class ; rdfs:label "interband"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0000451 obo:IAO_0000115 "A gene that encodes a polyadenylated mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "gene with polyadenylated mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000451"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_polyadenylated_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001217, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000871 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001217 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000871 ] ) ] . obo:SO_0000452 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000452"^^xsd:string ; a owl:Class ; rdfs:label "transgene_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000453 obo:IAO_0000115 "A chromosome structure variant whereby a region of a chromosome has been transferred to another position. Among interchromosomal rearrangements, the term transposition is reserved for that class in which the telomeres of the chromosomes involved are coupled (that is to say, form the two ends of a single DNA molecule) as in wild-type."^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal transposition"^^xsd:string ; oboInOwl:hasNarrowSynonym "transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000453"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_0000454 obo:IAO_0000115 "A 17-28-nt, small interfering RNA derived from transcripts of repetitive elements."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/RasiRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:rasiRNA"^^xsd:string, "repeat associated small interfering RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000454"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "rasiRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000455 obo:IAO_0000115 "A gene that encodes an mRNA with a frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "gene with mRNA with frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000455"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_mRNA_with_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0001217, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000865 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001217 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000865 ] ) ] . obo:SO_0000456 obo:IAO_0000115 "A gene that is recombinationally rearranged."^^xsd:string ; oboInOwl:hasExactSynonym "recombinationally rearranged gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000456"^^xsd:string ; a owl:Class ; rdfs:label "recombinationally_rearranged_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000940 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000940 ] ) ] . obo:SO_0000457 obo:IAO_0000115 "A chromosome duplication involving an insertion from another chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "interchromosomal duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000457"^^xsd:string ; a owl:Class ; rdfs:label "interchromosomal_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000037 . obo:SO_0000458 obo:IAO_0000115 "Germline genomic DNA including D-region with 5' UTR and 3' UTR, also designated as D-segment."^^xsd:string ; oboInOwl:hasExactSynonym "D gene"^^xsd:string, "D-GENE"^^xsd:string, "INSDC_feature:D_segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000458"^^xsd:string ; a owl:Class ; rdfs:label "D_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000460 . obo:SO_0000459 obo:IAO_0000115 "A gene with a transcript that is trans-spliced."^^xsd:string ; oboInOwl:hasExactSynonym "gene with trans spliced transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000459"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_trans_spliced_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000479 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000479 ] ) ] . obo:SO_0000460 obo:IAO_0000115 "Germline genomic DNA with the sequence for a V, D, C, or J portion of an immunoglobulin/T-cell receptor."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immunoglobulin T cell receptor segment"^^xsd:string, "vertebrate_immunoglobulin/T-cell receptor gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000460"^^xsd:string ; a owl:Class ; rdfs:comment "I am using the term segment instead of gene here to avoid confusion with the region 'gene'."^^xsd:string ; rdfs:label "vertebrate_immunoglobulin_T_cell_receptor_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0000461 obo:IAO_0000115 "A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at each end of the inversion."^^xsd:string ; oboInOwl:hasExactSynonym "inversion derived bipartite deficiency"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000461"^^xsd:string ; a owl:Class ; rdfs:label "inversion_derived_bipartite_deficiency"^^xsd:string ; rdfs:subClassOf obo:SO_1000029 . obo:SO_0000462 obo:IAO_0000115 "A non-functional descendant of a functional entity."^^xsd:string ; oboInOwl:hasExactSynonym "pseudogenic region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000462"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "pseudogenic_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000463 obo:IAO_0000115 "A gene that encodes more than one transcript."^^xsd:string ; oboInOwl:hasExactSynonym "encodes alternately spliced transcripts"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000463"^^xsd:string ; a owl:Class ; rdfs:label "encodes_alternately_spliced_transcripts"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0000464 obo:IAO_0000115 "A non-functional descendant of an exon."^^xsd:string ; oboInOwl:hasExactSynonym "decayed exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000464"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Does not have to be part of a pseudogene."^^xsd:string ; rdfs:label "decayed_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000462, [ a owl:Restriction ; owl:onProperty so:non_functional_homolog_of ; owl:someValuesFrom obo:SO_0000147 ] . obo:SO_0000465 obo:IAO_0000115 "A chromosome deletion whereby a chromosome is generated by recombination between two inversions; there is a deficiency at one end of the inversion and a duplication at the other end of the inversion."^^xsd:string ; oboInOwl:hasExactSynonym "inversion derived deficiency plus duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000465"^^xsd:string ; a owl:Class ; rdfs:label "inversion_derived_deficiency_plus_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000029, obo:SO_1000038 . obo:SO_0000466 obo:IAO_0000115 "Germline genomic DNA including L-part1, V-intron and V-exon, with the 5' UTR and 3' UTR."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:V_segment"^^xsd:string, "V gene"^^xsd:string, "V gene segment"^^xsd:string, "V-GENE"^^xsd:string, "variable_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000466"^^xsd:string ; a owl:Class ; rdfs:label "V_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000460 . obo:SO_0000467 obo:IAO_0000115 "An attribute describing a gene sequence where the resulting protein is regulated by the stability of the resulting protein."^^xsd:string ; oboInOwl:hasExactSynonym "post translationally regulated by protein stability"^^xsd:string, "post-translationally regulated by protein stability"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000467"^^xsd:string ; a owl:Class ; rdfs:label "post_translationally_regulated_by_protein_stability"^^xsd:string ; rdfs:subClassOf obo:SO_0000130 . obo:SO_0000468 obo:IAO_0000115 "One of the pieces of sequence that make up a golden path."^^xsd:string ; oboInOwl:hasExactSynonym "golden path fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000468"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "golden_path_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000143, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000688 ] . obo:SO_0000469 obo:IAO_0000115 "An attribute describing a gene sequence where the resulting protein is modified to regulate it."^^xsd:string ; oboInOwl:hasExactSynonym "post translationally regulated by protein modification"^^xsd:string, "post-translationally regulated by protein modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000469"^^xsd:string ; a owl:Class ; rdfs:label "post_translationally_regulated_by_protein_modification"^^xsd:string ; rdfs:subClassOf obo:SO_0000130 . obo:SO_0000470 obo:IAO_0000115 "Germline genomic DNA of an immunoglobulin/T-cell receptor gene including J-region with 5' UTR (SO:0000204) and 3' UTR (SO:0000205), also designated as J-segment."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:J_segment"^^xsd:string, "J gene"^^xsd:string, "J-GENE"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000470"^^xsd:string ; a owl:Class ; rdfs:label "J_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000460 . obo:SO_0000471 obo:IAO_0000115 "The gene product is involved in its own transcriptional regulation."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000471"^^xsd:string ; a owl:Class ; rdfs:label "autoregulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000123 . obo:SO_0000472 obo:IAO_0000115 "A set of regions which overlap with minimal polymorphism to form a linear sequence."^^xsd:string ; oboInOwl:hasExactSynonym "tiling path"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000472"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "tiling_path"^^xsd:string ; rdfs:subClassOf obo:SO_0000353 . obo:SO_0000473 obo:IAO_0000115 "The gene product is involved in its own transcriptional regulation where it decreases transcription."^^xsd:string ; oboInOwl:hasExactSynonym "negatively autoregulated"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000473"^^xsd:string ; a owl:Class ; rdfs:label "negatively_autoregulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000126, obo:SO_0000471 . obo:SO_0000474 obo:IAO_0000115 "A piece of sequence that makes up a tiling_path (SO:0000472)."^^xsd:string ; oboInOwl:hasExactSynonym "tiling path fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000474"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "tiling_path_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000143, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000472 ] . obo:SO_0000475 obo:IAO_0000115 "The gene product is involved in its own transcriptional regulation, where it increases transcription."^^xsd:string ; oboInOwl:hasExactSynonym "positively autoregulated"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000475"^^xsd:string ; a owl:Class ; rdfs:label "positively_autoregulated"^^xsd:string ; rdfs:subClassOf obo:SO_0000125, obo:SO_0000471 . obo:SO_0000476 obo:IAO_0000115 "A DNA sequencer read which is part of a contig."^^xsd:string ; oboInOwl:hasExactSynonym "contig read"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000476"^^xsd:string ; a owl:Class ; rdfs:label "contig_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0000477 obo:IAO_0000115 "A gene that is polycistronic."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000477"^^xsd:string ; a owl:Class ; rdfs:label "polycistronic_gene"^^xsd:string ; owl:deprecated true . obo:SO_0000478 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene including C-region (and introns if present) with 5' UTR (SO:0000204) and 3' UTR (SO:0000205)."^^xsd:string ; oboInOwl:hasExactSynonym "C gene"^^xsd:string, "C_GENE"^^xsd:string, "INSDC_feature:C_region"^^xsd:string, "constant gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000478"^^xsd:string ; a owl:Class ; rdfs:label "C_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000460 . obo:SO_0000479 obo:IAO_0000115 "A transcript that is trans-spliced."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:tRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:trans_splicing"^^xsd:string, "trans spliced transcript"^^xsd:string, "trans-spliced transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000479"^^xsd:string ; a owl:Class ; rdfs:label "trans_spliced_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000870 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000870 ] ) ] . obo:SO_0000480 obo:IAO_0000115 "A clone which is part of a tiling path. A tiling path is a set of sequencing substrates, typically clones, which have been selected in order to efficiently cover a region of the genome in preparation for sequencing and assembly."^^xsd:string ; oboInOwl:hasExactSynonym "tiling path clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000480"^^xsd:string ; a owl:Class ; rdfs:label "tiling_path_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000151, obo:SO_0000474 . obo:SO_0000481 obo:IAO_0000115 "An inverted repeat (SO:0000294) occurring at the termini of a DNA transposon."^^xsd:string ; oboInOwl:hasExactSynonym "TIR"^^xsd:string, "terminal inverted repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000481"^^xsd:string ; a owl:Class ; rdfs:label "terminal_inverted_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000294, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000208 ] . obo:SO_0000482 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immunoglobulin T cell receptor gene cluster"^^xsd:string, "vertebrate_immunoglobulin/T-cell receptor gene cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000482"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immunoglobulin_T_cell_receptor_gene_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0000483 obo:IAO_0000115 "A primary transcript that is never translated into a protein."^^xsd:string ; oboInOwl:hasExactSynonym "nc primary transcript"^^xsd:string, "noncoding primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000483"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nc_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000185 . obo:SO_0000484 obo:IAO_0000115 "The sequence of the 3' exon that is not coding."^^xsd:string ; oboInOwl:hasExactSynonym "three prime coding exon noncoding region"^^xsd:string, "three_prime_exon_noncoding_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000484"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "three_prime_coding_exon_noncoding_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001214, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000202 ] . obo:SO_0000485 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene, and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(DJ)-J-CLUSTER"^^xsd:string, "DJ J cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000485"^^xsd:string ; a owl:Class ; rdfs:label "DJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000486 obo:IAO_0000115 "The sequence of the 5' exon preceding the start codon."^^xsd:string ; oboInOwl:hasExactSynonym "five prime coding exon noncoding region"^^xsd:string, "five_prime_exon_noncoding_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000486"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "five_prime_coding_exon_noncoding_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001214, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000200 ] . obo:SO_0000487 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(VDJ)-J-C-CLUSTER"^^xsd:string, "VDJ J C cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000487"^^xsd:string ; a owl:Class ; rdfs:label "VDJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000488 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(VDJ)-J-CLUSTER"^^xsd:string, "VDJ J cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000488"^^xsd:string ; a owl:Class ; rdfs:label "VDJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000489 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "VJ C cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(VJ)-C-CLUSTER"^^xsd:string ; oboInOwl:id "SO:0000489"^^xsd:string ; a owl:Class ; rdfs:label "VJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000490 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(VJ)-J-C-CLUSTER"^^xsd:string, "VJ J C cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000490"^^xsd:string ; a owl:Class ; rdfs:label "VJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000491 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(VJ)-J-CLUSTER"^^xsd:string, "VJ J cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000491"^^xsd:string ; a owl:Class ; rdfs:label "VJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000492 obo:IAO_0000115 "Recombination signal including D-heptamer, D-spacer and D-nonamer in 5' of D-region of a D-gene or D-sequence."^^xsd:string ; oboInOwl:hasExactSynonym "D gene recombination feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000492"^^xsd:string ; a owl:Class ; rdfs:label "D_gene_recombination_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000939 . obo:SO_0000493 obo:IAO_0000115 "7 nucleotide recombination site like CACAGTG, part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "3'D-HEPTAMER"^^xsd:string, "three prime D heptamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000493"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_D_heptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000561, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000570 ] . obo:SO_0000494 obo:IAO_0000115 "A 9 nucleotide recombination site (e.g. ACAAAAACC), part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "3'D-NOMAMER"^^xsd:string, "three prime D nonamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000494"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_D_nonamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000562, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000570 ] . obo:SO_0000495 obo:IAO_0000115 "A 12 or 23 nucleotide spacer between the 3'D-HEPTAMER and 3'D-NONAMER of a 3'D-RS."^^xsd:string ; oboInOwl:hasExactSynonym "3'D-SPACER"^^xsd:string, "three prime D spacer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000495"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_D_spacer"^^xsd:string ; rdfs:subClassOf obo:SO_0000563, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000570 ] . obo:SO_0000496 obo:IAO_0000115 "7 nucleotide recombination site (e.g. CACTGTG), part of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "5'D-HEPTAMER"^^xsd:string, "five prime D heptamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000496"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_D_heptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000561, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000556 ] . obo:SO_0000497 obo:IAO_0000115 "9 nucleotide recombination site (e.g. GGTTTTTGT), part of a five_prime_D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "5'D-NONAMER"^^xsd:string, "five prime D nonamer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000497"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_D_nonamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000562, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000556 ] . obo:SO_0000498 obo:IAO_0000115 "12 or 23 nucleotide spacer between the 5' D-heptamer (SO:0000496) and 5' D-nonamer (SO:0000497) of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "5'-SPACER"^^xsd:string, "five prime D spacer"^^xsd:string, "five prime D-spacer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000498"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_D_spacer"^^xsd:string ; rdfs:subClassOf obo:SO_0000563, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000556 ] . obo:SO_0000499 obo:IAO_0000115 "A continuous piece of sequence similar to the 'virtual contig' concept of the Ensembl database."^^xsd:string ; oboInOwl:hasExactSynonym "virtual sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000499"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "virtual_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000353 . obo:SO_0000500 obo:IAO_0000115 "A type of non-canonical base-pairing. This is less energetically favourable than watson crick base pairing. Hoogsteen GC base pairs only have two hydrogen bonds."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Hoogsteen_base_pair"^^xsd:string ; oboInOwl:hasExactSynonym "Hoogsteen base pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000500"^^xsd:string ; a owl:Class ; rdfs:label "Hoogsteen_base_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000028 . obo:SO_0000501 obo:IAO_0000115 "A type of non-canonical base-pairing."^^xsd:string ; oboInOwl:hasExactSynonym "reverse Hoogsteen base pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000501"^^xsd:string ; a owl:Class ; rdfs:label "reverse_Hoogsteen_base_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000028 . obo:SO_0000502 obo:IAO_0000115 "A region of sequence that is transcribed. This region may cover the transcript of a gene, it may emcompas the sequence covered by all of the transcripts of a alternately spliced gene, or it may cover the region transcribed by a polycistronic transcript. A gene may have 1 or more transcribed regions and a transcribed_region may belong to one or more genes."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000502"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This concept cam about as a direct result of the SO meeting August 2004.nThe exact nature of the relationship between transcribed_region and gene is still up for discussion. We are going with 'associated_with' for the time being."^^xsd:string ; rdfs:label "transcribed_region"^^xsd:string ; owl:deprecated true . obo:SO_0000503 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000503"^^xsd:string ; a owl:Class ; rdfs:label "alternately_spliced_gene_encodeing_one_transcript"^^xsd:string ; owl:deprecated true . obo:SO_0000504 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D DJ C cluster"^^xsd:string, "D-(DJ)-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000504"^^xsd:string ; a owl:Class ; rdfs:label "D_DJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000505 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene and one DJ-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D DJ cluster"^^xsd:string, "D-(DJ)-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000505"^^xsd:string ; a owl:Class ; rdfs:label "D_DJ_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000506 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D DJ J C cluster"^^xsd:string, "D-(DJ)-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000506"^^xsd:string ; a owl:Class ; rdfs:label "D_DJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000507 obo:IAO_0000115 "A non functional descendant of an exon, part of a pseudogene."^^xsd:string ; oboInOwl:hasExactSynonym "pseudogenic exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000507"^^xsd:string ; a owl:Class ; rdfs:comment "This is the analog of the exon of a functional gene. The term was requested by Rama - SGD to allow the annotation of the parts of a pseudogene. Non-functional is defined as either its transcription or translation (or both) are prevented due to one or more mutations."^^xsd:string ; rdfs:label "pseudogenic_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000462, [ a owl:Restriction ; owl:onProperty so:non_functional_homolog_of ; owl:someValuesFrom obo:SO_0000147 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000516 ] . obo:SO_0000508 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D DJ J cluster"^^xsd:string, "D-(DJ)-J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000508"^^xsd:string ; a owl:Class ; rdfs:label "D_DJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000509 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D J C cluster"^^xsd:string, "D-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000509"^^xsd:string ; a owl:Class ; rdfs:label "D_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ] . obo:SO_0000510 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including L-part1, V-intron and V-D-exon, with the 5' UTR (SO:0000204) and 3' UTR (SO:0000205)."^^xsd:string ; oboInOwl:hasExactSynonym "VD gene"^^xsd:string, "V_D_GENE"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000510"^^xsd:string ; a owl:Class ; rdfs:label "VD_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000936 . obo:SO_0000511 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "J C cluster"^^xsd:string, "J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000511"^^xsd:string ; a owl:Class ; rdfs:label "J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ] . obo:SO_0000512 obo:IAO_0000115 "A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at one end and presumed to have a deficiency or duplication at the other end of the inversion."^^xsd:string ; oboInOwl:hasExactSynonym "inversion derived deficiency plus aneuploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000512"^^xsd:string ; a owl:Class ; rdfs:label "inversion_derived_deficiency_plus_aneuploid"^^xsd:string ; rdfs:subClassOf obo:SO_1000029 . obo:SO_0000513 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "J cluster"^^xsd:string, "J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000513"^^xsd:string ; a owl:Class ; rdfs:label "J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ] . obo:SO_0000514 obo:IAO_0000115 "9 nucleotide recombination site (e.g. GGTTTTTGT), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "J nonamer"^^xsd:string, "J-NONAMER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000514"^^xsd:string ; a owl:Class ; rdfs:label "J_nonamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000562, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000302 ] . obo:SO_0000515 obo:IAO_0000115 "7 nucleotide recombination site (e.g. CACAGTG), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "J heptamer"^^xsd:string, "J-HEPTAMER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000515"^^xsd:string ; a owl:Class ; rdfs:label "J_heptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000561, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000302 ] . obo:SO_0000516 obo:IAO_0000115 "A non functional descendant of a transcript, part of a pseudogene."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:pseudo"^^xsd:string, "pseudogenic transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000516"^^xsd:string ; a owl:Class ; rdfs:comment "This is the analog of the transcript of a functional gene. The term was requested by Rama - SGD to allow the annotation of the parts of a pseudogene. Non-functional is defined as either its transcription or translation (or both) are prevented due to one or more mutations."^^xsd:string ; rdfs:label "pseudogenic_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000462, [ a owl:Restriction ; owl:onProperty so:non_functional_homolog_of ; owl:someValuesFrom obo:SO_0000673 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000336 ] . obo:SO_0000517 obo:IAO_0000115 "12 or 23 nucleotide spacer between the J-nonamer and the J-heptamer of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "J spacer"^^xsd:string, "J-SPACER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000517"^^xsd:string ; a owl:Class ; rdfs:label "J_spacer"^^xsd:string ; rdfs:subClassOf obo:SO_0000563, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000302 ] . obo:SO_0000518 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one DJ-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V DJ cluster"^^xsd:string, "V-(DJ)-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000518"^^xsd:string ; a owl:Class ; rdfs:label "V_DJ_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000519 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V DJ J cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "V-(DJ)-J-CLUSTER"^^xsd:string ; oboInOwl:id "SO:0000519"^^xsd:string ; a owl:Class ; rdfs:label "V_DJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000520 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VDJ C cluster"^^xsd:string, "V-(VDJ)-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000520"^^xsd:string ; a owl:Class ; rdfs:label "V_VDJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000521 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VDJ-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VDJ cluster"^^xsd:string, "V-(VDJ)-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000521"^^xsd:string ; a owl:Class ; rdfs:label "V_VDJ_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000522 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VDJ J cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "V-(VDJ)-J-CLUSTER"^^xsd:string ; oboInOwl:id "SO:0000522"^^xsd:string ; a owl:Class ; rdfs:label "V_VDJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000523 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VJ C cluster"^^xsd:string, "V-(VJ)-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000523"^^xsd:string ; a owl:Class ; rdfs:label "V_VJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000524 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VJ-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VJ cluster"^^xsd:string, "V-(VJ)-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000524"^^xsd:string ; a owl:Class ; rdfs:label "V_VJ_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000525 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VJ J cluster"^^xsd:string, "V-(VJ)-J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000525"^^xsd:string ; a owl:Class ; rdfs:label "V_VJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000526 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one V-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V cluster"^^xsd:string, "V-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000526"^^xsd:string ; a owl:Class ; rdfs:label "V_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ] . obo:SO_0000527 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V D DJ C cluster"^^xsd:string, "V-D-(DJ)-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000527"^^xsd:string ; a owl:Class ; rdfs:label "V_D_DJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000528 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V D DJ cluster"^^xsd:string, "V-D-(DJ)-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000528"^^xsd:string ; a owl:Class ; rdfs:label "V_D_DJ_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000529 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V D DJ J C cluster"^^xsd:string, "V-D-(DJ)-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000529"^^xsd:string ; a owl:Class ; rdfs:label "V_D_DJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000530 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V D DJ J cluster"^^xsd:string, "V-D-(DJ)-J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000530"^^xsd:string ; a owl:Class ; rdfs:label "V_D_DJ_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000531 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V D J C cluster"^^xsd:string, "V-D-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000531"^^xsd:string ; a owl:Class ; rdfs:label "V_D_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ] . obo:SO_0000532 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V D J cluster"^^xsd:string, "V-D-J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000532"^^xsd:string ; a owl:Class ; rdfs:label "V_D_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ] . obo:SO_0000533 obo:IAO_0000115 "7 nucleotide recombination site (e.g. CACAGTG), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "V heptamer"^^xsd:string, "V-HEPTAMER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000533"^^xsd:string ; a owl:Class ; rdfs:label "V_heptamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000561, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000538 ] . obo:SO_0000534 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V J cluster"^^xsd:string, "V-J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000534"^^xsd:string ; a owl:Class ; rdfs:label "V_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ] . obo:SO_0000535 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V J C cluster"^^xsd:string, "V-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000535"^^xsd:string ; a owl:Class ; rdfs:label "V_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ] . obo:SO_0000536 obo:IAO_0000115 "9 nucleotide recombination site (e.g. ACAAAAACC), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "V nonamer"^^xsd:string, "V-NONAMER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000536"^^xsd:string ; a owl:Class ; rdfs:label "V_nonamer"^^xsd:string ; rdfs:subClassOf obo:SO_0000562, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000538 ] . obo:SO_0000537 obo:IAO_0000115 "12 or 23 nucleotide spacer between the V-heptamer and the V-nonamer of a V-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "V spacer"^^xsd:string, "V-SPACER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000537"^^xsd:string ; a owl:Class ; rdfs:label "V_spacer"^^xsd:string ; rdfs:subClassOf obo:SO_0000563, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000538 ] . obo:SO_0000538 obo:IAO_0000115 "Recombination signal including V-heptamer, V-spacer and V-nonamer in 3' of V-region of a V-gene or V-sequence of an immunoglobulin/T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "V gene recombination feature"^^xsd:string, "V-RS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000538"^^xsd:string ; a owl:Class ; rdfs:label "V_gene_recombination_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000939 . obo:SO_0000539 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(DJ)-C-CLUSTER"^^xsd:string, "DJ C cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000539"^^xsd:string ; a owl:Class ; rdfs:label "DJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000540 obo:IAO_0000115 "Genomic DNA in rearranged configuration including at least one D-J-GENE, one J-GENE and one C-GENE."^^xsd:string ; oboInOwl:hasExactSynonym "(DJ)-J-C-CLUSTER"^^xsd:string, "DJ J C cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000540"^^xsd:string ; a owl:Class ; rdfs:label "DJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000541 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "(VDJ)-C-CLUSTER"^^xsd:string, "VDJ C cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000541"^^xsd:string ; a owl:Class ; rdfs:label "VDJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000542 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V DJ C cluster"^^xsd:string, "V-(DJ)-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000542"^^xsd:string ; a owl:Class ; rdfs:label "V_DJ_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000543 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000543"^^xsd:string ; a owl:Class ; rdfs:label "alternately_spliced_gene_encoding_greater_than_one_transcript"^^xsd:string ; owl:deprecated true . obo:SO_0000544 obo:IAO_0000115 "A rolling circle transposon. Autonomous helitrons encode a 5'-to-3' DNA helicase and nuclease/ligase similar to those encoded by known rolling-circle replicons."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Helitron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ISCR"^^xsd:string ; oboInOwl:id "SO:0000544"^^xsd:string ; a owl:Class ; rdfs:label "helitron"^^xsd:string ; rdfs:subClassOf obo:SO_0000182 . obo:SO_0000545 obo:IAO_0000115 "The pseudoknots involved in recoding are unique in that, as they play their role as a structure, they are immediately unfolded and their now linear sequence serves as a template for decoding."^^xsd:string ; oboInOwl:hasExactSynonym "recoding pseudoknot"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000545"^^xsd:string ; a owl:Class ; rdfs:label "recoding_pseudoknot"^^xsd:string ; rdfs:subClassOf obo:SO_0000591, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_1001268 ] . obo:SO_0000546 obo:IAO_0000115 "An oligonucleotide sequence that was designed by an experimenter that may or may not correspond with any natural sequence."^^xsd:string ; oboInOwl:hasExactSynonym "designed sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000546"^^xsd:string ; a owl:Class ; rdfs:label "designed_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000351 . obo:SO_0000547 obo:IAO_0000115 "A chromosome generated by recombination between two inversions; there is a duplication at each end of the inversion."^^xsd:string ; oboInOwl:hasExactSynonym "inversion derived bipartite duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000547"^^xsd:string ; a owl:Class ; rdfs:label "inversion_derived_bipartite_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000038 . obo:SO_0000548 obo:IAO_0000115 "A gene that encodes a transcript that is edited."^^xsd:string ; oboInOwl:hasExactSynonym "gene with edited transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000548"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_edited_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0001217, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000873 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001217 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000873 ] ) ] . obo:SO_0000549 obo:IAO_0000115 "A chromosome generated by recombination between two inversions; has a duplication at one end and presumed to have a deficiency or duplication at the other end of the inversion."^^xsd:string ; oboInOwl:hasExactSynonym "inversion derived duplication plus aneuploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000549"^^xsd:string ; a owl:Class ; rdfs:label "inversion_derived_duplication_plus_aneuploid"^^xsd:string ; rdfs:subClassOf obo:SO_1000038 . obo:SO_0000550 obo:IAO_0000115 "A chromosome structural variation whereby either a chromosome exists in addition to the normal chromosome complement or is lacking."^^xsd:string ; oboInOwl:hasExactSynonym "aneuploid chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000550"^^xsd:string ; a owl:Class ; rdfs:comment "Examples are Nullo-4, Haplo-4 and triplo-4 in Drosophila."^^xsd:string ; rdfs:label "aneuploid_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_0000551 obo:IAO_0000115 "The recognition sequence necessary for endonuclease cleavage of an RNA transcript that is followed by polyadenylation; consensus=AATAAA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:polyA_signal_sequence"^^xsd:string, "poly(A) signal"^^xsd:string, "polyA signal sequence"^^xsd:string, "polyadenylation termination signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000551"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "polyA_signal_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0000552 obo:IAO_0000115 "A region in the 5' UTR that pairs with the 16S rRNA during formation of the preinitiation complex."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Shine-Dalgarno_sequence"^^xsd:string ; oboInOwl:hasExactSynonym "Shine Dalgarno sequence"^^xsd:string, "Shine-Dalgarno sequence"^^xsd:string, "five prime ribosome binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "RBS"^^xsd:string ; oboInOwl:id "SO:0000552"^^xsd:string ; a owl:Class ; rdfs:comment "Not found in Eukaryotic sequence."^^xsd:string ; rdfs:label "Shine_Dalgarno_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000139 . obo:SO_0000553 obo:IAO_0000115 "The site on an RNA transcript to which will be added adenine residues by post-transcriptional polyadenylation. The boundary between the UTR and the polyA sequence."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001430"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:polyA_site"^^xsd:string, "polyA cleavage site"^^xsd:string, "polyA junction"^^xsd:string, "polyA site"^^xsd:string, "polyA_junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "polyadenylation site"^^xsd:string ; oboInOwl:id "SO:0000553"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "polyA_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000699, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000205 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000233 ] . obo:SO_0000554 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000554"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_deficiency_plus_duplication"^^xsd:string ; owl:deprecated true . obo:SO_0000555 obo:IAO_0000115 "5' most region of a precursor transcript that is clipped off during processing."^^xsd:string ; oboInOwl:hasExactSynonym "five prime clip"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "5' clip"^^xsd:string ; oboInOwl:id "SO:0000555"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_clip"^^xsd:string ; rdfs:subClassOf obo:SO_0000303 . obo:SO_0000556 obo:IAO_0000115 "Recombination signal of an immunoglobulin/T-cell receptor gene, including the 5' D-nonamer (SO:0000497), 5' D-spacer (SO:0000498), and 5' D-heptamer (SO:0000396) in 5' of the D-region of a D-gene, or in 5' of the D-region of DJ-gene."^^xsd:string ; oboInOwl:hasExactSynonym "5'RS"^^xsd:string, "five prime D recombination signal sequence"^^xsd:string, "five prime D-recombination signal sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000556"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_D_recombination_signal_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000492 . obo:SO_0000557 obo:IAO_0000115 "3'-most region of a precursor transcript that is clipped off during processing."^^xsd:string ; oboInOwl:hasExactSynonym "3'-clip"^^xsd:string, "three prime clip"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000557"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_clip"^^xsd:string ; rdfs:subClassOf obo:SO_0000303 . obo:SO_0000558 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene including more than one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "C cluster"^^xsd:string, "C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000558"^^xsd:string ; a owl:Class ; rdfs:label "C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ] . obo:SO_0000559 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one D-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D cluster"^^xsd:string, "D-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000559"^^xsd:string ; a owl:Class ; rdfs:label "D_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ] . obo:SO_0000560 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene and one J-gene."^^xsd:string ; oboInOwl:hasExactSynonym "D J cluster"^^xsd:string, "D-J-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000560"^^xsd:string ; a owl:Class ; rdfs:label "D_J_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000482, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000458 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ] . obo:SO_0000561 obo:IAO_0000115 "Seven nucleotide recombination site (e.g. CACAGTG), part of V-gene, D-gene or J-gene recombination feature of an immunoglobulin or T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "heptamer of recombination feature of vertebrate immune system gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "HEPTAMER"^^xsd:string ; oboInOwl:id "SO:0000561"^^xsd:string ; a owl:Class ; rdfs:label "heptamer_of_recombination_feature_of_vertebrate_immune_system_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000939 . obo:SO_0000562 obo:IAO_0000115 "Nine nucleotide recombination site, part of V-gene, D-gene or J-gene recombination feature of an immunoglobulin or T-cell receptor gene."^^xsd:string ; oboInOwl:hasExactSynonym "nonamer of recombination feature of vertebrate immune system gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000562"^^xsd:string ; a owl:Class ; rdfs:label "nonamer_of_recombination_feature_of_vertebrate_immune_system_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000939 . obo:SO_0000563 obo:IAO_0000115 "A 12 or 23 nucleotide spacer between two regions of an immunoglobulin/T-cell receptor gene that may be rearranged by recombinase."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immune system gene recombination spacer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000563"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immune_system_gene_recombination_spacer"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0000564 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V DJ J C cluster"^^xsd:string, "V-(DJ)-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000564"^^xsd:string ; a owl:Class ; rdfs:label "V_DJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000572 ] . obo:SO_0000565 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VDJ J C cluster"^^xsd:string, "V-(VDJ)-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000565"^^xsd:string ; a owl:Class ; rdfs:label "V_VDJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000574 ] . obo:SO_0000566 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene, one J-gene and one C-gene."^^xsd:string ; oboInOwl:hasExactSynonym "V VJ J C cluster"^^xsd:string, "V-(VJ)-J-C-CLUSTER"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000566"^^xsd:string ; a owl:Class ; rdfs:label "V_VJ_J_C_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000938, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000466 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000470 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000478 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000576 ] . obo:SO_0000567 obo:IAO_0000115 "A chromosome may be generated by recombination between two inversions; presumed to have a deficiency or duplication at each end of the inversion."^^xsd:string ; oboInOwl:hasExactSynonym "inversion derived aneuploid chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000567"^^xsd:string ; a owl:Class ; rdfs:label "inversion_derived_aneuploid_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000550 . obo:SO_0000568 obo:IAO_0000115 "A promoter that can allow for transcription in both directions."^^xsd:string ; oboInOwl:hasExactSynonym "bidirectional promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000568"^^xsd:string ; a owl:Class ; rdfs:comment "Definition updated in Aug 2020 by Dave Sant."^^xsd:string ; rdfs:label "bidirectional_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167 . obo:SO_0000569 obo:IAO_0000115 "An attribute of a feature that occurred as the product of a reverse transcriptase mediated event."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0100042"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Retrotransposed"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000569"^^xsd:string ; a owl:Class ; rdfs:comment "GO:0003964 RNA-directed DNA polymerase activity."^^xsd:string ; rdfs:label "retrotransposed"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000570 obo:IAO_0000115 "Recombination signal of an immunoglobulin/T-cell receptor gene, including the 3' D-heptamer (SO:0000493), 3' D-spacer, and 3' D-nonamer (SO:0000494) in 3' of the D-region of a D-gene."^^xsd:string ; oboInOwl:hasExactSynonym "3'D-RS"^^xsd:string, "three prime D recombination signal sequence"^^xsd:string, "three_prime_D-recombination_signal_sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000570"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_D_recombination_signal_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000492 . obo:SO_0000571 obo:IAO_0000115 "A region that can be transcribed into a microRNA (miRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "miRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000571"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000572 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including D-J-region with 5' UTR and 3' UTR, also designated as D-J-segment."^^xsd:string ; oboInOwl:hasExactSynonym "D-J-GENE"^^xsd:string, "DJ gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000572"^^xsd:string ; a owl:Class ; rdfs:label "DJ_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000936 . obo:SO_0000573 obo:IAO_0000115 "A region that can be transcribed into a ribosomal RNA (rRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "rRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000573"^^xsd:string ; a owl:Class ; rdfs:label "rRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000574 obo:IAO_0000115 "Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-D-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205)."^^xsd:string ; oboInOwl:hasExactSynonym "V-D-J-GENE"^^xsd:string, "VDJ gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000574"^^xsd:string ; a owl:Class ; rdfs:label "VDJ_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000936 . obo:SO_0000575 obo:IAO_0000115 "A region that can be transcribed into a small cytoplasmic RNA (scRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "scRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000575"^^xsd:string ; a owl:Class ; rdfs:label "scRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000576 obo:IAO_0000115 "Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205)."^^xsd:string ; oboInOwl:hasExactSynonym "V-J-GENE"^^xsd:string, "VJ gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000576"^^xsd:string ; a owl:Class ; rdfs:label "VJ_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000936 . obo:SO_0000577 obo:IAO_0000115 "A region of chromosome where the spindle fibers attach during mitosis and meiosis."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Centromere"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:centromere"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000577"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "centromere"^^xsd:string ; rdfs:subClassOf obo:SO_0000628 . obo:SO_0000578 obo:IAO_0000115 "A region that can be transcribed into a small nucleolar RNA (snoRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "snoRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000578"^^xsd:string ; a owl:Class ; rdfs:label "snoRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000579 obo:IAO_0000115 "A locatable feature on a transcript that is edited."^^xsd:string ; oboInOwl:hasExactSynonym "edited transcript feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000579"^^xsd:string ; a owl:Class ; rdfs:label "edited_transcript_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000833 . obo:SO_0000580 obo:IAO_0000115 "A primary transcript encoding a methylation guide small nucleolar RNA."^^xsd:string ; oboInOwl:hasExactSynonym "methylation guide snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000580"^^xsd:string ; a owl:Class ; rdfs:label "methylation_guide_snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000232 . obo:SO_0000581 obo:IAO_0000115 "A structure consisting of a 7-methylguanosine in 5'-5' triphosphate linkage with the first nucleotide of an mRNA. It is added post-transcriptionally, and is not encoded in the DNA."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/5%27_cap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000581"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "cap"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000582 obo:IAO_0000115 "A primary transcript encoding an rRNA cleavage snoRNA."^^xsd:string ; oboInOwl:hasExactSynonym "rRNA cleavage snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000582"^^xsd:string ; a owl:Class ; rdfs:label "rRNA_cleavage_snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000232 . obo:SO_0000583 obo:IAO_0000115 "The region of a transcript that will be edited."^^xsd:string ; oboInOwl:hasExactSynonym "pre edited region"^^xsd:string, "pre-edited region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000583"^^xsd:string ; a owl:Class ; rdfs:label "pre_edited_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000579 . obo:SO_0000584 obo:IAO_0000115 "A tmRNA liberates a mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNAs genes have been found encoded in two parts. TmRNAs have been identified in eubacteria and some chloroplasts but are absent from archeal and Eukaryote nuclear genomes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/TmRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:tmRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "10Sa RNA"^^xsd:string, "ssrA"^^xsd:string ; oboInOwl:id "SO:0000584"^^xsd:string ; a owl:Class ; rdfs:label "tmRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000585 obo:IAO_0000115 "snoRNA that is associated with guiding methylation of nucleotides. It contains two short conserved sequence motifs: C (RUGAUGA) near the 5-prime end and D (CUGA) near the 3-prime end."^^xsd:string ; oboInOwl:hasExactSynonym "C/D box snoRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000585"^^xsd:string ; a owl:Class ; rdfs:label "C_D_box_snoRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000578 . obo:SO_0000586 obo:IAO_0000115 "A primary transcript encoding a tmRNA (SO:0000584)."^^xsd:string ; oboInOwl:hasExactSynonym "tmRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "10Sa RNA primary transcript"^^xsd:string, "ssrA RNA primary transcript"^^xsd:string ; oboInOwl:id "SO:0000586"^^xsd:string ; a owl:Class ; rdfs:label "tmRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000587 obo:IAO_0000115 "Group I catalytic introns are large self-splicing ribozymes. They catalyze their own excision from mRNA, tRNA and rRNA precursors in a wide range of organisms. The core secondary structure consists of 9 paired regions (P1-P9). These fold to essentially two domains, the P4-P6 domain (formed from the stacking of P5, P4, P6 and P6a helices) and the P3-P9 domain (formed from the P8, P3, P7 and P9 helices). Group I catalytic introns often have long ORFs inserted in loop regions."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Group_I_intron"^^xsd:string ; oboInOwl:hasExactSynonym "group I intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000587"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "GO:0000372."^^xsd:string ; rdfs:label "group_I_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000588 . obo:SO_0000588 obo:IAO_0000115 "A self spliced intron."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:autocatalytically_spliced_intron"^^xsd:string, "autocatalytically spliced intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000588"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "autocatalytically_spliced_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001186 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000188 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001186 ] ) ] . obo:SO_0000589 obo:IAO_0000115 "A primary transcript encoding a signal recognition particle RNA."^^xsd:string ; oboInOwl:hasExactSynonym "SRP RNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000589"^^xsd:string ; a owl:Class ; rdfs:label "SRP_RNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0000590 obo:IAO_0000115 "The signal recognition particle (SRP) is a universally conserved ribonucleoprotein. It is involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most eubacteria, the SRP consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Eukaryotic and archaeal 7S RNAs have very similar secondary structures, with eight helical elements. These fold into the Alu and S domains, separated by a long linker region. Eubacterial SRP is generally a simpler structure, with the M domain of Ffh bound to a region of the 4.5S RNA that corresponds to helix 8 of the eukaryotic and archaeal SRP S domain. Some Gram-positive bacteria (e.g. Bacillus subtilis), however, have a larger SRP RNA that also has an Alu domain. The Alu domain is thought to mediate the peptide chain elongation retardation function of the SRP. The universally conserved helix which interacts with the SRP54/Ffh M domain mediates signal sequence recognition. In eukaryotes and archaea, the SRP19-helix 6 complex is thought to be involved in SRP assembly and stabilizes helix 8 for SRP54 binding."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:SRP_RNA"^^xsd:string, "SRP RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "7S RNA"^^xsd:string, "signal recognition particle RNA"^^xsd:string ; oboInOwl:id "SO:0000590"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "SRP_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000589 ] . obo:SO_0000591 obo:IAO_0000115 "A tertiary structure in RNA where nucleotides in a loop form base pairs with a region of RNA downstream of the loop."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Pseudoknot"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000591"^^xsd:string ; a owl:Class ; rdfs:label "pseudoknot"^^xsd:string ; rdfs:subClassOf obo:SO_0000002 . obo:SO_0000592 obo:IAO_0000115 "A pseudoknot which contains two stems and at least two loops."^^xsd:string ; oboInOwl:hasExactSynonym "H pseudoknot"^^xsd:string, "H-pseudoknot"^^xsd:string, "H-type pseudoknot"^^xsd:string, "classical pseudoknot"^^xsd:string, "hairpin-type pseudoknot"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000592"^^xsd:string ; a owl:Class ; rdfs:label "H_pseudoknot"^^xsd:string ; rdfs:subClassOf obo:SO_0000591 . obo:SO_0000593 obo:IAO_0000115 "Most box C/D snoRNAs also contain long (>10 nt) sequences complementary to rRNA. Boxes C and D, as well as boxes C' and D', are usually located in close proximity, and form a structure known as the box C/D motif. This motif is important for snoRNA stability, processing, nucleolar targeting and function. A small number of box C/D snoRNAs are involved in rRNA processing; most, however, are known or predicted to serve as guide RNAs in ribose methylation of rRNA. Targeting involves direct base pairing of the snoRNA at the rRNA site to be modified and selection of a rRNA nucleotide a fixed distance from box D or D'."^^xsd:string ; oboInOwl:hasExactSynonym "C D box snoRNA"^^xsd:string, "C/D box snoRNA"^^xsd:string, "box C/D snoRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000593"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "C_D_box_snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000275, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000595 ] . obo:SO_0000594 obo:IAO_0000115 "Members of the box H/ACA family contain an ACA triplet, exactly 3 nt upstream from the 3' end and an H-box in a hinge region that links two structurally similar functional domains of the molecule. Both boxes are important for snoRNA biosynthesis and function. A few box H/ACA snoRNAs are involved in rRNA processing; most others are known or predicted to participate in selection of uridine nucleosides in rRNA to be converted to pseudouridines. Site selection is mediated by direct base pairing of the snoRNA with rRNA through one or both targeting domains."^^xsd:string ; oboInOwl:hasExactSynonym "H ACA box snoRNA"^^xsd:string, "H/ACA box snoRNA"^^xsd:string, "box H/ACA snoRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000594"^^xsd:string ; a owl:Class ; rdfs:label "H_ACA_box_snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000275, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000596 ] . obo:SO_0000595 obo:IAO_0000115 "A primary transcript encoding a small nucleolar RNA of the box C/D family."^^xsd:string ; oboInOwl:hasExactSynonym "C/D box snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000595"^^xsd:string ; a owl:Class ; rdfs:label "C_D_box_snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000232 . obo:SO_0000596 obo:IAO_0000115 "A primary transcript encoding a small nucleolar RNA of the box H/ACA family."^^xsd:string ; oboInOwl:hasExactSynonym "H ACA box snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000596"^^xsd:string ; a owl:Class ; rdfs:label "H_ACA_box_snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000232 . obo:SO_0000597 obo:IAO_0000115 "The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000597"^^xsd:string ; a owl:Class ; rdfs:label "transcript_edited_by_U_insertion/deletion"^^xsd:string ; owl:deprecated true . obo:SO_0000598 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "transcript_edited_by_C-insertion_and_dinucleotide_insertion"^^xsd:string ; oboInOwl:id "SO:0000598"^^xsd:string ; a owl:Class ; rdfs:label "edited_by_C_insertion_and_dinucleotide_insertion"^^xsd:string ; owl:deprecated true . obo:SO_0000599 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000599"^^xsd:string ; a owl:Class ; rdfs:label "edited_by_C_to_U_substitution"^^xsd:string ; owl:deprecated true . obo:SO_0000600 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000600"^^xsd:string ; a owl:Class ; rdfs:label "edited_by_A_to_I_substitution"^^xsd:string ; owl:deprecated true . obo:SO_0000601 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000601"^^xsd:string ; a owl:Class ; rdfs:label "edited_by_G_addition"^^xsd:string ; owl:deprecated true . obo:SO_0000602 obo:IAO_0000115 "A short 3'-uridylated RNA that can form a duplex (except for its post-transcriptionally added oligo_U tail (SO:0000609)) with a stretch of mature edited mRNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Guide_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:guide_RNA"^^xsd:string, "gRNA"^^xsd:string, "guide RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000602"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "guide_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000603 obo:IAO_0000115 "Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI). A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron to intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Group_II_intron"^^xsd:string ; oboInOwl:hasExactSynonym "group II intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000603"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "GO:0000373."^^xsd:string ; rdfs:label "group_II_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000588 . obo:SO_0000604 obo:IAO_0000115 "Edited mRNA sequence mediated by a single guide RNA (SO:0000602)."^^xsd:string ; oboInOwl:hasExactSynonym "editing block"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000604"^^xsd:string ; a owl:Class ; rdfs:label "editing_block"^^xsd:string ; rdfs:subClassOf obo:SO_0000579 . obo:SO_0000605 obo:IAO_0000115 "A region containing or overlapping no genes that is bounded on either side by a gene, or bounded by a gene and the end of the chromosome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Intergenic_region"^^xsd:string ; oboInOwl:hasExactSynonym "intergenic region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000605"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "intergenic_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000606 obo:IAO_0000115 "Edited mRNA sequence mediated by two or more overlapping guide RNAs (SO:0000602)."^^xsd:string ; oboInOwl:hasExactSynonym "editing domain"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000606"^^xsd:string ; a owl:Class ; rdfs:label "editing_domain"^^xsd:string ; rdfs:subClassOf obo:SO_0000579 . obo:SO_0000607 obo:IAO_0000115 "The region of an edited transcript that will not be edited."^^xsd:string ; oboInOwl:hasExactSynonym "unedited region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000607"^^xsd:string ; a owl:Class ; rdfs:label "unedited_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000579 . obo:SO_0000608 obo:IAO_0000115 "snoRNA that is associated with guiding polyuridylation. It contains two short conserved sequence motifs: H box (ANANNA) and ACA (ACA)."^^xsd:string ; oboInOwl:hasExactSynonym "H ACA box snoRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000608"^^xsd:string ; a owl:Class ; rdfs:label "H_ACA_box_snoRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000578 . obo:SO_0000609 obo:IAO_0000115 "The string of non-encoded U's at the 3' end of a guide RNA (SO:0000602)."^^xsd:string ; oboInOwl:hasExactSynonym "oligo U tail"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000609"^^xsd:string ; a owl:Class ; rdfs:label "oligo_U_tail"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000602 ] . obo:SO_0000610 obo:IAO_0000115 "Sequence of about 100 nucleotides of A added to the 3' end of most eukaryotic mRNAs."^^xsd:string ; oboInOwl:hasExactSynonym "polyA sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000610"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "polyA_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000234 ] . obo:SO_0000611 obo:IAO_0000115 "A pyrimidine rich sequence near the 3' end of an intron to which the 5'end becomes covalently bound during nuclear splicing. The resulting structure resembles a lariat."^^xsd:string ; oboInOwl:hasExactSynonym "branch point"^^xsd:string, "branch site"^^xsd:string, "branch_point"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000611"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "branch_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000841 . obo:SO_0000612 obo:IAO_0000115 "The polypyrimidine tract is one of the cis-acting sequence elements directing intron removal in pre-mRNA splicing."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Polypyrimidine_tract"^^xsd:string ; oboInOwl:hasExactSynonym "polypyrimidine tract"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000612"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "polypyrimidine_tract"^^xsd:string ; rdfs:subClassOf obo:SO_0000841 . obo:SO_0000613 obo:IAO_0000115 "A DNA sequence to which bacterial RNA polymerase binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "bacterial RNApol promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000613"^^xsd:string ; a owl:Class ; rdfs:comment "former parent RNA_polymerase_promoter SO:0001203 was merged with promoter SO:0000167 in Aug 2020 as part of GREEKC."^^xsd:string ; rdfs:label "bacterial_RNApol_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0002222 . obo:SO_0000614 obo:IAO_0000115 "A terminator signal for bacterial transcription."^^xsd:string ; oboInOwl:hasExactSynonym "bacterial terminator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000614"^^xsd:string ; a owl:Class ; rdfs:comment "Moved to transcriptional_cis_regulatory_region (SO:0001055) from gene_group_regulatory_region (SO:0000752) on 11 Feb 2021 when SO:0000752 was merged into SO:0001055. See GitHub Issue #529."^^xsd:string ; rdfs:label "bacterial_terminator"^^xsd:string ; rdfs:subClassOf obo:SO_0000141 . obo:SO_0000615 obo:IAO_0000115 "A terminator signal for RNA polymerase III transcription."^^xsd:string ; oboInOwl:hasExactSynonym "terminator of type 2 RNApol III promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000615"^^xsd:string ; a owl:Class ; rdfs:label "terminator_of_type_2_RNApol_III_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000951 . obo:SO_0000616 obo:IAO_0000115 "The base where transcription ends."^^xsd:string ; oboInOwl:hasExactSynonym "transcription end site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000616"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "transcription_end_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000835 . obo:SO_0000617 obo:IAO_0000115 "This type of promoter recruits RNA pol III. This promoter is intragenic and includes an A box, an intermediate element, and a C box. This is well conserved in the 5s rRNA promoters across species."^^xsd:string ; oboInOwl:hasExactSynonym "RNApol III promoter type 1"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000617"^^xsd:string ; a owl:Class ; rdfs:label "RNApol_III_promoter_type_1"^^xsd:string ; rdfs:subClassOf obo:SO_0000171 . obo:SO_0000618 obo:IAO_0000115 "This type of promoter recruits RNA pol III to transcribe genes mainly for t-RNA. This promoter is intragenic and includes an A box and a B box."^^xsd:string ; oboInOwl:hasExactSynonym "RNApol III promoter type 2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "tRNA promoter"^^xsd:string ; oboInOwl:id "SO:0000618"^^xsd:string ; a owl:Class ; rdfs:label "RNApol_III_promoter_type_2"^^xsd:string ; rdfs:subClassOf obo:SO_0000171 . obo:SO_0000619 obo:IAO_0000115 "A variably distant linear promoter region recognized by TFIIIC, with consensus sequence TGGCnnAGTGG."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/A-box"^^xsd:string ; oboInOwl:hasExactSynonym "A-box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000619"^^xsd:string ; a owl:Class ; rdfs:comment "Binds TFIIIC."^^xsd:string ; rdfs:label "A_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001660 . obo:SO_0000620 obo:IAO_0000115 "A variably distant linear promoter region recognized by TFIIIC, with consensus sequence AGGTTCCAnnCC."^^xsd:string ; oboInOwl:hasExactSynonym "B-box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000620"^^xsd:string ; a owl:Class ; rdfs:comment "Binds TFIIIC."^^xsd:string ; rdfs:label "B_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000618 ] . obo:SO_0000621 obo:IAO_0000115 "This type of promoter recruits RNA pol III to transcribe predominantly noncoding RNAs. This promoter contains a proximal sequence element (PSE) and a TATA box upstream of the gene that it regulates. Transcription can also be activated by a distal sequence element (DSE), which is located further upstream. "^^xsd:string ; oboInOwl:hasExactSynonym "RNApol III promoter type 3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000621"^^xsd:string ; a owl:Class ; rdfs:label "RNApol_III_promoter_type_3"^^xsd:string ; rdfs:subClassOf obo:SO_0000171 . obo:SO_0000622 obo:IAO_0000115 "An RNA polymerase III type 1 promoter with consensus sequence CAnnCCn."^^xsd:string ; oboInOwl:hasExactSynonym "C-box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000622"^^xsd:string ; a owl:Class ; rdfs:label "C_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000617 ] . obo:SO_0000623 obo:IAO_0000115 "A region that can be transcribed into a small nuclear RNA (snRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "snRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000623"^^xsd:string ; a owl:Class ; rdfs:label "snRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000624 obo:IAO_0000115 "A specific structure at the end of a linear chromosome, required for the integrity and maintenance of the end."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Telomere"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:telomere"^^xsd:string, "telomeric DNA"^^xsd:string, "telomeric sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000624"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "telomere"^^xsd:string ; rdfs:subClassOf obo:SO_0000628 . obo:SO_0000625 obo:IAO_0000115 "A regulatory region which upon binding of transcription factors, suppress the transcription of the gene or genes they control."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Silencer_(DNA)"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:silencer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000625"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "silencer"^^xsd:string ; rdfs:subClassOf obo:SO_0000727 . obo:SO_0000626 obo:IAO_0000115 "Regions of the chromosome that are important for regulating binding of chromosomes to the nuclear matrix."^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal regulatory element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000626"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_regulatory_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0000627 obo:IAO_0000115 "A regulatory region that 1) when located between a CRM and a gene's promoter prevents the CRM from modulating that genes expression and 2) acts as a chromatin boundary element or barrier that can block the encroachment of condensed chromatin from an adjacent region."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Insulator_(genetics)"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:insulator"^^xsd:string, "insulator element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000627"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "moved from is_a: SO:0001055 transcriptional_cis_regulatory_region as per request from GREEKC initiative in August 2020."^^xsd:string ; rdfs:label "insulator"^^xsd:string ; rdfs:subClassOf obo:SO_0000727 . obo:SO_0000628 obo:IAO_0000115 "Regions of the chromosome that are important for structural elements."^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal structural element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000628"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "chromosomal_structural_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0000629 obo:IAO_0000115 "An open reading frame found within the 5' UTR that can be translated and stall the translation of the downstream open reading frame."^^xsd:string ; oboInOwl:hasExactSynonym "five prime open reading frame"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000629"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_open_reading_frame"^^xsd:string ; rdfs:subClassOf obo:SO_0000836, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000204 ] . obo:SO_0000630 obo:IAO_0000115 "A start codon upstream of the ORF."^^xsd:string ; oboInOwl:hasExactSynonym "upstream AUG codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000630"^^xsd:string ; a owl:Class ; rdfs:label "upstream_AUG_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000837, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000203 ] . obo:SO_0000631 obo:IAO_0000115 "A primary transcript encoding for more than one gene product."^^xsd:string ; oboInOwl:hasExactSynonym "polycistronic primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000631"^^xsd:string ; a owl:Class ; rdfs:label "polycistronic_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000078, obo:SO_0000185, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000880 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000185 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000880 ] ) ] . obo:SO_0000632 obo:IAO_0000115 "A primary transcript encoding for one gene product."^^xsd:string ; oboInOwl:hasExactSynonym "monocistronic primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000632"^^xsd:string ; a owl:Class ; rdfs:label "monocistronic_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000185, obo:SO_0000665, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000878 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000185 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000878 ] ) ] . obo:SO_0000633 obo:IAO_0000115 "An mRNA with either a single protein product, or for which the regions encoding all its protein products overlap."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Monocistronic_mRNA"^^xsd:string ; oboInOwl:hasExactSynonym "monocistronic mRNA"^^xsd:string, "monocistronic processed transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000633"^^xsd:string ; a owl:Class ; rdfs:label "monocistronic_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, obo:SO_0000665, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000878 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000878 ] ) ] . obo:SO_0000634 obo:IAO_0000115 "An mRNA that encodes multiple proteins from at least two non-overlapping regions."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Polycistronic_mRNA"^^xsd:string ; oboInOwl:hasExactSynonym "polycistronic mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "polycistronic processed transcript"^^xsd:string ; oboInOwl:id "SO:0000634"^^xsd:string ; a owl:Class ; rdfs:label "polycistronic_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000078, obo:SO_0000234, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000880 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000880 ] ) ] . obo:SO_0000635 obo:IAO_0000115 "A primary transcript that donates the spliced leader to other mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "mini exon donor RNA"^^xsd:string, "mini-exon donor RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000635"^^xsd:string ; a owl:Class ; rdfs:label "mini_exon_donor_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000185 . obo:SO_0000636 obo:IAO_0000115 "Snall nuclear RNAs that are incorporated into the pre-mRNAs to replace the 5' end in some eukaryotes."^^xsd:string ; oboInOwl:hasExactSynonym "spliced leader RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mini-exon"^^xsd:string ; oboInOwl:id "SO:0000636"^^xsd:string ; a owl:Class ; rdfs:label "spliced_leader_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000835, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000635 ] . obo:SO_0000637 obo:IAO_0000115 "A plasmid that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered plasmid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "engineered plasmid gene"^^xsd:string ; oboInOwl:id "SO:0000637"^^xsd:string ; a owl:Class ; rdfs:label "engineered_plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0000155, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000155 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000638 obo:IAO_0000115 "Part of an rRNA transcription unit that is transcribed but discarded during maturation, not giving rise to any part of rRNA."^^xsd:string ; oboInOwl:hasExactSynonym "transcribed spacer region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000638"^^xsd:string ; a owl:Class ; rdfs:label "transcribed_spacer_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000838 . obo:SO_0000639 obo:IAO_0000115 "Non-coding regions of DNA sequence that separate genes coding for the 28S, 5.8S, and 18S ribosomal RNAs."^^xsd:string ; oboInOwl:hasExactSynonym "internal transcribed spacer region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000639"^^xsd:string ; a owl:Class ; rdfs:label "internal_transcribed_spacer_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000638 . obo:SO_0000640 obo:IAO_0000115 "Non-coding regions of DNA that precede the sequence that codes for the ribosomal RNA."^^xsd:string ; oboInOwl:hasExactSynonym "external transcribed spacer region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000640"^^xsd:string ; a owl:Class ; rdfs:label "external_transcribed_spacer_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000638 . obo:SO_0000641 obo:IAO_0000115 "A region of a repeating tetranucleotide sequence (four bases)."^^xsd:string ; oboInOwl:hasExactSynonym "tetranucleotide repeat microsatellite feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000641"^^xsd:string ; a owl:Class ; rdfs:label "tetranucleotide_repeat_microsatellite_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000289 . obo:SO_0000642 obo:IAO_0000115 "A region that can be transcribed into a signal recognition particle RNA (SRP RNA)."^^xsd:string ; oboInOwl:hasExactSynonym "SRP RNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000642"^^xsd:string ; a owl:Class ; rdfs:label "SRP_RNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000643 obo:IAO_0000115 "A repeat region containing tandemly repeated sequences having a unit length of 10 to 40 bp."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Minisatellite"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:minisatellite"^^xsd:string, "VNTR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000643"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "minisatellite"^^xsd:string ; rdfs:subClassOf obo:SO_0000005 . obo:SO_0000644 obo:IAO_0000115 "Antisense RNA is RNA that is transcribed from the coding, rather than the template, strand of DNA. It is therefore complementary to mRNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Antisense_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:antisense_RNA"^^xsd:string, "antisense RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000644"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "antisense_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000645 ] . obo:SO_0000645 obo:IAO_0000115 "The reverse complement of the primary transcript."^^xsd:string ; oboInOwl:hasExactSynonym "antisense primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000645"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "antisense_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000185 . obo:SO_0000646 obo:IAO_0000115 "A small RNA molecule that is the product of a longer exogenous or endogenous dsRNA, which is either a bimolecular duplex or very long hairpin, processed (via the Dicer pathway) such that numerous siRNAs accumulate from both strands of the dsRNA. siRNAs trigger the cleavage of their target molecules."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/SiRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:siRNA"^^xsd:string, "small interfering RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000646"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "siRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0000647 obo:IAO_0000115 "A primary transcript encoding a micro RNA."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000648"^^xsd:string ; oboInOwl:hasExactSynonym "miRNA primary transcript"^^xsd:string, "micro RNA primary transcript"^^xsd:string, "small temporal RNA primary transcript"^^xsd:string, "stRNA primary transcript"^^xsd:string, "stRNA_primary_transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000647"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0000648 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000647 ; a owl:Class ; owl:deprecated true . obo:SO_0000649 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000276 ; a owl:Class ; owl:deprecated true . obo:SO_0000650 obo:IAO_0000115 "Cytosolic SSU rRNA is an RNA component of the small subunit of cytosolic ribosomes."^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic SSU rRNA"^^xsd:string, "cytosolic SSU ribosomal RNA"^^xsd:string, "cytosolic small subunit rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000650"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed to cytosolic_SSU_rRNA from small_subunit_rRNA on 10 June 2021 as per restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Request from EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_SSU_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002343, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000255 ] . obo:SO_0000651 obo:IAO_0000115 "Cytosolic LSU rRNA is an RNA component of the large subunit of cytosolic ribosomes."^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic LSU RNA"^^xsd:string, "cytosolic LSU rRNA"^^xsd:string, "cytosolic large subunit rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000651"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed to cytosolic_LSU_rRNA from large_subunit_rRNA on 10 June 2021 as per restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Request from EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_LSU_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002343, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000325 ] . obo:SO_0000652 obo:IAO_0000115 "Cytosolic 5S rRNA is an RNA component of the large subunit of cytosolic ribosomes in both prokaryotes and eukaryotes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/5S_ribosomal_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 5S LSU rRNA"^^xsd:string, "cytosolic 5S rRNA"^^xsd:string, "cytosolic 5S ribosomal RNA"^^xsd:string, "cytosolic rRNA 5S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000652"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed from rRNA_5S to cytosolic_5S_rRNA on 27 May 2021 with the restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_5S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000651 . obo:SO_0000653 obo:IAO_0000115 "Cytosolic 28S rRNA is an RNA component of the large subunit of cytosolic ribosomes in metazoan eukaryotes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/28S_ribosomal_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 28S LSU rRNA"^^xsd:string, "cytosolic 28S rRNA"^^xsd:string, "cytosolic 28S ribosomal RNA"^^xsd:string, "cytosolic rRNA 28S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000653"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed from rRNA_28S to cytosolic_28S_rRNA on 27 May 2021 with the restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_28S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000651 . obo:SO_0000654 obo:IAO_0000115 "A mitochondrial gene located in a maxicircle."^^xsd:string ; oboInOwl:hasExactSynonym "maxi-circle gene"^^xsd:string, "maxicircle gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000654"^^xsd:string ; a owl:Class ; rdfs:label "maxicircle_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000089, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000742 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000089 [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000742 ] ) ] . obo:SO_0000655 obo:IAO_0000115 "An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_qualifier:other"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/NcRNA"^^xsd:string, "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; oboInOwl:hasExactSynonym "known_ncrna"^^xsd:string, "noncoding RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000655"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A ncRNA is a processed_transcript, so it may not contain parts such as transcribed_spacer_regions that are removed in the act of processing. For the corresponding primary_transcripts, please see term SO:0000483 nc_primary_transcript."^^xsd:string ; rdfs:label "ncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000233 . obo:SO_0000656 obo:IAO_0000115 "A region that can be transcribed into a small temporal RNA (stRNA). Found in roundworm development."^^xsd:string ; oboInOwl:hasExactSynonym "stRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000656"^^xsd:string ; a owl:Class ; rdfs:label "stRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000657 obo:IAO_0000115 "A region of sequence containing one or more repeat units."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:other"^^xsd:string, "repeat region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000657"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "repeat_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000726 ] . obo:SO_0000658 obo:IAO_0000115 "A repeat that is located at dispersed sites in the genome."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Interspersed_repeat"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:dispersed"^^xsd:string, "dispersed repeat"^^xsd:string, "interspersed repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000658"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "dispersed_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0000659 obo:IAO_0000115 "A region that can be transcribed into a transfer-messenger RNA (tmRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "tmRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000659"^^xsd:string ; a owl:Class ; rdfs:label "tmRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000660 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000660"^^xsd:string ; a owl:Class ; rdfs:label "DNA_invertase_target_sequence"^^xsd:string ; owl:deprecated true . obo:SO_0000661 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000661"^^xsd:string ; a owl:Class ; rdfs:label "intron_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000662 obo:IAO_0000115 "An intron which is spliced by the spliceosome."^^xsd:string ; oboInOwl:hasExactSynonym "spliceosomal intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000662"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "GO:0000398."^^xsd:string ; rdfs:label "spliceosomal_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0000663 obo:IAO_0000115 "A region that can be transcribed into a transfer RNA (tRNA)."^^xsd:string ; oboInOwl:hasExactSynonym "tRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000663"^^xsd:string ; a owl:Class ; rdfs:label "tRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000664 obo:IAO_0000115 "A region of a chromosome that has been introduced by backcrossing with a separate species."^^xsd:string ; oboInOwl:hasExactSynonym "introgressed chromosome region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000664"^^xsd:string ; a owl:Class ; rdfs:label "introgressed_chromosome_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0000665 obo:IAO_0000115 "A transcript that is monocistronic."^^xsd:string ; oboInOwl:hasExactSynonym "monocistronic transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000665"^^xsd:string ; a owl:Class ; rdfs:label "monocistronic_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000878 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000878 ] ) ] . obo:SO_0000666 obo:IAO_0000115 "An intron (mitochondrial, chloroplast, nuclear or prokaryotic) that encodes a double strand sequence specific endonuclease allowing for mobility."^^xsd:string ; oboInOwl:hasExactSynonym "mobile intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000666"^^xsd:string ; a owl:Class ; rdfs:label "mobile_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188, obo:SO_0001037, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001234 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000188 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001234 ] ) ] . obo:SO_0000667 obo:IAO_0000115 "The sequence of one or more nucleotides added between two adjacent nucleotides in the sequence."^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000034"^^xsd:string ; oboInOwl:hasDbXref "loinc:LA6687-3"^^xsd:string ; oboInOwl:hasExactSynonym "insertion"^^xsd:string, "nucleotide insertion"^^xsd:string, "nucleotide_insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000667"^^xsd:string ; oboInOwl:inSubset so:DBVAR, so:SOFA ; a owl:Class ; rdfs:label "insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001059, obo:SO_0001411 . obo:SO_0000668 obo:IAO_0000115 "A match against an EST sequence."^^xsd:string ; oboInOwl:hasExactSynonym "EST match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000668"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "EST_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000102 . obo:SO_0000669 obo:IAO_0000115 "A feature where a segment of DNA has been rearranged from what it was in the parent cell."^^xsd:string ; oboInOwl:hasExactSynonym "sequence rearrangement feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000669"^^xsd:string ; a owl:Class ; rdfs:label "sequence_rearrangement_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000298 . obo:SO_0000670 obo:IAO_0000115 "A sequence within the micronuclear DNA of ciliates at which chromosome breakage and telomere addition occurs during nuclear differentiation."^^xsd:string ; oboInOwl:hasExactSynonym "chromosome breakage sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000670"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_breakage_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000669 . obo:SO_0000671 obo:IAO_0000115 "A sequence eliminated from the genome of ciliates during nuclear differentiation."^^xsd:string ; oboInOwl:hasExactSynonym "internal eliminated sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000671"^^xsd:string ; a owl:Class ; rdfs:label "internal_eliminated_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000669 . obo:SO_0000672 obo:IAO_0000115 "A sequence that is conserved, although rearranged relative to the micronucleus, in the macronucleus of a ciliate genome."^^xsd:string ; oboInOwl:hasExactSynonym "macronucleus destined segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000672"^^xsd:string ; a owl:Class ; rdfs:label "macronucleus_destined_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000669 . obo:SO_0000673 obo:IAO_0000115 "An RNA synthesized on a DNA or RNA template by an RNA polymerase."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_RNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000673"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Added relationship overlaps SO:0002300 unit_of_gene_expression with Mejia-Almonte et.al PMID:32665585 Aug 5, 2020."^^xsd:string ; rdfs:label "transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000831, [ a owl:Restriction ; owl:onProperty so:overlaps ; owl:someValuesFrom obo:SO_0002300 ] . obo:SO_0000674 obo:IAO_0000115 "A splice site where the donor and acceptor sites differ from the canonical form."^^xsd:string ; oboInOwl:consider "SO:0000678"^^xsd:string, "SO:0000679"^^xsd:string ; oboInOwl:hasExactSynonym "non canonical splice site"^^xsd:string, "non-canonical splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000674"^^xsd:string ; a owl:Class ; rdfs:label "non_canonical_splice_site"^^xsd:string ; owl:deprecated true . obo:SO_0000675 obo:IAO_0000115 "The major class of splice site with dinucleotides GT and AG for donor and acceptor sites, respectively."^^xsd:string ; oboInOwl:consider "SO:0000676"^^xsd:string, "SO:0000677"^^xsd:string ; oboInOwl:hasExactSynonym "canonical splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000675"^^xsd:string ; a owl:Class ; rdfs:label "canonical_splice_site"^^xsd:string ; owl:deprecated true . obo:SO_0000676 obo:IAO_0000115 "The canonical 3' splice site has the sequence \"AG\"."^^xsd:string ; oboInOwl:hasExactSynonym "canonical 3' splice site"^^xsd:string, "canonical three prime splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000676"^^xsd:string ; a owl:Class ; rdfs:label "canonical_three_prime_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000164 . obo:SO_0000677 obo:IAO_0000115 "The canonical 5' splice site has the sequence \"GT\"."^^xsd:string ; oboInOwl:hasExactSynonym "canonical 5' splice site"^^xsd:string, "canonical five prime splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000677"^^xsd:string ; a owl:Class ; rdfs:label "canonical_five_prime_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000163 . obo:SO_0000678 obo:IAO_0000115 "A 3' splice site that does not have the sequence \"AG\"."^^xsd:string ; oboInOwl:hasExactSynonym "non canonical three prime splice site"^^xsd:string, "non-canonical three prime splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "non canonical 3' splice site"^^xsd:string ; oboInOwl:id "SO:0000678"^^xsd:string ; a owl:Class ; rdfs:label "non_canonical_three_prime_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000164 . obo:SO_0000679 obo:IAO_0000115 "A 5' splice site which does not have the sequence \"GT\"."^^xsd:string ; oboInOwl:hasExactSynonym "non canonical 5' splice site"^^xsd:string, "non canonical five prime splice site"^^xsd:string, "non-canonical five prime splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000679"^^xsd:string ; a owl:Class ; rdfs:label "non_canonical_five_prime_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000163 . obo:SO_0000680 obo:IAO_0000115 "A start codon that is not the usual AUG sequence."^^xsd:string ; oboInOwl:hasExactSynonym "non ATG start codon"^^xsd:string, "non canonical start codon"^^xsd:string, "non-canonical start codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000680"^^xsd:string ; a owl:Class ; rdfs:label "non_canonical_start_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000318 . obo:SO_0000681 obo:IAO_0000115 "A transcript that has been processed \"incorrectly\", for example by the failure of splicing of one or more exons."^^xsd:string ; oboInOwl:hasExactSynonym "aberrant processed transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000681"^^xsd:string ; a owl:Class ; rdfs:label "aberrant_processed_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673 . obo:SO_0000682 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000682"^^xsd:string ; a owl:Class ; rdfs:label "splicing_feature"^^xsd:string ; owl:deprecated true . obo:SO_0000683 obo:IAO_0000115 "Exonic splicing enhancers (ESEs) facilitate exon definition by assisting in the recruitment of splicing factors to the adjacent intron."^^xsd:string ; oboInOwl:hasExactSynonym "exonic splice enhancer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000683"^^xsd:string ; a owl:Class ; rdfs:label "exonic_splice_enhancer"^^xsd:string ; rdfs:subClassOf obo:SO_0000344 . obo:SO_0000684 obo:IAO_0000115 "A region of nucleotide sequence targeted by a nuclease enzyme."^^xsd:string ; oboInOwl:hasExactSynonym "nuclease sensitive site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000684"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nuclease_sensitive_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000059 . obo:SO_0000685 obo:IAO_0000115 "DNA region representing open chromatin structure that is hypersensitive to digestion by DNase I."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "DHS"^^xsd:string, "DNaseI hypersensitive site"^^xsd:string, "INSDC_qualifier:DNase_I_hypersensitive_site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000685"^^xsd:string ; a owl:Class ; rdfs:label "DNaseI_hypersensitive_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000322 . obo:SO_0000686 obo:IAO_0000115 "A chromosomal translocation whereby the chromosomes carrying non-homologous centromeres may be recovered independently. These chromosomes are described as translocation elements. This occurs for some translocations, particularly but not exclusively, reciprocal translocations."^^xsd:string ; oboInOwl:hasExactSynonym "translocation element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000686"^^xsd:string ; a owl:Class ; rdfs:label "translocation_element"^^xsd:string ; rdfs:subClassOf obo:SO_1000044 . obo:SO_0000687 obo:IAO_0000115 "The space between two bases in a sequence which marks the position where a deletion has occurred."^^xsd:string ; oboInOwl:hasExactSynonym "deletion junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000687"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "deletion_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0000699 . obo:SO_0000688 obo:IAO_0000115 "A set of subregions selected from sequence contigs which when concatenated form a nonredundant linear sequence."^^xsd:string ; oboInOwl:hasExactSynonym "golden path"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000688"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "golden_path"^^xsd:string ; rdfs:subClassOf obo:SO_0000353 . obo:SO_0000689 obo:IAO_0000115 "A match against cDNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "cDNA match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000689"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "cDNA_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000102 . obo:SO_0000690 obo:IAO_0000115 "A gene that encodes a polycistronic transcript."^^xsd:string ; oboInOwl:hasExactSynonym "gene with polycistronic transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000690"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_polycistronic_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000078 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000078 ] ) ] . obo:SO_0000691 obo:IAO_0000115 "The initiator methionine that has been cleaved from a mature polypeptide sequence."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00067"^^xsd:string ; oboInOwl:hasExactSynonym "cleaved initiator methionine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "init_met"^^xsd:string, "initiator methionine"^^xsd:string ; oboInOwl:id "SO:0000691"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "cleaved_initiator_methionine"^^xsd:string ; rdfs:subClassOf obo:SO_0100011 . obo:SO_0000692 obo:IAO_0000115 "A gene that encodes a dicistronic transcript."^^xsd:string ; oboInOwl:hasExactSynonym "gene with dicistronic transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000692"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_dicistronic_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000690, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000079 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000690 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000079 ] ) ] . obo:SO_0000693 obo:IAO_0000115 "A gene that encodes an mRNA that is recoded."^^xsd:string ; oboInOwl:hasExactSynonym "gene with recoded mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000693"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_recoded_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001217, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000881 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001217 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000881 ] ) ] . obo:SO_0000694 obo:IAO_0000115 "SNPs are single base pair positions in genomic DNA at which different sequence alternatives exist in normal individuals in some population(s), wherein the least frequent variant has an abundance of 1% or greater."^^xsd:string ; oboInOwl:hasExactSynonym "single nucleotide polymorphism"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000694"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "SNP"^^xsd:string ; rdfs:subClassOf obo:SO_0001483 . obo:SO_0000695 obo:IAO_0000115 "A sequence used in experiment."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000695"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Requested by Lynn Crosby, jan 2006."^^xsd:string ; rdfs:label "reagent"^^xsd:string ; rdfs:subClassOf obo:SO_0001409 . obo:SO_0000696 obo:IAO_0000115 "A short oligonucleotide sequence, of length on the order of 10's of bases; either single or double stranded."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Oligonucleotide"^^xsd:string ; oboInOwl:hasExactSynonym "oligonucleotide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000696"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0000695 . obo:SO_0000697 obo:IAO_0000115 "A gene that encodes a transcript with stop codon readthrough."^^xsd:string ; oboInOwl:hasExactSynonym "gene with stop codon read through"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000697"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_stop_codon_read_through"^^xsd:string ; rdfs:subClassOf obo:SO_0000693, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000883 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000693 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000883 ] ) ] . obo:SO_0000698 obo:IAO_0000115 "A gene encoding an mRNA that has the stop codon redefined as pyrrolysine."^^xsd:string ; oboInOwl:hasExactSynonym "gene with stop codon redefined as pyrrolysine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000698"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_stop_codon_redefined_as_pyrrolysine"^^xsd:string ; rdfs:subClassOf obo:SO_0000697, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000884 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000693 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000884 ] ) ] . obo:SO_0000699 obo:IAO_0000115 "A sequence_feature with an extent of zero."^^xsd:string ; oboInOwl:hasExactSynonym "boundary"^^xsd:string, "breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000699"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A junction is a boundary between regions. A boundary has an extent of zero."^^xsd:string ; rdfs:label "junction"^^xsd:string ; rdfs:subClassOf obo:SO_0000110 . obo:SO_0000700 obo:IAO_0000115 "A comment about the sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000700"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "remark"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0000701 obo:IAO_0000115 "A region of sequence where the validity of the base calling is questionable."^^xsd:string ; oboInOwl:hasExactSynonym "possible base call error"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000701"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "possible_base_call_error"^^xsd:string ; rdfs:subClassOf obo:SO_0000413 . obo:SO_0000702 obo:IAO_0000115 "A region of sequence where there may have been an error in the assembly."^^xsd:string ; oboInOwl:hasExactSynonym "possible assembly error"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000702"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "possible_assembly_error"^^xsd:string ; rdfs:subClassOf obo:SO_0000413 . obo:SO_0000703 obo:IAO_0000115 "A region of sequence implicated in an experimental result."^^xsd:string ; oboInOwl:hasExactSynonym "experimental result region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000703"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "experimental_result_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000700 . obo:SO_0000704 obo:IAO_0000115 "A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Gene"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000704"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology. A gene may be considered as a unit of inheritance."^^xsd:string ; rdfs:label "gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:member_of ; owl:someValuesFrom obo:SO_0005855 ] . obo:SO_0000705 obo:IAO_0000115 "Two or more adjacent copies of a region (of length greater than 1)."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Tandem_repeat"^^xsd:string, "http://www.sci.sdsu.edu/~smaloy/Glossary/T.html"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:tandem"^^xsd:string, "tandem repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000705"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "tandem_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0000706 obo:IAO_0000115 "The 3' splice site of the acceptor primary transcript."^^xsd:string ; oboInOwl:hasExactSynonym "trans splice acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' trans splice site"^^xsd:string ; oboInOwl:id "SO:0000706"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This region contains a polypyridine tract and AG dinucleotide in some organisms and is UUUCAG in C. elegans."^^xsd:string ; rdfs:label "trans_splice_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001420 . obo:SO_0000707 obo:IAO_0000115 "The 5' five prime splice site region of the donor RNA."^^xsd:string ; oboInOwl:hasExactSynonym "trans splice donor site"^^xsd:string, "trans-splice donor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "5 prime trans splice site"^^xsd:string ; oboInOwl:id "SO:0000707"^^xsd:string ; a owl:Class ; rdfs:comment "SL RNA contains a donor site."^^xsd:string ; rdfs:label "trans_splice_donor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001420 . obo:SO_0000708 obo:IAO_0000115 "A trans_splicing_acceptor_site which appends the 22nt SL1 RNA leader sequence to the 5' end of most mRNAs."^^xsd:string ; oboInOwl:hasExactSynonym "SL1 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000708"^^xsd:string ; a owl:Class ; rdfs:label "SL1_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000706 . obo:SO_0000709 obo:IAO_0000115 "A trans_splicing_acceptor_site which appends the 22nt SL2 RNA leader sequence to the 5' end of mRNAs. SL2 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:hasExactSynonym "SL2 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000709"^^xsd:string ; a owl:Class ; rdfs:label "SL2_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000706 . obo:SO_0000710 obo:IAO_0000115 "A gene encoding an mRNA that has the stop codon redefined as selenocysteine."^^xsd:string ; oboInOwl:hasExactSynonym "gene with stop codon redefined as selenocysteine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000710"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_stop_codon_redefined_as_selenocysteine"^^xsd:string ; rdfs:subClassOf obo:SO_0000697, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000885 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000697 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000885 ] ) ] . obo:SO_0000711 obo:IAO_0000115 "A gene with mRNA recoded by translational bypass."^^xsd:string ; oboInOwl:hasExactSynonym "gene with mRNA recoded by translational bypass"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000711"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_mRNA_recoded_by_translational_bypass"^^xsd:string ; rdfs:subClassOf obo:SO_0000693, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000886 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001217 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000886 ] ) ] . obo:SO_0000712 obo:IAO_0000115 "A gene encoding a transcript that has a translational frameshift."^^xsd:string ; oboInOwl:hasExactSynonym "gene with transcript with translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000712"^^xsd:string ; a owl:Class ; rdfs:label "gene_with_transcript_with_translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000693, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000887 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000693 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000887 ] ) ] . obo:SO_0000713 obo:IAO_0000115 "A motif that is active in the DNA form of the sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/DNA_motif"^^xsd:string ; oboInOwl:hasExactSynonym "DNA motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000713"^^xsd:string ; a owl:Class ; rdfs:label "DNA_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000714 . obo:SO_0000714 obo:IAO_0000115 "A region of nucleotide sequence corresponding to a known motif."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:nucleotide_motif"^^xsd:string, "nucleotide motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000714"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nucleotide_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001683 . obo:SO_0000715 obo:IAO_0000115 "A motif that is active in RNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "RNA motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000715"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "RNA_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000714 . obo:SO_0000716 obo:IAO_0000115 "An mRNA that has the quality dicistronic."^^xsd:string ; oboInOwl:hasExactSynonym "dicistronic mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "dicistronic processed transcript"^^xsd:string ; oboInOwl:id "SO:0000716"^^xsd:string ; a owl:Class ; rdfs:label "dicistronic_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000079, obo:SO_0000634, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000879 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000879 ] ) ] . obo:SO_0000717 obo:IAO_0000115 "A nucleic acid sequence that when read as sequential triplets, has the potential of encoding a sequential string of amino acids. It need not contain the start or stop codon."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Reading_frame"^^xsd:string ; oboInOwl:hasExactSynonym "reading frame"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000717"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term was added after a request by SGD. August 2004. Modified after SO meeting in Cambridge to not include start or stop."^^xsd:string ; rdfs:label "reading_frame"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0000718 obo:IAO_0000115 "A reading_frame that is interrupted by one or more stop codons; usually identified through inter-genomic sequence comparisons."^^xsd:string ; oboInOwl:hasExactSynonym "blocked reading frame"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000718"^^xsd:string ; a owl:Class ; rdfs:comment "Term requested by Rama from SGD."^^xsd:string ; rdfs:label "blocked_reading_frame"^^xsd:string ; rdfs:subClassOf obo:SO_0000717 . obo:SO_0000719 obo:IAO_0000115 "An ordered and oriented set of scaffolds based on somewhat weaker sets of inferential evidence such as one set of mate pair reads together with supporting evidence from ESTs or location of markers from SNP or microsatellite maps, or cytogenetic localization of contained markers."^^xsd:string ; oboInOwl:hasExactSynonym "pseudochromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "superscaffold"^^xsd:string ; oboInOwl:id "SO:0000719"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "ultracontig"^^xsd:string ; rdfs:subClassOf obo:SO_0001876 . obo:SO_0000720 obo:IAO_0000115 "A transposable element that is foreign."^^xsd:string ; oboInOwl:hasExactSynonym "foreign transposable element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000720"^^xsd:string ; a owl:Class ; rdfs:comment "requested by Michael on 19 Nov 2004."^^xsd:string ; rdfs:label "foreign_transposable_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000101, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000101 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000721 obo:IAO_0000115 "A gene that encodes a dicistronic primary transcript."^^xsd:string ; oboInOwl:hasExactSynonym "gene with dicistronic primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000721"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Michael, 19 nov 2004."^^xsd:string ; rdfs:label "gene_with_dicistronic_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000692, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_1001197 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000692 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_1001197 ] ) ] . obo:SO_0000722 obo:IAO_0000115 "A gene that encodes a polycistronic mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "gene with dicistronic mRNA"^^xsd:string, "gene with dicistronic processed transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000722"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by MA nov 19 2004."^^xsd:string ; rdfs:label "gene_with_dicistronic_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000692, [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000716 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000692 [ a owl:Restriction ; owl:onProperty so:transcribed_to ; owl:someValuesFrom obo:SO_0000716 ] ) ] . obo:SO_0000723 obo:IAO_0000115 "Genomic sequence removed from the genome, as a normal event, by a process of recombination."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:iDNA"^^xsd:string, "intervening DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000723"^^xsd:string ; a owl:Class ; rdfs:label "iDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000298 . obo:SO_0000724 obo:IAO_0000115 "A region of a DNA molecule where transfer is initiated during the process of conjugation or mobilization."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Origin_of_transfer"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:oriT"^^xsd:string, "origin of transfer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000724"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "oriT"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0000725 obo:IAO_0000115 "The transit_peptide is a short region at the N-terminus of the peptide that directs the protein to an organelle (chloroplast, mitochondrion, microbody or cyanelle)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00055"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:transit_peptide"^^xsd:string, "transit peptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "signal"^^xsd:string, "transit"^^xsd:string ; oboInOwl:id "SO:0000725"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "Added to bring SO inline with the EMBL, DDBJ, GenBank feature table. Old definition before biosapiens: The coding sequence for an N-terminal domain of a nuclear-encoded organellar protein. This domain is involved in post translational import of the protein into the organelle."^^xsd:string ; rdfs:label "transit_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0001527, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002252 ] . obo:SO_0000726 obo:IAO_0000115 "The simplest repeated component of a repeat region. A single repeat."^^xsd:string ; oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; oboInOwl:hasExactSynonym "repeat unit"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000726"^^xsd:string ; a owl:Class ; rdfs:comment "Added to comply with the feature table. A single repeat."^^xsd:string ; rdfs:label "repeat_unit"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000727 obo:IAO_0000115 "A regulatory region where transcription factor binding sites are clustered to regulate various aspects of transcription activities. (CRMs can be located a few kb to hundreds of kb upstream of the core promoter, in the coding sequence, within introns, or in the untranslated regions (UTR) sequences, and even on a different chromosome). A single gene can be regulated by multiple CRMs to give precise control of its spatial and temporal expression. CRMs function as nodes in large, intertwined regulatory network. CRM DNA accessibility is subject to regulation by dbTFs and transcription co-TFs."^^xsd:string ; oboInOwl:hasExactSynonym "CRM"^^xsd:string, "TF module"^^xsd:string, "cis regulatory module"^^xsd:string, "transcription factor module"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000727"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Requested by Stephen Grossmann Dec 2004. Changed relationship from has_part SO:0000235 TF_binding site to TF_binding_site is part_of SO:0000727 CRM in response to requests from GREEKC initiative in Aug 2020. Removed 3' from definition because 5' UTRs are included as well, notified by Colin Logie of GREEKC. Nov 9 2020. DS Updated name from 'CRM' to 'cis_regulatory_module' on 08 Feb 2021. See GitHub Issue #526. DS Added final sentence to definition as part of GREEKC Feb 16, 2021. See GitHub Issue #534."^^xsd:string ; rdfs:label "cis_regulatory_module"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0000728 obo:IAO_0000115 "A region of a peptide that is able to excise itself and rejoin the remaining portions with a peptide bond."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Intein"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "protein intron"^^xsd:string ; oboInOwl:id "SO:0000728"^^xsd:string ; a owl:Class ; rdfs:comment "Intein-mediated protein splicing occurs after mRNA has been translated into a protein."^^xsd:string ; rdfs:label "intein"^^xsd:string ; rdfs:subClassOf obo:SO_0100011 . obo:SO_0000729 obo:IAO_0000115 "An attribute of protein-coding genes where the initial protein product contains an intein."^^xsd:string ; oboInOwl:hasExactSynonym "intein containing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000729"^^xsd:string ; a owl:Class ; rdfs:label "intein_containing"^^xsd:string ; rdfs:subClassOf obo:SO_0000010 . obo:SO_0000730 obo:IAO_0000115 "A gap in the sequence of known length. The unknown bases are filled in with N's."^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:gap"^^xsd:string ; oboInOwl:hasNarrowSynonym "INSDC_feature:assembly_gap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000730"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "gap"^^xsd:string ; rdfs:subClassOf obo:SO_0000143, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000353 ] . obo:SO_0000731 obo:IAO_0000115 "An attribute to describe a feature that is incomplete."^^xsd:string ; oboInOwl:hasExactSynonym "fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000731"^^xsd:string ; a owl:Class ; rdfs:comment "Term added because of request by MO people."^^xsd:string ; rdfs:label "fragmentary"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0000732 obo:IAO_0000115 "An attribute describing an unverified region."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Predicted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000732"^^xsd:string ; a owl:Class ; rdfs:label "predicted"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0000733 obo:IAO_0000115 "An attribute describing a located_sequence_feature."^^xsd:string ; oboInOwl:hasExactSynonym "feature attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000733"^^xsd:string ; a owl:Class ; rdfs:label "feature_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000400 . obo:SO_0000734 obo:IAO_0000115 "An exemplar is a representative cDNA sequence for each gene. The exemplar approach is a method that usually involves some initial clustering into gene groups and the subsequent selection of a representative from each gene group."^^xsd:string ; oboInOwl:hasExactSynonym "exemplar mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000734"^^xsd:string ; a owl:Class ; rdfs:comment "Added for the MO people."^^xsd:string ; rdfs:label "exemplar_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000864 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000864 ] ) ] . obo:SO_0000735 obo:IAO_0000115 "The location of a sequence."^^xsd:string ; oboInOwl:hasExactSynonym "sequence location"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000735"^^xsd:string ; a owl:Class ; rdfs:label "sequence_location"^^xsd:string ; rdfs:subClassOf obo:SO_0000400 . obo:SO_0000736 obo:IAO_0000115 "A sequence of DNA that originates from a an organelle."^^xsd:string ; oboInOwl:hasExactSynonym "organelle sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000736"^^xsd:string ; a owl:Class ; rdfs:label "organelle_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000735 . obo:SO_0000737 obo:IAO_0000115 "DNA belonging to the genome of a mitochondria."^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000737"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "mitochondrial_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000736 . obo:SO_0000738 obo:IAO_0000115 "DNA belonging to the nuclear genome of cell."^^xsd:string ; oboInOwl:hasExactSynonym "nuclear sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000738"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from is_a SO:0000736 (organelle_sequence) when brought to our attention by GitHub issue #489."^^xsd:string ; rdfs:label "nuclear_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000735 . obo:SO_0000739 obo:IAO_0000115 "DNA belonging to the genome of a plastid such as a chloroplast. The nucleomorph is the nuclei of the plastic."^^xsd:string ; oboInOwl:hasExactSynonym "nucleomorphic sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000739"^^xsd:string ; a owl:Class ; rdfs:label "nucleomorphic_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000736 . obo:SO_0000740 obo:IAO_0000115 "DNA belonging to the genome of a plastid such as a chloroplast."^^xsd:string ; oboInOwl:hasExactSynonym "plastid sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000740"^^xsd:string ; a owl:Class ; rdfs:label "plastid_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000736 . obo:SO_0000741 obo:IAO_0000115 "A kinetoplast is an interlocked network of thousands of minicircles and tens of maxicircles, located near the base of the flagellum of some protozoan species."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000826"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Kinetoplast"^^xsd:string ; oboInOwl:hasExactSynonym "kinetoplast_chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000741"^^xsd:string ; a owl:Class ; rdfs:label "kinetoplast"^^xsd:string ; rdfs:subClassOf obo:SO_0001026, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000742 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000980 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001260 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000742 ] [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000980 ] ) ] . obo:SO_0000742 obo:IAO_0000115 "A maxicircle is a replicon, part of a kinetoplast, that contains open reading frames and replicates via a rolling circle method."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000827"^^xsd:string ; oboInOwl:hasExactSynonym "maxicircle_chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000742"^^xsd:string ; a owl:Class ; rdfs:label "maxicircle"^^xsd:string ; rdfs:subClassOf obo:SO_0001235 . obo:SO_0000743 obo:IAO_0000115 "DNA belonging to the genome of an apicoplast, a non-photosynthetic plastid."^^xsd:string ; oboInOwl:hasExactSynonym "apicoplast sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000743"^^xsd:string ; a owl:Class ; rdfs:label "apicoplast_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000740 . obo:SO_0000744 obo:IAO_0000115 "DNA belonging to the genome of a chromoplast, a colored plastid for synthesis and storage of pigments."^^xsd:string ; oboInOwl:hasExactSynonym "chromoplast sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000744"^^xsd:string ; a owl:Class ; rdfs:label "chromoplast_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000740 . obo:SO_0000745 obo:IAO_0000115 "DNA belonging to the genome of a chloroplast, a green plastid for photosynthesis."^^xsd:string ; oboInOwl:hasExactSynonym "chloroplast sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000745"^^xsd:string ; a owl:Class ; rdfs:label "chloroplast_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000740 . obo:SO_0000746 obo:IAO_0000115 "DNA belonging to the genome of a cyanelle, a photosynthetic plastid found in algae."^^xsd:string ; oboInOwl:hasExactSynonym "cyanelle sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000746"^^xsd:string ; a owl:Class ; rdfs:label "cyanelle_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000740 . obo:SO_0000747 obo:IAO_0000115 "DNA belonging to the genome of a leucoplast, a colorless plastid generally containing starch or oil."^^xsd:string ; oboInOwl:hasExactSynonym "leucoplast sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000747"^^xsd:string ; a owl:Class ; rdfs:label "leucoplast_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000740 . obo:SO_0000748 obo:IAO_0000115 "DNA belonging to the genome of a proplastid such as an immature chloroplast."^^xsd:string ; oboInOwl:hasExactSynonym "proplastid sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000748"^^xsd:string ; a owl:Class ; rdfs:label "proplastid_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000740 . obo:SO_0000749 obo:IAO_0000115 "The location of DNA that has come from a plasmid sequence."^^xsd:string ; oboInOwl:hasExactSynonym "plasmid location"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000749"^^xsd:string ; a owl:Class ; rdfs:label "plasmid_location"^^xsd:string ; rdfs:subClassOf obo:SO_0000735 . obo:SO_0000750 obo:IAO_0000115 "An origin_of_replication that is used for the amplification of a chromosomal nucleic acid sequence."^^xsd:string ; oboInOwl:hasExactSynonym "amplification origin"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000750"^^xsd:string ; a owl:Class ; rdfs:label "amplification_origin"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0000751 obo:IAO_0000115 "The location of DNA that has come from a viral origin."^^xsd:string ; oboInOwl:hasExactSynonym "proviral location"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000751"^^xsd:string ; a owl:Class ; rdfs:label "proviral_location"^^xsd:string ; rdfs:subClassOf obo:SO_0000735 . obo:SO_0000752 obo:IAO_0000115 "A region that is involved in the regulation of transcription of a group of regulated genes."^^xsd:string ; obo:IAO_0100001 "SO:0001055"^^xsd:string ; oboInOwl:hasExactSynonym "gene group regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000752"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Merged into transcriptional_cis_regulatory_region (SO:0001055) on 11 Feb 2021 as part of GREEKC reducing redundancy as we prepare to submit several terms to Ensembl. See GitHub Issue #529."^^xsd:string ; rdfs:label "gene_group_regulatory_region"^^xsd:string ; owl:deprecated true . obo:SO_0000753 obo:IAO_0000115 "The region of sequence that has been inserted and is being propagated by the clone."^^xsd:string ; oboInOwl:hasExactSynonym "clone insert"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000753"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "clone_insert"^^xsd:string ; rdfs:subClassOf obo:SO_0000695, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000151 ] . obo:SO_0000754 obo:IAO_0000115 "The lambda bacteriophage is the vector for the linear lambda clone. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome."^^xsd:string ; oboInOwl:hasExactSynonym "lambda vector"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000754"^^xsd:string ; a owl:Class ; rdfs:label "lambda_vector"^^xsd:string ; rdfs:subClassOf obo:SO_0000440 . obo:SO_0000755 obo:IAO_0000115 "A plasmid that has been generated to act as a vector for foreign sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Plasmid_vector#Vectors"^^xsd:string ; oboInOwl:hasExactSynonym "plasmid vector"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000755"^^xsd:string ; a owl:Class ; rdfs:label "plasmid_vector"^^xsd:string ; rdfs:subClassOf obo:SO_0000440, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000155 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001235 [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000155 ] ) ] . obo:SO_0000756 obo:IAO_0000115 "DNA synthesized by reverse transcriptase using RNA as a template."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/CDNA"^^xsd:string ; oboInOwl:hasExactSynonym "complementary DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000756"^^xsd:string ; a owl:Class ; rdfs:label "cDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000352 . obo:SO_0000757 obo:IAO_0000115 "DNA synthesized from RNA by reverse transcriptase, single stranded."^^xsd:string ; oboInOwl:hasExactSynonym "single strand cDNA"^^xsd:string, "single stranded cDNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "single-strand cDNA"^^xsd:string ; oboInOwl:id "SO:0000757"^^xsd:string ; a owl:Class ; rdfs:label "single_stranded_cDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000756 . obo:SO_0000758 obo:IAO_0000115 "DNA synthesized from RNA by reverse transcriptase that has been copied by PCR to make it double stranded."^^xsd:string ; oboInOwl:hasExactSynonym "double stranded cDNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "double strand cDNA"^^xsd:string, "double-strand cDNA"^^xsd:string ; oboInOwl:id "SO:0000758"^^xsd:string ; a owl:Class ; rdfs:label "double_stranded_cDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000756 . obo:SO_0000759 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000759"^^xsd:string ; a owl:Class ; rdfs:label "plasmid_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000760 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000760"^^xsd:string ; a owl:Class ; rdfs:label "YAC_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000761 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000761"^^xsd:string ; a owl:Class ; rdfs:label "phagemid_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000762 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "P1_clone"^^xsd:string ; oboInOwl:id "SO:0000762"^^xsd:string ; a owl:Class ; rdfs:label "PAC_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000763 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000763"^^xsd:string ; a owl:Class ; rdfs:label "fosmid_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000764 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000764"^^xsd:string ; a owl:Class ; rdfs:label "BAC_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000765 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000765"^^xsd:string ; a owl:Class ; rdfs:label "cosmid_clone"^^xsd:string ; owl:deprecated true . obo:SO_0000766 obo:IAO_0000115 "A tRNA sequence that has a pyrrolysine anticodon, and a 3' pyrrolysine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "pyrrolysyl tRNA"^^xsd:string, "pyrrolysyl-transfer RNA"^^xsd:string, "pyrrolysyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000766"^^xsd:string ; a owl:Class ; rdfs:label "pyrrolysyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001178 ] . obo:SO_0000767 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000767"^^xsd:string ; a owl:Class ; rdfs:label "clone_insert_start"^^xsd:string ; owl:deprecated true . obo:SO_0000768 obo:IAO_0000115 "A plasmid that may integrate with a chromosome."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000768"^^xsd:string ; a owl:Class ; rdfs:label "episome"^^xsd:string ; rdfs:subClassOf obo:SO_0000155 . obo:SO_0000769 obo:IAO_0000115 "The region of a two-piece tmRNA that bears the reading frame encoding the proteolysis tag. The tmRNA gene undergoes circular permutation in some groups of bacteria. Processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together."^^xsd:string ; oboInOwl:hasExactSynonym "tmRNA coding piece"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000769"^^xsd:string ; a owl:Class ; rdfs:comment "Added in response to comment from Kelly Williams from Indiana. Nov 2005."^^xsd:string ; rdfs:label "tmRNA_coding_piece"^^xsd:string ; rdfs:subClassOf obo:SO_0000847 . obo:SO_0000770 obo:IAO_0000115 "The acceptor region of a two-piece tmRNA that when mature is charged at its 3' end with alanine. The tmRNA gene undergoes circular permutation in some groups of bacteria; processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together."^^xsd:string ; oboInOwl:hasExactSynonym "tmRNA acceptor piece"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000770"^^xsd:string ; a owl:Class ; rdfs:comment "Added in response to Kelly Williams from Indiana. Date: Nov 2005."^^xsd:string ; rdfs:label "tmRNA_acceptor_piece"^^xsd:string ; rdfs:subClassOf obo:SO_0000847 . obo:SO_0000771 obo:IAO_0000115 "A quantitative trait locus (QTL) is a polymorphic locus which contains alleles that differentially affect the expression of a continuously distributed phenotypic trait. Usually it is a marker described by statistical association to quantitative variation in the particular phenotypic trait that is thought to be controlled by the cumulative action of alleles at multiple loci."^^xsd:string ; oboInOwl:hasExactSynonym "quantitative trait locus"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000771"^^xsd:string ; a owl:Class ; rdfs:comment "Added in respose to request by Simon Twigger November 14th 2005."^^xsd:string ; rdfs:label "QTL"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0000772 obo:IAO_0000115 "A genomic island is an integrated mobile genetic element, characterized by size (over 10 Kb). It that has features that suggest a foreign origin. These can include nucleotide distribution (oligonucleotides signature, CG content etc.) that differs from the bulk of the chromosome and/or genes suggesting DNA mobility."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Genomic_island"^^xsd:string ; oboInOwl:hasExactSynonym "genomic island"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000772"^^xsd:string ; a owl:Class ; rdfs:comment "Genomic islands are transmissible elements characterized by large size (>10kb)."^^xsd:string ; rdfs:label "genomic_island"^^xsd:string ; rdfs:subClassOf obo:SO_0001039 . obo:SO_0000773 obo:IAO_0000115 "Mobile genetic elements that contribute to rapid changes in virulence potential. They are present on the genomes of pathogenic strains but absent from the genomes of non pathogenic members of the same or related species."^^xsd:string ; oboInOwl:hasExactSynonym "pathogenic island"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000773"^^xsd:string ; a owl:Class ; rdfs:comment "Nature Reviews Microbiology 2, 414-424 (2004); doi:10.1038 micro 884 GENOMIC ISLANDS IN PATHOGENIC AND ENVIRONMENTAL MICROORGANISMS Ulrich Dobrindt, Bianca Hochhut, Ute Hentschel & Jorg Hacker."^^xsd:string ; rdfs:label "pathogenic_island"^^xsd:string ; rdfs:subClassOf obo:SO_0000772 . obo:SO_0000774 obo:IAO_0000115 "A transmissible element containing genes involved in metabolism, analogous to the pathogenicity islands of gram negative bacteria."^^xsd:string ; oboInOwl:hasExactSynonym "metabolic island"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000774"^^xsd:string ; a owl:Class ; rdfs:comment "Genes for phenolic compound degradation in Pseudomonas putida are found on metabolic islands."^^xsd:string ; rdfs:label "metabolic_island"^^xsd:string ; rdfs:subClassOf obo:SO_0000772 . obo:SO_0000775 obo:IAO_0000115 "An adaptive island is a genomic island that provides an adaptive advantage to the host."^^xsd:string ; oboInOwl:hasExactSynonym "adaptive island"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000775"^^xsd:string ; a owl:Class ; rdfs:comment "The iron-uptake ability of many pathogens are conveyed by adaptive islands. Nature Reviews Microbiology 2, 414-424 (2004); doi:10.1038 micro 884 GENOMIC ISLANDS IN PATHOGENIC AND ENVIRONMENTAL MICROORGANISMS Ulrich Dobrindt, Bianca Hochhut, Ute Hentschel & Jorg Hacker."^^xsd:string ; rdfs:label "adaptive_island"^^xsd:string ; rdfs:subClassOf obo:SO_0000772 . obo:SO_0000776 obo:IAO_0000115 "A transmissible element containing genes involved in symbiosis, analogous to the pathogenicity islands of gram negative bacteria."^^xsd:string ; oboInOwl:hasExactSynonym "symbiosis island"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000776"^^xsd:string ; a owl:Class ; rdfs:comment "Nitrogen fixation in Rhizobiaceae species is encoded by symbiosis islands. Evolution of rhizobia by acquisition of a 500-kb symbiosis island that integrates into a phe-tRNA gene. John T. Sullivan and Clive W. Ronso PNAS 1998 Apr 28 95 (9) 5145-5149."^^xsd:string ; rdfs:label "symbiosis_island"^^xsd:string ; rdfs:subClassOf obo:SO_0000772 . obo:SO_0000777 obo:IAO_0000115 "A non functional descendant of an rRNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:rRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:pseudo"^^xsd:string, "pseudogenic rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000777"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Added Jan 2006 to allow the annotation of the pseudogenic rRNA by flybase. Non-functional is defined as its transcription is prevented due to one or more mutatations."^^xsd:string ; rdfs:label "pseudogenic_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000516 . obo:SO_0000778 obo:IAO_0000115 "A non functional descendent of a tRNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:tRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:pseudo"^^xsd:string, "pseudogenic tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000778"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Added Jan 2006 to allow the annotation of the pseudogenic tRNA by flybase. Non-functional is defined as its transcription is prevented due to one or more mutatations."^^xsd:string ; rdfs:label "pseudogenic_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000516 . obo:SO_0000779 obo:IAO_0000115 "An episome that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered episome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000779"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Lynn Crosby Jan 2006."^^xsd:string ; rdfs:label "engineered_episome"^^xsd:string ; rdfs:subClassOf obo:SO_0000637, obo:SO_0000768, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000768 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000780 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000780"^^xsd:string ; a owl:Class ; rdfs:comment "Added by KE Jan 2006 to capture the kinds of attributes of TEs"^^xsd:string ; rdfs:label "transposable_element_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000781 obo:IAO_0000115 "Attribute describing sequence that has been integrated with foreign sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000781"^^xsd:string ; a owl:Class ; rdfs:label "transgenic"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000782 obo:IAO_0000115 "An attribute describing a feature that occurs in nature."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000782"^^xsd:string ; a owl:Class ; rdfs:label "natural"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000783 obo:IAO_0000115 "An attribute to describe a region that was modified in vitro."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000783"^^xsd:string ; a owl:Class ; rdfs:label "engineered"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000784 obo:IAO_0000115 "An attribute to describe a region from another species."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000784"^^xsd:string ; a owl:Class ; rdfs:label "foreign"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000785 obo:IAO_0000115 "The region of sequence that has been inserted and is being propagated by the clone."^^xsd:string ; oboInOwl:hasExactSynonym "cloned region"^^xsd:string, "cloned segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000785"^^xsd:string ; a owl:Class ; rdfs:comment "Added in response to Lynn Crosby. A clone insert may be composed of many cloned regions."^^xsd:string ; rdfs:label "cloned_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000695, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000753 ] . obo:SO_0000786 oboInOwl:hasExactSynonym "reagent attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000786"^^xsd:string ; a owl:Class ; rdfs:comment "Added jan 2006 by KE."^^xsd:string ; rdfs:label "reagent_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000787 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000787"^^xsd:string ; a owl:Class ; rdfs:label "clone_attribute"^^xsd:string ; owl:deprecated true . obo:SO_0000788 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000788"^^xsd:string ; a owl:Class ; rdfs:label "cloned"^^xsd:string ; owl:deprecated true . obo:SO_0000789 obo:IAO_0000115 "An attribute to describe a feature that has been proven."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000789"^^xsd:string ; a owl:Class ; rdfs:label "validated"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0000790 obo:IAO_0000115 "An attribute describing a feature that is invalidated."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000790"^^xsd:string ; a owl:Class ; rdfs:label "invalidated"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0000791 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000791"^^xsd:string ; a owl:Class ; rdfs:label "cloned_genomic"^^xsd:string ; owl:deprecated true . obo:SO_0000792 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000792"^^xsd:string ; a owl:Class ; rdfs:label "cloned_cDNA"^^xsd:string ; owl:deprecated true . obo:SO_0000793 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000793"^^xsd:string ; a owl:Class ; rdfs:label "engineered_DNA"^^xsd:string ; owl:deprecated true . obo:SO_0000794 obo:IAO_0000115 "A rescue region that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered rescue fragment"^^xsd:string, "engineered rescue region"^^xsd:string, "engineered rescue segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000794"^^xsd:string ; a owl:Class ; rdfs:label "engineered_rescue_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000411, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000411 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000795 obo:IAO_0000115 "A mini_gene that rescues."^^xsd:string ; oboInOwl:hasExactSynonym "rescue mini gene"^^xsd:string, "rescue mini-gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000795"^^xsd:string ; a owl:Class ; rdfs:label "rescue_mini_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000815, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000814 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000815 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000814 ] ) ] . obo:SO_0000796 obo:IAO_0000115 "TE that has been modified in vitro, including insertion of DNA derived from a source other than the originating TE."^^xsd:string ; oboInOwl:hasExactSynonym "transgenic transposable element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000796"^^xsd:string ; a owl:Class ; rdfs:comment "Modified as requested by Lynn - FB. May 2007."^^xsd:string ; rdfs:label "transgenic_transposable_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000101, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000151 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000781 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000101 [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000151 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000781 ] ) ] . obo:SO_0000797 obo:IAO_0000115 "TE that exists (or existed) in nature."^^xsd:string ; oboInOwl:hasExactSynonym "natural transposable element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000797"^^xsd:string ; a owl:Class ; rdfs:label "natural_transposable_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000101, obo:SO_0001038, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000782 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000101 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000782 ] ) ] . obo:SO_0000798 obo:IAO_0000115 "TE that has been modified by manipulations in vitro."^^xsd:string ; oboInOwl:hasExactSynonym "engineered transposable element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000798"^^xsd:string ; a owl:Class ; rdfs:label "engineered_transposable_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000101, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000101 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000799 obo:IAO_0000115 "A transposable_element that is engineered and foreign."^^xsd:string ; oboInOwl:hasExactSynonym "engineered foreign transposable element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000799"^^xsd:string ; a owl:Class ; rdfs:label "engineered_foreign_transposable_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000720, obo:SO_0000798, obo:SO_0000805, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000101 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000800 obo:IAO_0000115 "A multi-chromosome duplication aberration generated by reassortment of other aberration components."^^xsd:string ; oboInOwl:hasExactSynonym "assortment derived duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000800"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_0001504 . obo:SO_0000801 obo:IAO_0000115 "A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency and a duplication."^^xsd:string ; oboInOwl:hasExactSynonym "assortment derived deficiency plus duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000801"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_deficiency_plus_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_0001504 . obo:SO_0000802 obo:IAO_0000115 "A multi-chromosome deficiency aberration generated by reassortment of other aberration components."^^xsd:string ; oboInOwl:hasExactSynonym "assortment-derived deficiency"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000802"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_deficiency"^^xsd:string ; rdfs:subClassOf obo:SO_0001504 . obo:SO_0000803 obo:IAO_0000115 "A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency or a duplication."^^xsd:string ; oboInOwl:hasExactSynonym "assortment derived aneuploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000803"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_aneuploid"^^xsd:string ; rdfs:subClassOf obo:SO_0001504 . obo:SO_0000804 obo:IAO_0000115 "A region that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "construct"^^xsd:string, "engineered region"^^xsd:string, "engineered sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000804"^^xsd:string ; a owl:Class ; rdfs:label "engineered_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001409, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000001 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000805 obo:IAO_0000115 "A region that is engineered and foreign."^^xsd:string ; oboInOwl:hasExactSynonym "engineered foreign region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000805"^^xsd:string ; a owl:Class ; rdfs:label "engineered_foreign_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000001 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000784 ] ) ] . obo:SO_0000806 obo:IAO_0000115 "When two regions of DNA are joined together that are not normally together."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000806"^^xsd:string ; a owl:Class ; rdfs:label "fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000807 obo:IAO_0000115 "A tag that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered tag"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000807"^^xsd:string ; a owl:Class ; rdfs:label "engineered_tag"^^xsd:string ; rdfs:subClassOf obo:SO_0000324, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000324 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000808 obo:IAO_0000115 "A cDNA clone that has been validated."^^xsd:string ; oboInOwl:hasExactSynonym "validated cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000808"^^xsd:string ; a owl:Class ; rdfs:label "validated_cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000317, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000789 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000317 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000789 ] ) ] . obo:SO_0000809 obo:IAO_0000115 "A cDNA clone that is invalid."^^xsd:string ; oboInOwl:hasExactSynonym "invalidated cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000809"^^xsd:string ; a owl:Class ; rdfs:label "invalidated_cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000317, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000790 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000317 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000790 ] ) ] . obo:SO_0000810 obo:IAO_0000115 "A cDNA clone invalidated because it is chimeric."^^xsd:string ; oboInOwl:hasExactSynonym "chimeric cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000810"^^xsd:string ; a owl:Class ; rdfs:label "chimeric_cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000809, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000362 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000809 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000362 ] ) ] . obo:SO_0000811 obo:IAO_0000115 "A cDNA clone invalidated by genomic contamination."^^xsd:string ; oboInOwl:hasExactSynonym "genomically contaminated cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000811"^^xsd:string ; a owl:Class ; rdfs:label "genomically_contaminated_cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000809, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000414 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000809 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000414 ] ) ] . obo:SO_0000812 obo:IAO_0000115 "A cDNA clone invalidated by polyA priming."^^xsd:string ; oboInOwl:hasExactSynonym "polyA primed cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000812"^^xsd:string ; a owl:Class ; rdfs:label "polyA_primed_cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000809, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000415 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000809 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000415 ] ) ] . obo:SO_0000813 obo:IAO_0000115 "A cDNA invalidated clone by partial processing."^^xsd:string ; oboInOwl:hasExactSynonym "partially processed cDNA clone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000813"^^xsd:string ; a owl:Class ; rdfs:label "partially_processed_cDNA_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000809, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000416 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000809 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000416 ] ) ] . obo:SO_0000814 obo:IAO_0000115 "An attribute describing a region's ability, when introduced to a mutant organism, to re-establish (rescue) a phenotype."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000814"^^xsd:string ; a owl:Class ; rdfs:label "rescue"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000815 obo:IAO_0000115 "By definition, minigenes are short open-reading frames (ORF), usually encoding approximately 9 to 20 amino acids, which are expressed in vivo (as distinct from being synthesized as peptide or protein ex vivo and subsequently injected). The in vivo synthesis confers a distinct advantage: the expressed sequences can enter both antigen presentation pathways, MHC I (inducing CD8+ T- cells, which are usually cytotoxic T-lymphocytes (CTL)) and MHC II (inducing CD4+ T-cells, usually 'T-helpers' (Th)); and can encounter B-cells, inducing antibody responses. Three main vector approaches have been used to deliver minigenes: viral vectors, bacterial vectors and plasmid DNA."^^xsd:string ; oboInOwl:hasExactSynonym "mini gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000815"^^xsd:string ; a owl:Class ; rdfs:label "mini_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000236 . obo:SO_0000816 obo:IAO_0000115 "A gene that rescues."^^xsd:string ; oboInOwl:hasExactSynonym "rescue gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000816"^^xsd:string ; a owl:Class ; rdfs:label "rescue_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000814 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000814 ] ) ] . obo:SO_0000817 obo:IAO_0000115 "An attribute describing sequence with the genotype found in nature and/or standard laboratory stock."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Wild_type"^^xsd:string, "loinc:LA9658-1"^^xsd:string ; oboInOwl:hasExactSynonym "wild type"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000817"^^xsd:string ; a owl:Class ; rdfs:label "wild_type"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000818 obo:IAO_0000115 "A gene that rescues."^^xsd:string ; oboInOwl:hasExactSynonym "wild type rescue gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000818"^^xsd:string ; a owl:Class ; rdfs:label "wild_type_rescue_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000816, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000817 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000817 ] ) ] . obo:SO_0000819 obo:IAO_0000115 "A chromosome originating in a mitochondria."^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000819"^^xsd:string ; a owl:Class ; rdfs:label "mitochondrial_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] ) ] . obo:SO_0000820 obo:IAO_0000115 "A chromosome originating in a chloroplast."^^xsd:string ; oboInOwl:hasExactSynonym "chloroplast chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000820"^^xsd:string ; a owl:Class ; rdfs:label "chloroplast_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000745 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000745 ] ) ] . obo:SO_0000821 obo:IAO_0000115 "A chromosome originating in a chromoplast."^^xsd:string ; oboInOwl:hasExactSynonym "chromoplast chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000821"^^xsd:string ; a owl:Class ; rdfs:label "chromoplast_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000744 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000744 ] ) ] . obo:SO_0000822 obo:IAO_0000115 "A chromosome originating in a cyanelle."^^xsd:string ; oboInOwl:hasExactSynonym "cyanelle chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000822"^^xsd:string ; a owl:Class ; rdfs:label "cyanelle_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000746 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000746 ] ) ] . obo:SO_0000823 obo:IAO_0000115 "A chromosome with origin in a leucoplast."^^xsd:string ; oboInOwl:hasExactSynonym "leucoplast chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000823"^^xsd:string ; a owl:Class ; rdfs:label "leucoplast_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000747 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000747 ] ) ] . obo:SO_0000824 obo:IAO_0000115 "A chromosome originating in a macronucleus."^^xsd:string ; oboInOwl:hasExactSynonym "macronuclear chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000824"^^xsd:string ; a owl:Class ; rdfs:label "macronuclear_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000083 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000083 ] ) ] . obo:SO_0000825 obo:IAO_0000115 "A chromosome originating in a micronucleus."^^xsd:string ; oboInOwl:hasExactSynonym "micronuclear chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000825"^^xsd:string ; a owl:Class ; rdfs:label "micronuclear_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000084 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000084 ] ) ] . obo:SO_0000826 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000741 ; a owl:Class ; owl:deprecated true . obo:SO_0000827 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000742 ; a owl:Class ; owl:deprecated true . obo:SO_0000828 obo:IAO_0000115 "A chromosome originating in a nucleus."^^xsd:string ; oboInOwl:hasExactSynonym "nuclear chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000828"^^xsd:string ; a owl:Class ; rdfs:label "nuclear_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000738 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000738 ] ) ] . obo:SO_0000829 obo:IAO_0000115 "A chromosome originating in a nucleomorph."^^xsd:string ; oboInOwl:hasExactSynonym "nucleomorphic chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000829"^^xsd:string ; a owl:Class ; rdfs:label "nucleomorphic_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000739 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000739 ] ) ] . obo:SO_0000830 obo:IAO_0000115 "A region of a chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal region"^^xsd:string, "chromosomal_region"^^xsd:string, "chromosome part"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000830"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This is a manufactured term, that serves the purpose of allow the parts of a chromosome to have an is_a path to the root."^^xsd:string ; rdfs:label "chromosome_part"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000340 ] . obo:SO_0000831 obo:IAO_0000115 "A region of a gene."^^xsd:string ; oboInOwl:hasExactSynonym "gene member region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000831"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A manufactured term used to allow the parts of a gene to have an is_a path to the root."^^xsd:string ; rdfs:label "gene_member_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:member_of ; owl:someValuesFrom obo:SO_0000704 ] . obo:SO_0000832 obo:IAO_0000115 "A region of sequence which is part of a promoter."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000832"^^xsd:string ; a owl:Class ; rdfs:comment "This is a manufactured term to allow the parts of promoter to have an is_a path back to the root."^^xsd:string ; rdfs:label "promoter_region"^^xsd:string ; owl:deprecated true . obo:SO_0000833 obo:IAO_0000115 "A region of a transcript."^^xsd:string ; oboInOwl:hasExactSynonym "transcript region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000833"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term was added to provide a grouping term for the region parts of transcript, thus giving them an is_a path back to the root."^^xsd:string ; rdfs:label "transcript_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000673 ] . obo:SO_0000834 obo:IAO_0000115 "A region of a mature transcript."^^xsd:string ; oboInOwl:hasExactSynonym "mature transcript region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000834"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A manufactured term to collect together the parts of a mature transcript and give them an is_a path to the root."^^xsd:string ; rdfs:label "mature_transcript_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000833 . obo:SO_0000835 obo:IAO_0000115 "A part of a primary transcript."^^xsd:string ; oboInOwl:hasExactSynonym "primary transcript region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000835"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term was added to provide a grouping term for the region parts of primary_transcript, thus giving them an is_a path back to the root."^^xsd:string ; rdfs:label "primary_transcript_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000833, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000185 ] . obo:SO_0000836 obo:IAO_0000115 "A region of an mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000836"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "This term was added to provide a grouping term for the region parts of mRNA, thus giving them an is_a path back to the root."^^xsd:string ; rdfs:label "mRNA_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000834, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000234 ] . obo:SO_0000837 obo:IAO_0000115 "A region of UTR."^^xsd:string ; oboInOwl:hasExactSynonym "UTR region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000837"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A region of UTR. This term is a grouping term to allow the parts of UTR to have an is_a path to the root."^^xsd:string ; rdfs:label "UTR_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000836 . obo:SO_0000838 obo:IAO_0000115 "A region of an rRNA primary transcript."^^xsd:string ; oboInOwl:hasExactSynonym "rRNA primary transcript region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000838"^^xsd:string ; a owl:Class ; rdfs:comment "To allow transcribed_spacer_region to have a path to the root."^^xsd:string ; rdfs:label "rRNA_primary_transcript_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000835, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000209 ] . obo:SO_0000839 obo:IAO_0000115 "Biological sequence region that can be assigned to a specific subsequence of a polypeptide."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00124"^^xsd:string, "BS:00331"^^xsd:string ; oboInOwl:hasNarrowSynonym "region"^^xsd:string, "site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "positional"^^xsd:string, "positional polypeptide feature"^^xsd:string, "region or site annotation"^^xsd:string ; oboInOwl:id "SO:0000839"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "Added to allow the polypeptide regions to have is_a paths back to the root."^^xsd:string ; rdfs:label "polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000104 ] . obo:SO_0000840 obo:IAO_0000115 "A region of a repeated sequence."^^xsd:string ; oboInOwl:hasExactSynonym "repeat component"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000840"^^xsd:string ; a owl:Class ; rdfs:comment "A manufactured to group the parts of repeats, to give them an is_a path back to the root."^^xsd:string ; rdfs:label "repeat_component"^^xsd:string ; rdfs:subClassOf obo:SO_0001412 . obo:SO_0000841 obo:IAO_0000115 "A region within an intron."^^xsd:string ; oboInOwl:hasExactSynonym "spliceosomal intron region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000841"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "A terms added to allow the parts of introns to have is_a paths to the root."^^xsd:string ; rdfs:label "spliceosomal_intron_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000835, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000662 ] . obo:SO_0000842 obo:IAO_0000115 "A region of a gene that has a specific function."^^xsd:string ; oboInOwl:hasExactSynonym "gene component region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000842"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "gene_component_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000704 ] . obo:SO_0000843 obo:IAO_0000115 "A region which is part of a bacterial RNA polymerase promoter."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000843"^^xsd:string ; a owl:Class ; rdfs:comment "This is a manufactured term to allow the parts of bacterial_RNApol_promoter to have an is_a path back to the root."^^xsd:string ; rdfs:label "bacterial_RNApol_promoter_region"^^xsd:string ; owl:deprecated true . obo:SO_0000844 obo:IAO_0000115 "A region of sequence which is a promoter for RNA polymerase II."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000844"^^xsd:string ; a owl:Class ; rdfs:comment "This is a manufactured term to allow the parts of RNApol_II_promoter to have an is_a path back to the root."^^xsd:string ; rdfs:label "RNApol_II_promoter_region"^^xsd:string ; owl:deprecated true . obo:SO_0000845 obo:IAO_0000115 "A region of sequence which is a promoter for RNA polymerase III type 1."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000845"^^xsd:string ; a owl:Class ; rdfs:comment "This is a manufactured term to allow the parts of RNApol_III_promoter_type_1 to have an is_a path back to the root."^^xsd:string ; rdfs:label "RNApol_III_promoter_type_1_region"^^xsd:string ; owl:deprecated true . obo:SO_0000846 obo:IAO_0000115 "A region of sequence which is a promoter for RNA polymerase III type 2."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000846"^^xsd:string ; a owl:Class ; rdfs:comment "This is a manufactured term to allow the parts of RNApol_III_promoter_type_2 to have an is_a path back to the root."^^xsd:string ; rdfs:label "RNApol_III_promoter_type_2_region"^^xsd:string ; owl:deprecated true . obo:SO_0000847 obo:IAO_0000115 "A region of a tmRNA."^^xsd:string ; oboInOwl:hasExactSynonym "tmRNA region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000847"^^xsd:string ; a owl:Class ; rdfs:comment "This term was added to provide a grouping term for the region parts of tmRNA, thus giving them an is_a path back to the root."^^xsd:string ; rdfs:label "tmRNA_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000834, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000584 ] . obo:SO_0000848 obo:IAO_0000115 "The long terminal repeat found at the ends of the sequence to be inserted into the host genome."^^xsd:string ; oboInOwl:hasExactSynonym "LTR component"^^xsd:string, "long term repeat component"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000848"^^xsd:string ; a owl:Class ; rdfs:label "LTR_component"^^xsd:string ; rdfs:subClassOf obo:SO_0000840, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000286 ] . obo:SO_0000849 obo:IAO_0000115 "A component of the three-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "3' long terminal repeat component"^^xsd:string, "three prime LTR component"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000849"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_LTR_component"^^xsd:string ; rdfs:subClassOf obo:SO_0000848, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000426 ] . obo:SO_0000850 obo:IAO_0000115 "A component of the five-prime long terminal repeat."^^xsd:string ; oboInOwl:hasExactSynonym "5' long term repeat component"^^xsd:string, "five prime LTR component"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000850"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_LTR_component"^^xsd:string ; rdfs:subClassOf obo:SO_0000848, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000425 ] . obo:SO_0000851 obo:IAO_0000115 "A region of a CDS."^^xsd:string ; oboInOwl:hasExactSynonym "CDS region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000851"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "CDS_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000836, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000316 ] . obo:SO_0000852 obo:IAO_0000115 "A region of an exon."^^xsd:string ; oboInOwl:hasExactSynonym "exon region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000852"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "exon_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000833, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000147 ] . obo:SO_0000853 obo:IAO_0000115 "A region that is homologous to another region."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Homology_(biology)"^^xsd:string ; oboInOwl:hasExactSynonym "homolog"^^xsd:string, "homologous region"^^xsd:string, "homologue"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000853"^^xsd:string ; a owl:Class ; rdfs:label "homologous_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000857 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000330 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000857 ] ) ] . obo:SO_0000854 obo:IAO_0000115 "A homologous_region that is paralogous to another region."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Paralog#Paralogy"^^xsd:string ; oboInOwl:hasExactSynonym "paralog"^^xsd:string, "paralogous region"^^xsd:string, "paralogue"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000854"^^xsd:string ; a owl:Class ; rdfs:comment "A term to be used in conjunction with the paralogous_to relationship."^^xsd:string ; rdfs:label "paralogous_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000853, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000859 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000853 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000859 ] ) ] . obo:SO_0000855 obo:IAO_0000115 "A homologous_region that is orthologous to another region."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Ortholog#Orthology"^^xsd:string ; oboInOwl:hasExactSynonym "ortholog"^^xsd:string, "orthologous region"^^xsd:string, "orthologue"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000855"^^xsd:string ; a owl:Class ; rdfs:comment "This term should be used in conjunction with the similarity relationships defined in SO."^^xsd:string ; rdfs:label "orthologous_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000853, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000858 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000853 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000858 ] ) ] . obo:SO_0000856 obo:IAO_0000115 "A region that is similar or identical across more than one species."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000856"^^xsd:string ; a owl:Class ; rdfs:label "conserved"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000857 obo:IAO_0000115 "Similarity due to common ancestry."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000857"^^xsd:string ; a owl:Class ; rdfs:label "homologous"^^xsd:string ; rdfs:subClassOf obo:SO_0000856 . obo:SO_0000858 obo:IAO_0000115 "An attribute describing a kind of homology where divergence occurred after a speciation event."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000858"^^xsd:string ; a owl:Class ; rdfs:label "orthologous"^^xsd:string ; rdfs:subClassOf obo:SO_0000857 . obo:SO_0000859 obo:IAO_0000115 "An attribute describing a kind of homology where divergence occurred after a duplication event."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000859"^^xsd:string ; a owl:Class ; rdfs:label "paralogous"^^xsd:string ; rdfs:subClassOf obo:SO_0000857 . obo:SO_0000860 obo:IAO_0000115 "Attribute describing sequence regions occurring in same order on chromosome of different species."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Syntenic"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000860"^^xsd:string ; a owl:Class ; rdfs:label "syntenic"^^xsd:string ; rdfs:subClassOf obo:SO_0000856 . obo:SO_0000861 obo:IAO_0000115 "A primary transcript that is capped."^^xsd:string ; oboInOwl:hasExactSynonym "capped primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000861"^^xsd:string ; a owl:Class ; rdfs:label "capped_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000185, [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000581 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000146 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000185 [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000581 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000146 ] ) ] . obo:SO_0000862 obo:IAO_0000115 "An mRNA that is capped."^^xsd:string ; oboInOwl:hasExactSynonym "capped mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000862"^^xsd:string ; a owl:Class ; rdfs:label "capped_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000581 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000146 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000581 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000146 ] ) ] . obo:SO_0000863 obo:IAO_0000115 "An attribute describing an mRNA feature."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000863"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000864 obo:IAO_0000115 "An attribute describing a sequence is representative of a class of similar sequences."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000864"^^xsd:string ; a owl:Class ; rdfs:label "exemplar"^^xsd:string ; rdfs:subClassOf obo:SO_0000863 . obo:SO_0000865 obo:IAO_0000115 "An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is not divisible by 3."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000865"^^xsd:string ; a owl:Class ; rdfs:label "frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000863 . obo:SO_0000866 obo:IAO_0000115 "A frameshift caused by deleting one base."^^xsd:string ; oboInOwl:hasExactSynonym "minus 1 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000866"^^xsd:string ; a owl:Class ; rdfs:label "minus_1_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000865 . obo:SO_0000867 obo:IAO_0000115 "A frameshift caused by deleting two bases."^^xsd:string ; oboInOwl:hasExactSynonym "minus 2 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000867"^^xsd:string ; a owl:Class ; rdfs:label "minus_2_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000865 . obo:SO_0000868 obo:IAO_0000115 "A frameshift caused by inserting one base."^^xsd:string ; oboInOwl:hasExactSynonym "plus 1 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000868"^^xsd:string ; a owl:Class ; rdfs:label "plus_1_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000865 . obo:SO_0000869 obo:IAO_0000115 "A frameshift caused by inserting two bases."^^xsd:string ; oboInOwl:hasExactSynonym "plus 2 framshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000869"^^xsd:string ; a owl:Class ; rdfs:label "plus_2_framshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000865 . obo:SO_0000870 obo:IAO_0000115 "An attribute describing transcript sequence that is created by splicing exons from diferent genes."^^xsd:string ; oboInOwl:hasExactSynonym "trans-spliced"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000870"^^xsd:string ; a owl:Class ; rdfs:label "trans_spliced"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000871 obo:IAO_0000115 "An mRNA that is polyadenylated."^^xsd:string ; oboInOwl:hasExactSynonym "polyadenylated mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000871"^^xsd:string ; a owl:Class ; rdfs:label "polyadenylated_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000610 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000246 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000610 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000246 ] ) ] . obo:SO_0000872 obo:IAO_0000115 "An mRNA that is trans-spliced."^^xsd:string ; oboInOwl:hasExactSynonym "trans-spliced mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000872"^^xsd:string ; a owl:Class ; rdfs:label "trans_spliced_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, obo:SO_0000479, [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000636 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000870 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:adjacent_to ; owl:someValuesFrom obo:SO_0000636 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000870 ] ) ] . obo:SO_0000873 obo:IAO_0000115 "A transcript that is edited."^^xsd:string ; oboInOwl:hasExactSynonym "edited transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000873"^^xsd:string ; a owl:Class ; rdfs:label "edited_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:guided_by ; owl:someValuesFrom obo:SO_0000602 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000977 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000116 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000116 ] ) ] . obo:SO_0000874 obo:IAO_0000115 "A transcript that has been edited by A to I substitution."^^xsd:string ; oboInOwl:hasExactSynonym "edited transcript by A to I substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000874"^^xsd:string ; a owl:Class ; rdfs:label "edited_transcript_by_A_to_I_substitution"^^xsd:string ; rdfs:subClassOf obo:SO_0000873 . obo:SO_0000875 obo:IAO_0000115 "An attribute describing a sequence that is bound by a protein."^^xsd:string ; oboInOwl:hasExactSynonym "bound by protein"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000875"^^xsd:string ; a owl:Class ; rdfs:label "bound_by_protein"^^xsd:string ; rdfs:subClassOf obo:SO_0000277 . obo:SO_0000876 obo:IAO_0000115 "An attribute describing a sequence that is bound by a nucleic acid."^^xsd:string ; oboInOwl:hasExactSynonym "bound by nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000876"^^xsd:string ; a owl:Class ; rdfs:label "bound_by_nucleic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0000277 . obo:SO_0000877 obo:IAO_0000115 "An attribute describing a situation where a gene may encode for more than 1 transcript."^^xsd:string ; oboInOwl:hasExactSynonym "alternatively spliced"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000877"^^xsd:string ; a owl:Class ; rdfs:label "alternatively_spliced"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000878 obo:IAO_0000115 "An attribute describing a sequence that contains the code for one gene product."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000878"^^xsd:string ; a owl:Class ; rdfs:label "monocistronic"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000879 obo:IAO_0000115 "An attribute describing a sequence that contains the code for two gene products."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000879"^^xsd:string ; a owl:Class ; rdfs:label "dicistronic"^^xsd:string ; rdfs:subClassOf obo:SO_0000880 . obo:SO_0000880 obo:IAO_0000115 "An attribute describing a sequence that contains the code for more than one gene product."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000880"^^xsd:string ; a owl:Class ; rdfs:label "polycistronic"^^xsd:string ; rdfs:subClassOf obo:SO_0000237 . obo:SO_0000881 obo:IAO_0000115 "An attribute describing an mRNA sequence that has been reprogrammed at translation, causing localized alterations."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000881"^^xsd:string ; a owl:Class ; rdfs:label "recoded"^^xsd:string ; rdfs:subClassOf obo:SO_0000863 . obo:SO_0000882 obo:IAO_0000115 "An attribute describing the alteration of codon meaning."^^xsd:string ; oboInOwl:hasExactSynonym "codon redefined"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000882"^^xsd:string ; a owl:Class ; rdfs:label "codon_redefined"^^xsd:string ; rdfs:subClassOf obo:SO_0000881 . obo:SO_0000883 obo:IAO_0000115 "A stop codon redefined to be a new amino acid."^^xsd:string ; oboInOwl:hasExactSynonym "stop codon read through"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "stop codon readthrough"^^xsd:string ; oboInOwl:id "SO:0000883"^^xsd:string ; a owl:Class ; rdfs:label "stop_codon_read_through"^^xsd:string ; rdfs:subClassOf obo:SO_0000145 . obo:SO_0000884 obo:IAO_0000115 "A stop codon redefined to be the new amino acid, pyrrolysine."^^xsd:string ; oboInOwl:hasExactSynonym "stop codon redefined as pyrrolysine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000884"^^xsd:string ; a owl:Class ; rdfs:label "stop_codon_redefined_as_pyrrolysine"^^xsd:string ; rdfs:subClassOf obo:SO_0000883 . obo:SO_0000885 obo:IAO_0000115 "A stop codon redefined to be the new amino acid, selenocysteine."^^xsd:string ; oboInOwl:hasExactSynonym "stop codon redefined as selenocysteine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000885"^^xsd:string ; a owl:Class ; rdfs:label "stop_codon_redefined_as_selenocysteine"^^xsd:string ; rdfs:subClassOf obo:SO_0000883 . obo:SO_0000886 obo:IAO_0000115 "Recoded mRNA where a block of nucleotides is not translated."^^xsd:string ; oboInOwl:hasExactSynonym "recoded by translational bypass"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000886"^^xsd:string ; a owl:Class ; rdfs:label "recoded_by_translational_bypass"^^xsd:string ; rdfs:subClassOf obo:SO_0000881 . obo:SO_0000887 obo:IAO_0000115 "Recoding by frameshifting a particular site."^^xsd:string ; oboInOwl:hasExactSynonym "translationally frameshifted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000887"^^xsd:string ; a owl:Class ; rdfs:label "translationally_frameshifted"^^xsd:string ; rdfs:subClassOf obo:SO_0000881 . obo:SO_0000888 obo:IAO_0000115 "A gene that is maternally_imprinted."^^xsd:string ; oboInOwl:hasExactSynonym "maternally imprinted gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000888"^^xsd:string ; a owl:Class ; rdfs:label "maternally_imprinted_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000898, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000135 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000135 ] ) ] . obo:SO_0000889 obo:IAO_0000115 "A gene that is paternally imprinted."^^xsd:string ; oboInOwl:hasExactSynonym "paternally imprinted gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000889"^^xsd:string ; a owl:Class ; rdfs:label "paternally_imprinted_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000898, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000136 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000136 ] ) ] . obo:SO_0000890 obo:IAO_0000115 "A gene that is post translationally regulated."^^xsd:string ; oboInOwl:hasExactSynonym "post translationally regulated gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000890"^^xsd:string ; a owl:Class ; rdfs:label "post_translationally_regulated_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000130 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000130 ] ) ] . obo:SO_0000891 obo:IAO_0000115 "A gene that is negatively autoreguated."^^xsd:string ; oboInOwl:hasExactSynonym "negatively autoregulated gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000891"^^xsd:string ; a owl:Class ; rdfs:label "negatively_autoregulated_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000473 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000473 ] ) ] . obo:SO_0000892 obo:IAO_0000115 "A gene that is positively autoregulated."^^xsd:string ; oboInOwl:hasExactSynonym "positively autoregulated gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000892"^^xsd:string ; a owl:Class ; rdfs:label "positively_autoregulated_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000475 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000475 ] ) ] . obo:SO_0000893 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated at transcriptional or translational level."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Silenced"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000893"^^xsd:string ; a owl:Class ; rdfs:label "silenced"^^xsd:string ; rdfs:subClassOf obo:SO_0000126 . obo:SO_0000894 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated by DNA modifications, resulting in repression of transcription."^^xsd:string ; oboInOwl:hasExactSynonym "silenced by DNA modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000894"^^xsd:string ; a owl:Class ; rdfs:label "silenced_by_DNA_modification"^^xsd:string ; rdfs:subClassOf obo:SO_0000893 . obo:SO_0000895 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated by DNA methylation, resulting in repression of transcription."^^xsd:string ; oboInOwl:hasExactSynonym "silenced by DNA methylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000895"^^xsd:string ; a owl:Class ; rdfs:label "silenced_by_DNA_methylation"^^xsd:string ; rdfs:subClassOf obo:SO_0000894 . obo:SO_0000896 obo:IAO_0000115 "A gene that is translationally regulated."^^xsd:string ; oboInOwl:hasExactSynonym "translationally regulated gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000896"^^xsd:string ; a owl:Class ; rdfs:label "translationally_regulated_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000131 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000131 ] ) ] . obo:SO_0000897 obo:IAO_0000115 "A gene that is allelically_excluded."^^xsd:string ; oboInOwl:hasExactSynonym "allelically excluded gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000897"^^xsd:string ; a owl:Class ; rdfs:label "allelically_excluded_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000898, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000137 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000898 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000137 ] ) ] . obo:SO_0000898 obo:IAO_0000115 "A gene that is epigenetically modified."^^xsd:string ; oboInOwl:hasExactSynonym "epigenetically modified gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000898"^^xsd:string ; a owl:Class ; rdfs:label "epigenetically_modified_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, obo:SO_0001720, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] ) ] . obo:SO_0000899 obo:IAO_0000115 "An attribute describing a nuclear pseudogene of a mitochndrial gene."^^xsd:string ; oboInOwl:hasExactSynonym "nuclear mitochondrial"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000899"^^xsd:string ; a owl:Class ; rdfs:label "nuclear_mitochondrial"^^xsd:string ; owl:deprecated true . obo:SO_0000900 obo:IAO_0000115 "An attribute describing a pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promotors, but often including a polyA tail."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000900"^^xsd:string ; a owl:Class ; rdfs:label "processed"^^xsd:string ; owl:deprecated true . obo:SO_0000901 obo:IAO_0000115 "An attribute describing a pseudogene that was created by tandem duplication and unequal crossing over during recombination."^^xsd:string ; oboInOwl:hasExactSynonym "unequally crossed over"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000901"^^xsd:string ; a owl:Class ; rdfs:label "unequally_crossed_over"^^xsd:string ; owl:deprecated true . obo:SO_0000902 obo:IAO_0000115 "A transgene is a gene that has been transferred naturally or by any of a number of genetic engineering techniques from one organism to another."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Transgene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000902"^^xsd:string ; a owl:Class ; rdfs:label "transgene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000781 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000781 ] ) ] . obo:SO_0000903 obo:IAO_0000115 "Endogenous DNA sequence that are likely to have arisen from retroviruses."^^xsd:string ; oboInOwl:hasExactSynonym "endogenous retroviral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000903"^^xsd:string ; a owl:Class ; rdfs:label "endogenous_retroviral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000751 . obo:SO_0000904 obo:IAO_0000115 "An attribute to describe the sequence of a feature, where the DNA is rearranged."^^xsd:string ; oboInOwl:hasExactSynonym "rearranged at DNA level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000904"^^xsd:string ; a owl:Class ; rdfs:label "rearranged_at_DNA_level"^^xsd:string ; rdfs:subClassOf obo:SO_0000133 . obo:SO_0000905 obo:IAO_0000115 "An attribute describing the status of a feature, based on the available evidence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000905"^^xsd:string ; a owl:Class ; rdfs:comment "This term is the hypernym of attributes and should not be annotated to."^^xsd:string ; rdfs:label "status"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000906 obo:IAO_0000115 "Attribute to describe a feature that is independently known - not predicted."^^xsd:string ; oboInOwl:hasExactSynonym "independently known"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000906"^^xsd:string ; a owl:Class ; rdfs:label "independently_known"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0000907 obo:IAO_0000115 "An attribute to describe a feature that has been predicted using sequence similarity techniques."^^xsd:string ; oboInOwl:hasExactSynonym "supported by sequence similarity"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000907"^^xsd:string ; a owl:Class ; rdfs:label "supported_by_sequence_similarity"^^xsd:string ; rdfs:subClassOf obo:SO_0000732 . obo:SO_0000908 obo:IAO_0000115 "An attribute to describe a feature that has been predicted using sequence similarity of a known domain."^^xsd:string ; oboInOwl:hasExactSynonym "supported by domain match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000908"^^xsd:string ; a owl:Class ; rdfs:label "supported_by_domain_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000907 . obo:SO_0000909 obo:IAO_0000115 "An attribute to describe a feature that has been predicted using sequence similarity to EST or cDNA data."^^xsd:string ; oboInOwl:hasExactSynonym "supported by EST or cDNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000909"^^xsd:string ; a owl:Class ; rdfs:label "supported_by_EST_or_cDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000907 . obo:SO_0000910 obo:IAO_0000115 "A gene whose predicted amino acid sequence is unsupported by any experimental evidence or by any match with any other known sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000910"^^xsd:string ; a owl:Class ; rdfs:label "orphan"^^xsd:string ; rdfs:subClassOf obo:SO_0000732 . obo:SO_0000911 obo:IAO_0000115 "An attribute describing a feature that is predicted by a computer program that did not rely on sequence similarity."^^xsd:string ; oboInOwl:hasExactSynonym "predicted by ab initio computation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000911"^^xsd:string ; a owl:Class ; rdfs:label "predicted_by_ab_initio_computation"^^xsd:string ; rdfs:subClassOf obo:SO_0000732 . obo:SO_0000912 obo:IAO_0000115 "A motif of three consecutive residues and one H-bond in which: residue(i) is Aspartate or Asparagine (Asx), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00203"^^xsd:string ; oboInOwl:hasExactSynonym "asx turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000912"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "asx_turn"^^xsd:string ; rdfs:subClassOf obo:SO_0001128 . obo:SO_0000913 obo:IAO_0000115 "A clone insert made from cDNA."^^xsd:string ; oboInOwl:hasExactSynonym "cloned cDNA insert"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000913"^^xsd:string ; a owl:Class ; rdfs:label "cloned_cDNA_insert"^^xsd:string ; rdfs:subClassOf obo:SO_0000753, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000756 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000753 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000756 ] ) ] . obo:SO_0000914 obo:IAO_0000115 "A clone insert made from genomic DNA."^^xsd:string ; oboInOwl:hasExactSynonym "cloned genomic insert"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000914"^^xsd:string ; a owl:Class ; rdfs:label "cloned_genomic_insert"^^xsd:string ; rdfs:subClassOf obo:SO_0000753, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000991 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000753 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000991 ] ) ] . obo:SO_0000915 obo:IAO_0000115 "A clone insert that is engineered."^^xsd:string ; oboInOwl:hasExactSynonym "engineered insert"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000915"^^xsd:string ; a owl:Class ; rdfs:label "engineered_insert"^^xsd:string ; rdfs:subClassOf obo:SO_0000753, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000753 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0000916 oboInOwl:hasExactSynonym "edit operation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000916"^^xsd:string ; a owl:Class ; rdfs:label "edit_operation"^^xsd:string ; owl:deprecated true . obo:SO_0000917 obo:IAO_0000115 "An edit to insert a U."^^xsd:string ; oboInOwl:hasExactSynonym "insert U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000917"^^xsd:string ; a owl:Class ; rdfs:comment "The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa."^^xsd:string ; rdfs:label "insert_U"^^xsd:string ; owl:deprecated true . obo:SO_0000918 obo:IAO_0000115 "An edit to delete a uridine."^^xsd:string ; oboInOwl:hasExactSynonym "delete U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000918"^^xsd:string ; a owl:Class ; rdfs:comment "The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa."^^xsd:string ; rdfs:label "delete_U"^^xsd:string ; owl:deprecated true . obo:SO_0000919 obo:IAO_0000115 "An edit to substitute an I for an A."^^xsd:string ; oboInOwl:hasExactSynonym "substitute A to I"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000919"^^xsd:string ; a owl:Class ; rdfs:label "substitute_A_to_I"^^xsd:string ; owl:deprecated true . obo:SO_0000920 obo:IAO_0000115 "An edit to insert a cytidine."^^xsd:string ; oboInOwl:hasExactSynonym "insert C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000920"^^xsd:string ; a owl:Class ; rdfs:label "insert_C"^^xsd:string ; owl:deprecated true . obo:SO_0000921 obo:IAO_0000115 "An edit to insert a dinucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "insert dinucleotide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000921"^^xsd:string ; a owl:Class ; rdfs:label "insert_dinucleotide"^^xsd:string ; owl:deprecated true . obo:SO_0000922 obo:IAO_0000115 "An edit to substitute an U for a C."^^xsd:string ; oboInOwl:hasExactSynonym "substitute C to U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000922"^^xsd:string ; a owl:Class ; rdfs:label "substitute_C_to_U"^^xsd:string ; owl:deprecated true . obo:SO_0000923 obo:IAO_0000115 "An edit to insert a G."^^xsd:string ; oboInOwl:hasExactSynonym "insert G"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000923"^^xsd:string ; a owl:Class ; rdfs:label "insert_G"^^xsd:string ; owl:deprecated true . obo:SO_0000924 obo:IAO_0000115 "An edit to insert a GC dinucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "insert GC"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000924"^^xsd:string ; a owl:Class ; rdfs:comment "The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs."^^xsd:string ; rdfs:label "insert_GC"^^xsd:string ; owl:deprecated true . obo:SO_0000925 obo:IAO_0000115 "An edit to insert a GU dinucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "insert GU"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000925"^^xsd:string ; a owl:Class ; rdfs:comment "The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs."^^xsd:string ; rdfs:label "insert_GU"^^xsd:string ; owl:deprecated true . obo:SO_0000926 obo:IAO_0000115 "An edit to insert a CU dinucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "insert CU"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000926"^^xsd:string ; a owl:Class ; rdfs:comment "The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs."^^xsd:string ; rdfs:label "insert_CU"^^xsd:string ; owl:deprecated true . obo:SO_0000927 obo:IAO_0000115 "An edit to insert a AU dinucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "insert AU"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000927"^^xsd:string ; a owl:Class ; rdfs:comment "The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs."^^xsd:string ; rdfs:label "insert_AU"^^xsd:string ; owl:deprecated true . obo:SO_0000928 obo:IAO_0000115 "An edit to insert a AA dinucleotide."^^xsd:string ; oboInOwl:hasExactSynonym "insert AA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000928"^^xsd:string ; a owl:Class ; rdfs:comment "The type of RNA editing found in the mitochondria of Myxomycota, characterized by the insertion of mono- and dinucleotides in RNAs relative to their mtDNA template and in addition, C to U base conversion. The most common mononucleotide insertion is cytidine, although a number of uridine mononucleotides are inserted at specific sites. Adenine and guanine have not been observed in mononucleotide insertions. Five different dinucleotide insertions have been observed, GC, GU, CU, AU and AA. Both mono- and dinucleotide insertions create open reading frames in mRNA and contribute to highly conserved structural features of rRNAs and tRNAs."^^xsd:string ; rdfs:label "insert_AA"^^xsd:string ; owl:deprecated true . obo:SO_0000929 obo:IAO_0000115 "An mRNA that is edited."^^xsd:string ; oboInOwl:hasExactSynonym "edited mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000929"^^xsd:string ; a owl:Class ; rdfs:label "edited_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, obo:SO_0000873, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000116 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000116 ] ) ] . obo:SO_0000930 obo:IAO_0000115 "A region of guide RNA."^^xsd:string ; oboInOwl:hasExactSynonym "guide RNA region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000930"^^xsd:string ; a owl:Class ; rdfs:label "guide_RNA_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000834, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000602 ] . obo:SO_0000931 obo:IAO_0000115 "A region of a guide_RNA that base-pairs to a target mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "anchor region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000931"^^xsd:string ; a owl:Class ; rdfs:label "anchor_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000930 . obo:SO_0000932 obo:IAO_0000115 "A primary transcript that, at least in part, encodes one or more proteins that has not been edited."^^xsd:string ; oboInOwl:hasExactSynonym "pre-edited mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000932"^^xsd:string ; a owl:Class ; rdfs:label "pre_edited_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000120 . obo:SO_0000933 obo:IAO_0000115 "An attribute to describe a feature between stages of processing."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000933"^^xsd:string ; a owl:Class ; rdfs:label "intermediate"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000934 obo:IAO_0000115 "A miRNA target site is a binding site where the molecule is a micro RNA."^^xsd:string ; oboInOwl:hasExactSynonym "miRNA target site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000934"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_target_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001655 . obo:SO_0000935 obo:IAO_0000115 "A CDS that is edited."^^xsd:string ; oboInOwl:hasExactSynonym "edited CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000935"^^xsd:string ; a owl:Class ; rdfs:label "edited_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000316, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000116 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000316 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000116 ] ) ] . obo:SO_0000936 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immunoglobulin T cell receptor rearranged segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000936"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immunoglobulin_T_cell_receptor_rearranged_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0000937 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000937"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immune_system_feature"^^xsd:string ; owl:deprecated true . obo:SO_0000938 obo:IAO_0000115 "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immunoglobulin T cell receptor rearranged gene cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000938"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immunoglobulin_T_cell_receptor_rearranged_gene_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0000939 obo:IAO_0000115 "Feature used for the recombination of genomic material for the purpose of generating diversity of the immune system."^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immune system gene recombination signal feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000939"^^xsd:string ; a owl:Class ; rdfs:label "vertebrate_immune_system_gene_recombination_signal_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0000940 obo:IAO_0000115 "A gene that is recombinationally rearranged."^^xsd:string ; oboInOwl:hasExactSynonym "recombinationally rearranged"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000940"^^xsd:string ; a owl:Class ; rdfs:label "recombinationally_rearranged"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000941 obo:IAO_0000115 "A recombinationally rearranged gene of the vertebrate immune system."^^xsd:string ; oboInOwl:hasExactSynonym "recombinationally rearranged vertebrate immune system gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000941"^^xsd:string ; a owl:Class ; rdfs:label "recombinationally_rearranged_vertebrate_immune_system_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000456 . obo:SO_0000942 obo:IAO_0000115 "An integration/excision site of a phage chromosome at which a recombinase acts to insert the phage DNA at a cognate integration/excision site on a bacterial chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "attP site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000942"^^xsd:string ; a owl:Class ; rdfs:label "attP_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001042 ] . obo:SO_0000943 obo:IAO_0000115 "An integration/excision site of a bacterial chromosome at which a recombinase acts to insert foreign DNA containing a cognate integration/excision site."^^xsd:string ; oboInOwl:hasExactSynonym "attB site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000943"^^xsd:string ; a owl:Class ; rdfs:label "attB_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946 . obo:SO_0000944 obo:IAO_0000115 "A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attB_site and the 3' portion of attP_site."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "attBP'"^^xsd:string, "attL site"^^xsd:string ; oboInOwl:id "SO:0000944"^^xsd:string ; a owl:Class ; rdfs:label "attL_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946 . obo:SO_0000945 obo:IAO_0000115 "A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attP_site and the 3' portion of attB_site."^^xsd:string ; oboInOwl:hasExactSynonym "attR site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "attPB'"^^xsd:string ; oboInOwl:id "SO:0000945"^^xsd:string ; a owl:Class ; rdfs:label "attR_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946 . obo:SO_0000946 obo:IAO_0000115 "A region specifically recognised by a recombinase, which inserts or removes another region marked by a distinct cognate integration/excision site."^^xsd:string ; oboInOwl:hasExactSynonym "integration excision site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "attachment site"^^xsd:string ; oboInOwl:id "SO:0000946"^^xsd:string ; a owl:Class ; rdfs:label "integration_excision_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000342 . obo:SO_0000947 obo:IAO_0000115 "A region specifically recognized by a recombinase, which separates a physically contiguous circle of DNA into two physically separate circles."^^xsd:string ; oboInOwl:hasExactSynonym "res site"^^xsd:string, "resolution site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000947"^^xsd:string ; a owl:Class ; rdfs:label "resolution_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000342 . obo:SO_0000948 obo:IAO_0000115 "A region specifically recognised by a recombinase, which inverts the region flanked by a pair of sites."^^xsd:string ; oboInOwl:hasExactSynonym "inversion site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000948"^^xsd:string ; a owl:Class ; rdfs:comment "A target region for site-specific inversion of a DNA region and which carries binding sites for a site-specific recombinase and accessory proteins as well as the site for specific cleavage by the recombinase."^^xsd:string ; rdfs:label "inversion_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000342 . obo:SO_0000949 obo:IAO_0000115 "A site at which replicated bacterial circular chromosomes are decatenated by site specific resolvase."^^xsd:string ; oboInOwl:hasExactSynonym "dif site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000949"^^xsd:string ; a owl:Class ; rdfs:label "dif_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000947 . obo:SO_0000950 obo:IAO_0000115 "An attC site is a sequence required for the integration of a DNA of an integron."^^xsd:string ; oboInOwl:hasExactSynonym "attC site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000950"^^xsd:string ; a owl:Class ; rdfs:label "attC_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000365 ] . obo:SO_0000951 obo:IAO_0000115 "A signal for RNA polymerase to terminate transcription."^^xsd:string ; oboInOwl:hasExactSynonym "eukaryotic terminator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000951"^^xsd:string ; a owl:Class ; rdfs:label "eukaryotic_terminator"^^xsd:string ; rdfs:subClassOf obo:SO_0000141 . obo:SO_0000952 obo:IAO_0000115 "An origin of vegetative replication in plasmids and phages."^^xsd:string ; oboInOwl:hasExactSynonym "origin of vegetative replication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000952"^^xsd:string ; a owl:Class ; rdfs:label "oriV"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0000953 obo:IAO_0000115 "An origin of bacterial chromosome replication."^^xsd:string ; oboInOwl:hasExactSynonym "origin of bacterial chromosome replication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000953"^^xsd:string ; a owl:Class ; rdfs:label "oriC"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0000954 obo:IAO_0000115 "Structural unit composed of a self-replicating, DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000954"^^xsd:string ; a owl:Class ; rdfs:label "DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000352 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000352 ] ) ] . obo:SO_0000955 obo:IAO_0000115 "Structural unit composed of a self-replicating, double-stranded DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "double stranded DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000955"^^xsd:string ; a owl:Class ; rdfs:label "double_stranded_DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000954, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000985 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000954 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000985 ] ) ] . obo:SO_0000956 obo:IAO_0000115 "Structural unit composed of a self-replicating, single-stranded DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "single stranded DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000956"^^xsd:string ; a owl:Class ; rdfs:label "single_stranded_DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000954, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000984 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000954 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000984 ] ) ] . obo:SO_0000957 obo:IAO_0000115 "Structural unit composed of a self-replicating, double-stranded, linear DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "linear double stranded DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000957"^^xsd:string ; a owl:Class ; rdfs:label "linear_double_stranded_DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000955, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000955 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ) ] . obo:SO_0000958 obo:IAO_0000115 "Structural unit composed of a self-replicating, double-stranded, circular DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "circular double stranded DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000958"^^xsd:string ; a owl:Class ; rdfs:label "circular_double_stranded_DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000955, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000955 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ) ] . obo:SO_0000959 obo:IAO_0000115 "Structural unit composed of a self-replicating, single-stranded, linear DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "linear single stranded DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000959"^^xsd:string ; a owl:Class ; rdfs:label "linear_single_stranded_DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000956, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000956 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ) ] . obo:SO_0000960 obo:IAO_0000115 "Structural unit composed of a self-replicating, single-stranded, circular DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "circular single stranded DNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000960"^^xsd:string ; a owl:Class ; rdfs:label "circular_single_stranded_DNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000956, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000956 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ) ] . obo:SO_0000961 obo:IAO_0000115 "Structural unit composed of a self-replicating, RNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000961"^^xsd:string ; a owl:Class ; rdfs:label "RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000356 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000356 ] ) ] . obo:SO_0000962 obo:IAO_0000115 "Structural unit composed of a self-replicating, single-stranded RNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "single stranded RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000962"^^xsd:string ; a owl:Class ; rdfs:label "single_stranded_RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000961, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000984 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000961 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000984 ] ) ] . obo:SO_0000963 obo:IAO_0000115 "Structural unit composed of a self-replicating, single-stranded, linear RNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "linear single stranded RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000963"^^xsd:string ; a owl:Class ; rdfs:label "linear_single_stranded_RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000962, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000962 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ) ] . obo:SO_0000964 obo:IAO_0000115 "Structural unit composed of a self-replicating, double-stranded, linear RNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "linear double stranded RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000964"^^xsd:string ; a owl:Class ; rdfs:label "linear_double_stranded_RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000965, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000965 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000987 ] ) ] . obo:SO_0000965 obo:IAO_0000115 "Structural unit composed of a self-replicating, double-stranded RNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "double stranded RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000965"^^xsd:string ; a owl:Class ; rdfs:label "double_stranded_RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000961, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000985 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000961 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000985 ] ) ] . obo:SO_0000966 obo:IAO_0000115 "Structural unit composed of a self-replicating, single-stranded, circular DNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "circular single stranded RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000966"^^xsd:string ; a owl:Class ; rdfs:label "circular_single_stranded_RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000962, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000962 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ) ] . obo:SO_0000967 obo:IAO_0000115 "Structural unit composed of a self-replicating, double-stranded, circular RNA molecule."^^xsd:string ; oboInOwl:hasExactSynonym "circular double stranded RNA chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000967"^^xsd:string ; a owl:Class ; rdfs:label "circular_double_stranded_RNA_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000965, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000965 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ) ] . obo:SO_0000968 oboInOwl:hasExactSynonym "sequence replication mode"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000968"^^xsd:string ; a owl:Class ; rdfs:comment "This has been obsoleted as it represents a process. replaced_by: GO:0034961."^^xsd:string ; rdfs:label "sequence_replication_mode"^^xsd:string ; owl:deprecated true . obo:SO_0000969 oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Rolling_circle"^^xsd:string ; oboInOwl:hasExactSynonym "rolling circle"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000969"^^xsd:string ; a owl:Class ; rdfs:comment "This has been obsoleted as it represents a process. replaced_by: GO:0070581."^^xsd:string ; rdfs:label "rolling_circle"^^xsd:string ; owl:deprecated true . obo:SO_0000970 oboInOwl:hasExactSynonym "theta replication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000970"^^xsd:string ; a owl:Class ; rdfs:comment "This has been obsoleted as it represents a process. replaced_by: GO:0070582"^^xsd:string ; rdfs:label "theta_replication"^^xsd:string ; owl:deprecated true . obo:SO_0000971 oboInOwl:hasExactSynonym "DNA replication mode"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000971"^^xsd:string ; a owl:Class ; rdfs:comment "This has been obsoleted as it represents a process. replaced_by: GO:0006260."^^xsd:string ; rdfs:label "DNA_replication_mode"^^xsd:string ; owl:deprecated true . obo:SO_0000972 oboInOwl:hasExactSynonym "RNA replication mode"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000972"^^xsd:string ; a owl:Class ; rdfs:comment "This has been obsoleted as it represents a process. replaced_by: GO:0034961."^^xsd:string ; rdfs:label "RNA_replication_mode"^^xsd:string ; owl:deprecated true . obo:SO_0000973 obo:IAO_0000115 "A terminal_inverted_repeat_element that is bacterial and only encodes the functions required for its transposition between these inverted repeats."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Insertion_sequence"^^xsd:string ; oboInOwl:hasExactSynonym "insertion sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "IS"^^xsd:string ; oboInOwl:id "SO:0000973"^^xsd:string ; a owl:Class ; rdfs:label "insertion_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0000974 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000980 ; a owl:Class ; owl:deprecated true . obo:SO_0000975 obo:IAO_0000115 "A gene found within a minicircle."^^xsd:string ; oboInOwl:hasExactSynonym "minicircle gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000975"^^xsd:string ; a owl:Class ; rdfs:label "minicircle_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000089, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000980 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000089 [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000980 ] ) ] . obo:SO_0000976 obo:IAO_0000115 "A feature_attribute describing a feature that is not manifest under normal conditions."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000976"^^xsd:string ; a owl:Class ; rdfs:label "cryptic"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000977 oboInOwl:hasExactSynonym "anchor binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000977"^^xsd:string ; a owl:Class ; rdfs:comment "Part of an edited transcript only."^^xsd:string ; rdfs:label "anchor_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000833 . obo:SO_0000978 obo:IAO_0000115 "A region of a guide_RNA that specifies the insertions and deletions of bases in the editing of a target mRNA."^^xsd:string ; oboInOwl:hasExactSynonym "information region"^^xsd:string, "template region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000978"^^xsd:string ; a owl:Class ; rdfs:label "template_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000930 . obo:SO_0000979 obo:IAO_0000115 "A non-protein_coding gene that encodes a guide_RNA."^^xsd:string ; oboInOwl:hasExactSynonym "gRNA encoding"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000979"^^xsd:string ; a owl:Class ; rdfs:label "gRNA_encoding"^^xsd:string ; rdfs:subClassOf obo:SO_0000011 . obo:SO_0000980 obo:IAO_0000115 "A minicircle is a replicon, part of a kinetoplast, that encodes for guide RNAs."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0000974"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Minicircle"^^xsd:string ; oboInOwl:hasExactSynonym "minicircle_chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000980"^^xsd:string ; a owl:Class ; rdfs:label "minicircle"^^xsd:string ; rdfs:subClassOf obo:SO_0001235 . obo:SO_0000981 obo:IAO_0000115 "A transcription terminator that is dependent upon Rho."^^xsd:string ; oboInOwl:hasExactSynonym "rho dependent bacterial terminator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000981"^^xsd:string ; a owl:Class ; rdfs:label "rho_dependent_bacterial_terminator"^^xsd:string ; rdfs:subClassOf obo:SO_0000614 . obo:SO_0000982 obo:IAO_0000115 "A transcription terminator that is not dependent upon Rho. Rather, the mRNA contains a sequence that allows it to base-pair with itself and make a stem-loop structure."^^xsd:string ; oboInOwl:hasExactSynonym "rho independent bacterial terminator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000982"^^xsd:string ; a owl:Class ; rdfs:label "rho_independent_bacterial_terminator"^^xsd:string ; rdfs:subClassOf obo:SO_0000614 . obo:SO_0000983 obo:IAO_0000115 "The attribute of how many strands are present in a nucleotide polymer."^^xsd:string ; oboInOwl:hasExactSynonym "strand attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000983"^^xsd:string ; a owl:Class ; rdfs:comment "Attributes added to describe the different kinds of replicon. SO workshop, September 2006."^^xsd:string ; rdfs:label "strand_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0000984 obo:IAO_0000115 "When a nucleotide polymer has only one strand."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000984"^^xsd:string ; a owl:Class ; rdfs:comment "Attributes added to describe the different kinds of replicon. SO workshop, September 2006."^^xsd:string ; rdfs:label "single"^^xsd:string ; rdfs:subClassOf obo:SO_0000983 . obo:SO_0000985 obo:IAO_0000115 "When a nucleotide polymer has two strands that are reverse-complement to one another and pair together."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000985"^^xsd:string ; a owl:Class ; rdfs:comment "Attributes added to describe the different kinds of replicon. SO workshop, September 2006."^^xsd:string ; rdfs:label "double"^^xsd:string ; rdfs:subClassOf obo:SO_0000983 . obo:SO_0000986 obo:IAO_0000115 "The attribute of whether a nucleotide polymer is linear or circular."^^xsd:string ; oboInOwl:hasExactSynonym "topology attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000986"^^xsd:string ; a owl:Class ; rdfs:comment "Attributes added to describe the different kinds of replicon. SO workshop, September 2006."^^xsd:string ; rdfs:label "topology_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000443 . obo:SO_0000987 obo:IAO_0000115 "A quality of a nucleotide polymer that has a 3'-terminal residue and a 5'-terminal residue."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "two-ended"^^xsd:string ; oboInOwl:id "SO:0000987"^^xsd:string ; a owl:Class ; rdfs:comment "Attributes added to describe the different kinds of replicon. SO workshop, September 2006."^^xsd:string ; rdfs:label "linear"^^xsd:string ; rdfs:subClassOf obo:SO_0000986 ; owl:disjointWith obo:SO_0000988 . obo:SO_0000988 obo:IAO_0000115 "A quality of a nucleotide polymer that has no terminal nucleotide residues."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "zero-ended"^^xsd:string ; oboInOwl:id "SO:0000988"^^xsd:string ; a owl:Class ; rdfs:comment "Attributes added to describe the different kinds of replicon. SO workshop, September 2006."^^xsd:string ; rdfs:label "circular"^^xsd:string ; rdfs:subClassOf obo:SO_0000986 . obo:SO_0000989 obo:IAO_0000115 "Small non-coding RNA (59-60 nt long) containing 5' and 3' ends that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm."^^xsd:string ; oboInOwl:hasExactSynonym "class II RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000989"^^xsd:string ; a owl:Class ; rdfs:label "class_II_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000990 obo:IAO_0000115 "Small non-coding RNA (55-65 nt long) containing highly conserved 5' and 3' ends (16 and 8 nt, respectively) that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm."^^xsd:string ; oboInOwl:hasExactSynonym "class I RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000990"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Karen Pilcher - Dictybase. song-Term Tracker-1574577."^^xsd:string ; rdfs:label "class_I_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0000991 obo:IAO_0000115 "DNA located in the genome and able to be transmitted to the offspring."^^xsd:string ; oboInOwl:hasExactSynonym "gDNA"^^xsd:string, "genomic DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000991"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "genomic_DNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000352 . obo:SO_0000992 obo:IAO_0000115 "A region of DNA that has been inserted into the bacterial genome using a bacterial artificial chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "BAC cloned genomic insert"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000992"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Andy Schroder - Flybase Harvard, Nov 2006."^^xsd:string ; rdfs:label "BAC_cloned_genomic_insert"^^xsd:string ; rdfs:subClassOf obo:SO_0000914, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000153 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000914 [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000153 ] ) ] . obo:SO_0000993 obo:IAO_0000115 "A sequence produced from an aligment algorithm that uses multiple sequences as input."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000993"^^xsd:string ; a owl:Class ; rdfs:comment "Term added Dec 06 to comply with mapping to MGED terms. It should be used to generate consensus regions. The specific cross product terms they require are consensus_region and consensus_mRNA."^^xsd:string ; rdfs:label "consensus"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0000994 obo:IAO_0000115 "A region that has a known consensus sequence."^^xsd:string ; oboInOwl:hasExactSynonym "consensus region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000994"^^xsd:string ; a owl:Class ; rdfs:comment "DO not obsolete without considering MGED mapping."^^xsd:string ; rdfs:label "consensus_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001410, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000993 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000001 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000993 ] ) ] . obo:SO_0000995 obo:IAO_0000115 "An mRNA sequence produced from an aligment algorithm that uses multiple sequences as input."^^xsd:string ; oboInOwl:hasExactSynonym "consensus mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000995"^^xsd:string ; a owl:Class ; rdfs:comment "DO not obsolete without considering MGED mapping."^^xsd:string ; rdfs:label "consensus_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, obo:SO_0000994, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000993 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000993 ] ) ] . obo:SO_0000996 obo:IAO_0000115 "A region of the genome that has been predicted to be a gene but has not been confirmed by laboratory experiments."^^xsd:string ; oboInOwl:hasExactSynonym "predicted gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000996"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "predicted_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000732 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000732 ] ) ] . obo:SO_0000997 obo:IAO_0000115 "A portion of a gene that is not the complete gene."^^xsd:string ; oboInOwl:hasExactSynonym "gene fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000997"^^xsd:string ; a owl:Class ; rdfs:comment "This term is mapped to MGED. Do not obsolete without consulting MGED ontology."^^xsd:string ; rdfs:label "gene_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000842, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000731 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000842 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000731 ] ) ] . obo:SO_0000998 obo:IAO_0000115 "A recursive splice site is a splice site which subdivides a large intron. Recursive splicing is a mechanism that splices large introns by sub dividing the intron at non exonic elements and alternate exons."^^xsd:string ; oboInOwl:hasExactSynonym "recursive splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000998"^^xsd:string ; a owl:Class ; rdfs:label "recursive_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001419 . obo:SO_0000999 obo:IAO_0000115 "A region of sequence from the end of a BAC clone that may provide a highly specific marker."^^xsd:string ; oboInOwl:hasExactSynonym "BAC end"^^xsd:string, "BAC end sequence"^^xsd:string, "BES"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0000999"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Keith Boroevich December, 2006."^^xsd:string ; rdfs:label "BAC_end"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000153 ] . obo:SO_0001000 obo:IAO_0000115 "Cytosolic 16S rRNA is an RNA component of the small subunit of cytosolic ribosomes in prokaryotes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/16S_ribosomal_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 16S SSU RNA"^^xsd:string, "cytosolic 16S ribosomal RNA"^^xsd:string, "cytosolic rRNA 16S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "cytosolic 16S rRNA"^^xsd:string ; oboInOwl:id "SO:0001000"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed to cytosolic_16S_rRNA from rRNA_16S on 10 June 2021 as per restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Request from EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_16S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000650 . obo:SO_0001001 obo:IAO_0000115 "Cytosolic 23S rRNA is an RNA component of the large subunit of cytosolic ribosomes in prokaryotes."^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 23S LSU rRNA"^^xsd:string, "cytosolic 23S rRNA"^^xsd:string, "cytosolic rRNA 23S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "cytosolic 23S ribosomal RNA"^^xsd:string ; oboInOwl:id "SO:0001001"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed from rRNA_23S to cytosolic_23S_rRNA on 27 May 2021 with the restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_23S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000651 . obo:SO_0001002 obo:IAO_0000115 "Cytosolic 25S rRNA is an RNA component of the large subunit of cytosolic ribosomes most eukaryotes."^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 25S LSU rRNA"^^xsd:string, "cytosolic 25S rRNA"^^xsd:string, "cytosolic 25S ribosomal RNA"^^xsd:string, "cytosolic rRNA 25S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001002"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Renamed from rRNA_5S to cytosolic_5S_rRNA on 27 May 2021 with the restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_25S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000651 . obo:SO_0001003 obo:IAO_0000115 "A recombination product between the 2 LTR of the same element."^^xsd:string ; oboInOwl:hasExactSynonym "solo LTR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001003"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Hadi Quesneville January 2007."^^xsd:string ; rdfs:label "solo_LTR"^^xsd:string ; rdfs:subClassOf obo:SO_0000286 . obo:SO_0001004 obo:IAO_0000115 "When a sequence does not contain an equal distribution of all four possible nucleotide bases or does not contain all nucleotide bases."^^xsd:string ; oboInOwl:hasExactSynonym "low complexity"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001004"^^xsd:string ; a owl:Class ; rdfs:label "low_complexity"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0001005 obo:IAO_0000115 "A region where the DNA does not contain an equal distrubution of all four possible nucleotides or does not contain all four nucleotides."^^xsd:string ; oboInOwl:hasExactSynonym "low complexity region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001005"^^xsd:string ; a owl:Class ; rdfs:label "low_complexity_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001410, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001004 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000001 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001004 ] ) ] . obo:SO_0001006 obo:IAO_0000115 "A phage genome after it has established in the host genome in a latent/immune state either as a plasmid or as an integrated \"island\"."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Prophage"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001006"^^xsd:string ; a owl:Class ; rdfs:label "prophage"^^xsd:string ; rdfs:subClassOf obo:SO_0000113 . obo:SO_0001007 obo:IAO_0000115 "A remnant of an integrated prophage in the host genome or an \"island\" in the host genome that includes phage like-genes."^^xsd:string ; oboInOwl:hasDbXref "http://ecoliwiki.net/colipedia/index.php/Category:Cryptic_Prophage.w"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic prophage"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001007"^^xsd:string ; a owl:Class ; rdfs:comment "This is not cryptic in the same sense as a cryptic gene or cryptic splice site."^^xsd:string ; rdfs:label "cryptic_prophage"^^xsd:string ; rdfs:subClassOf obo:SO_0000772 . obo:SO_0001008 obo:IAO_0000115 "A base-paired stem with loop of 4 non-hydrogen bonded nucleotides."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Tetraloop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001008"^^xsd:string ; a owl:Class ; rdfs:label "tetraloop"^^xsd:string ; rdfs:subClassOf obo:SO_0000313 . obo:SO_0001009 obo:IAO_0000115 "A double-stranded DNA used to control macromolecular structure and function."^^xsd:string ; oboInOwl:hasExactSynonym "DNA constraint"^^xsd:string, "DNA constraint sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001009"^^xsd:string ; a owl:Class ; rdfs:label "DNA_constraint_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000442 . obo:SO_0001010 obo:IAO_0000115 "A cytosine rich domain whereby strands associate both inter- and intramolecularly at moderately acidic pH."^^xsd:string ; oboInOwl:hasExactSynonym "i motif"^^xsd:string, "short intercalated motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001010"^^xsd:string ; a owl:Class ; rdfs:label "i_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000142 . obo:SO_0001011 obo:IAO_0000115 "Peptide nucleic acid, is a chemical not known to occur naturally but is artificially synthesized and used in some biological research and medical treatments. The PNA backbone is composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Peptide_nucleic_acid"^^xsd:string ; oboInOwl:hasExactSynonym "PNA oligo"^^xsd:string, "peptide nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001011"^^xsd:string ; a owl:Class ; rdfs:label "PNA_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001247, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001184 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001247 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001184 ] ) ] . obo:SO_0001012 obo:IAO_0000115 "A DNA sequence with catalytic activity."^^xsd:string ; oboInOwl:hasExactSynonym "DNA enzyme"^^xsd:string, "catalytic DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "deoxyribozyme"^^xsd:string ; oboInOwl:id "SO:0001012"^^xsd:string ; a owl:Class ; rdfs:comment "Added by request from Colin Batchelor."^^xsd:string ; rdfs:label "DNAzyme"^^xsd:string ; rdfs:subClassOf obo:SO_0000696, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001185 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000696 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001185 ] ) ] . obo:SO_0001013 obo:IAO_0000115 "A multiple nucleotide polymorphism with alleles of common length > 1, for example AAA/TTT."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "multiple nucleotide polymorphism"^^xsd:string ; oboInOwl:id "SO:0001013"^^xsd:string ; a owl:Class ; rdfs:label "MNP"^^xsd:string ; rdfs:subClassOf obo:SO_0002007 . obo:SO_0001014 obo:IAO_0000115 "An intronic region that has an attribute."^^xsd:string ; oboInOwl:hasExactSynonym "intron domain"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001014"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Colin Batchelor, Feb 2007."^^xsd:string ; rdfs:label "intron_domain"^^xsd:string ; rdfs:subClassOf obo:SO_0000835, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000188 ] . obo:SO_0001015 obo:IAO_0000115 "A type of non-canonical base pairing, most commonly between G and U, which is important for the secondary structure of RNAs. It has similar thermodynamic stability to the Watson-Crick pairing. Wobble base pairs only have two hydrogen bonds. Other wobble base pair possibilities are I-A, I-U and I-C."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Wobble_base_pair"^^xsd:string ; oboInOwl:hasExactSynonym "wobble base pair"^^xsd:string, "wobble pair"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001015"^^xsd:string ; a owl:Class ; rdfs:label "wobble_base_pair"^^xsd:string ; rdfs:subClassOf obo:SO_0000028 . obo:SO_0001016 obo:IAO_0000115 "A purine-rich sequence in the group I introns which determines the locations of the splice sites in group I intron splicing and has catalytic activity."^^xsd:string ; oboInOwl:hasExactSynonym "IGS"^^xsd:string, "internal guide sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001016"^^xsd:string ; a owl:Class ; rdfs:label "internal_guide_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001014, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000587 ] . obo:SO_0001017 obo:IAO_0000115 "A sequence variant that does not affect protein function. Silent mutations may occur in genic ( CDS, UTR, intron etc) and intergenic regions. Silent mutations may have affects on processes such as splicing and regulation."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Silent_mutation"^^xsd:string, "loinc:LA6700-4"^^xsd:string ; oboInOwl:hasExactSynonym "silent mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001017"^^xsd:string ; a owl:Class ; rdfs:comment "Added in March 2007 in after meeting with PharmGKB. Although this term is in common usage, it is better to annotate with the most specific term possible, such as synonymous codon, intron variant etc."^^xsd:string ; rdfs:label "silent_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_0001878 . obo:SO_0001018 obo:IAO_0000115 "A binding site that, in the molecule, interacts selectively and non-covalently with antibodies, B cells or T cells."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Epitope"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001018"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Trish Whetzel."^^xsd:string ; rdfs:label "epitope"^^xsd:string ; rdfs:subClassOf obo:SO_0000409 . obo:SO_0001019 obo:IAO_0000115 "A variation that increases or decreases the copy number of a given region."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Copy_number_variation"^^xsd:string ; oboInOwl:hasExactSynonym "CNP"^^xsd:string, "CNV"^^xsd:string, "copy number polymorphism"^^xsd:string, "copy number variation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001019"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "copy_number_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0000248 . obo:SO_0001020 obo:IAO_0100001 "SO:0001563"^^xsd:string ; oboInOwl:hasExactSynonym "mutation affecting copy number"^^xsd:string, "sequence variant affecting copy number"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001020"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_copy_number"^^xsd:string ; owl:deprecated true . obo:SO_0001021 obo:IAO_0000115 "A chromosomal region that may sustain a double-strand break, resulting in a recombination event."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001242"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_recomb"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:chromosome_breakpoint"^^xsd:string, "aberration breakpoint"^^xsd:string, "aberration_junction"^^xsd:string, "chromosome breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001021"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0000699, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000340 ] . obo:SO_0001022 obo:IAO_0000115 "The point within a chromosome where an inversion begins or ends."^^xsd:string ; oboInOwl:hasExactSynonym "inversion breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001022"^^xsd:string ; a owl:Class ; rdfs:label "inversion_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0001023 obo:IAO_0000115 "An allele is one of a set of coexisting sequence variants of a gene."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Allele"^^xsd:string ; oboInOwl:hasExactSynonym "allelomorph"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001023"^^xsd:string ; a owl:Class ; rdfs:label "allele"^^xsd:string ; rdfs:subClassOf obo:SO_0001507, [ a owl:Restriction ; owl:onProperty so:variant_of ; owl:someValuesFrom obo:SO_0000704 ] . obo:SO_0001024 obo:IAO_0000115 "A haplotype is one of a set of coexisting sequence variants of a haplotype block."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Haplotype"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001024"^^xsd:string ; a owl:Class ; rdfs:label "haplotype"^^xsd:string ; rdfs:subClassOf obo:SO_0001507, [ a owl:Restriction ; owl:onProperty so:variant_of ; owl:someValuesFrom obo:SO_0000355 ] . obo:SO_0001025 obo:IAO_0000115 "A sequence variant that is segregating in one or more natural populations of a species."^^xsd:string ; oboInOwl:hasExactSynonym "polymorphic sequence variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001025"^^xsd:string ; a owl:Class ; rdfs:label "polymorphic_sequence_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001023 . obo:SO_0001026 obo:IAO_0000115 "A genome is the sum of genetic material within a cell or virion."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Genome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001026"^^xsd:string ; a owl:Class ; rdfs:label "genome"^^xsd:string ; rdfs:subClassOf obo:SO_0001260, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001235 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001260 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001235 ] ) ] . obo:SO_0001027 obo:IAO_0000115 "A genotype is a variant genome, complete or incomplete."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Genotype"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001027"^^xsd:string ; a owl:Class ; rdfs:label "genotype"^^xsd:string ; rdfs:subClassOf obo:SO_0001507, [ a owl:Restriction ; owl:onProperty so:variant_of ; owl:someValuesFrom obo:SO_0001026 ] . obo:SO_0001028 obo:IAO_0000115 "A diplotype is a pair of haplotypes from a given individual. It is a genotype where the phase is known."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001028"^^xsd:string ; a owl:Class ; rdfs:label "diplotype"^^xsd:string ; rdfs:subClassOf obo:SO_0001507 . obo:SO_0001029 obo:IAO_0000115 "The attribute of whether the sequence is the same direction as a feature (forward) or the opposite direction as a feature (reverse)."^^xsd:string ; oboInOwl:hasExactSynonym "direction attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001029"^^xsd:string ; a owl:Class ; rdfs:label "direction_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0001030 obo:IAO_0000115 "Forward is an attribute of the feature, where the feature is in the 5' to 3' direction."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001030"^^xsd:string ; a owl:Class ; rdfs:label "forward"^^xsd:string ; rdfs:subClassOf obo:SO_0001029 . obo:SO_0001031 obo:IAO_0000115 "Reverse is an attribute of the feature, where the feature is in the 3' to 5' direction. Again could be applied to primer."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001031"^^xsd:string ; a owl:Class ; rdfs:label "reverse"^^xsd:string ; rdfs:subClassOf obo:SO_0001029 . obo:SO_0001032 obo:IAO_0000115 "DNA belonging to the genome of a mitochondria."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Mitochondrial_DNA"^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial DNA"^^xsd:string, "mtDNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001032"^^xsd:string ; a owl:Class ; rdfs:comment "This terms is used by MO."^^xsd:string ; rdfs:label "mitochondrial_DNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000737, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000352 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000737 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000352 ] ) ] . obo:SO_0001033 obo:IAO_0000115 "DNA belonging to the genome of a chloroplast, a photosynthetic plastid."^^xsd:string ; oboInOwl:hasExactSynonym "chloroplast DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001033"^^xsd:string ; a owl:Class ; rdfs:comment "This term is used by MO."^^xsd:string ; rdfs:label "chloroplast_DNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000745, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000352 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000745 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000352 ] ) ] . obo:SO_0001034 obo:IAO_0000115 "A de-branched intron which mimics the structure of pre-miRNA and enters the miRNA processing pathway without Drosha mediated cleavage."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001034"^^xsd:string ; a owl:Class ; rdfs:comment "Ruby et al. Nature 448:83 describe a new class of miRNAs that are derived from de-branched introns."^^xsd:string ; rdfs:label "miRtron"^^xsd:string ; rdfs:subClassOf obo:SO_0001014, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0001035 obo:IAO_0000115 "A small non coding RNA, part of a silencing system that prevents the spreading of selfish genetic elements."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/PiRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:piRNA"^^xsd:string, "piwi-associated RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001035"^^xsd:string ; a owl:Class ; rdfs:label "piRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000370 . obo:SO_0001036 obo:IAO_0000115 "A tRNA sequence that has an arginine anticodon, and a 3' arginine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "arginyl tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001036"^^xsd:string ; a owl:Class ; rdfs:label "arginyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000212 ] . obo:SO_0001037 obo:IAO_0000115 "A nucleotide region with either intra-genome or intracellular mobility, of varying length, which often carry the information necessary for transfer and recombination with the host genome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Mobile_genetic_element"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:mobile_element"^^xsd:string, "MGE"^^xsd:string, "mobile genetic element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001037"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "mobile_genetic_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001234 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000001 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001234 ] ) ] . obo:SO_0001038 obo:IAO_0000115 "An MGE that is not integrated into the host chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "extrachromosomal mobile genetic element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001038"^^xsd:string ; a owl:Class ; rdfs:label "extrachromosomal_mobile_genetic_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001037 . obo:SO_0001039 obo:IAO_0000115 "An MGE that is integrated into the host chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "integrated mobile genetic element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001039"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "integrated_mobile_genetic_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001037 . obo:SO_0001040 obo:IAO_0000115 "A plasmid sequence that is integrated within the host chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "integrated plasmid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001040"^^xsd:string ; a owl:Class ; rdfs:label "integrated_plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0001039, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000155 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001039 [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000155 ] ) ] . obo:SO_0001041 obo:IAO_0000115 "The region of nucleotide sequence of a virus, a submicroscopic particle that replicates by infecting a host cell."^^xsd:string ; oboInOwl:hasExactSynonym "viral sequence"^^xsd:string, "virus sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001041"^^xsd:string ; a owl:Class ; rdfs:comment "The definitions of the children of this term were revised Decemeber 2007 after discussion on song-devel. The resulting definitions are slightly unweildy but hopefully more logically correct."^^xsd:string ; rdfs:label "viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001038, obo:SO_0001235 . obo:SO_0001042 obo:IAO_0000115 "The nucleotide sequence of a virus that infects bacteria."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Bacteriophage"^^xsd:string ; oboInOwl:hasExactSynonym "bacteriophage"^^xsd:string, "phage"^^xsd:string, "phage sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001042"^^xsd:string ; a owl:Class ; rdfs:label "phage_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001041 . obo:SO_0001043 obo:IAO_0000115 "An attachment site located on a conjugative transposon and used for site-specific integration of a conjugative transposon."^^xsd:string ; oboInOwl:hasExactSynonym "attCtn site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001043"^^xsd:string ; a owl:Class ; rdfs:label "attCtn_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000946, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000371 ] . obo:SO_0001044 obo:IAO_0000115 "A nuclear pseudogene of either coding or non-coding mitochondria derived sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Numt"^^xsd:string ; oboInOwl:hasExactSynonym "NUMT"^^xsd:string, "nuclear mitochondrial pseudogene"^^xsd:string, "nuclear mt pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001044"^^xsd:string ; a owl:Class ; rdfs:comment "Definition change requested by Val, 3172757."^^xsd:string ; rdfs:label "nuclear_mt_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0001045 obo:IAO_0000115 "A MGE region consisting of two fused plasmids resulting from a replicative transposition event."^^xsd:string ; oboInOwl:hasExactSynonym "cointegrated plasmid"^^xsd:string, "cointegrated replicon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001045"^^xsd:string ; a owl:Class ; rdfs:label "cointegrated_plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0001039 . obo:SO_0001046 obo:IAO_0000115 "Component of the inversion site located at the left of a region susceptible to site-specific inversion."^^xsd:string ; oboInOwl:hasExactSynonym "IRLinv site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001046"^^xsd:string ; a owl:Class ; rdfs:label "IRLinv_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001048, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000948 ] . obo:SO_0001047 obo:IAO_0000115 "Component of the inversion site located at the right of a region susceptible to site-specific inversion."^^xsd:string ; oboInOwl:hasExactSynonym "IRRinv site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001047"^^xsd:string ; a owl:Class ; rdfs:label "IRRinv_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001048, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000948 ] . obo:SO_0001048 obo:IAO_0000115 "A region located within an inversion site."^^xsd:string ; oboInOwl:hasExactSynonym "inversion site part"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001048"^^xsd:string ; a owl:Class ; rdfs:comment "A term created to allow the parts of an inversion site have an is_a path back to the root."^^xsd:string ; rdfs:label "inversion_site_part"^^xsd:string ; rdfs:subClassOf obo:SO_0000342 . obo:SO_0001049 obo:IAO_0000115 "An island that contains genes for integration/excision and the gene and site for the initiation of intercellular transfer by conjugation. It can be complemented for transfer by a conjugative transposon."^^xsd:string ; oboInOwl:hasExactSynonym "defective conjugative transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001049"^^xsd:string ; a owl:Class ; rdfs:label "defective_conjugative_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000772 . obo:SO_0001050 obo:IAO_0000115 "A portion of a repeat, interrupted by the insertion of another element."^^xsd:string ; oboInOwl:hasExactSynonym "repeat fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001050"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Chris Smith, and others at Flybase to help annotate nested repeats."^^xsd:string ; rdfs:label "repeat_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000840, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001649 ] . obo:SO_0001051 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001051"^^xsd:string ; a owl:Class ; rdfs:label "nested_region"^^xsd:string ; owl:deprecated true . obo:SO_0001052 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001052"^^xsd:string ; a owl:Class ; rdfs:label "nested_repeat"^^xsd:string ; owl:deprecated true . obo:SO_0001053 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001053"^^xsd:string ; a owl:Class ; rdfs:label "nested_transposon"^^xsd:string ; owl:deprecated true . obo:SO_0001054 obo:IAO_0000115 "A portion of a transposon, interrupted by the insertion of another element."^^xsd:string ; oboInOwl:hasExactSynonym "transposon fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001054"^^xsd:string ; a owl:Class ; rdfs:label "transposon_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000840, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001648 ] . obo:SO_0001055 obo:IAO_0000115 "A regulatory_region that modulates the transcription of a gene or genes."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:transcriptional_cis_regulatory_region"^^xsd:string, "transcription-control region"^^xsd:string, "transcriptional cis regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001055"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Previous parent term transcription_regulatory_region (SO:0001067) has been merged with this term on 11 Feb 2021 as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "transcriptional_cis_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0005836 . obo:SO_0001056 obo:IAO_0000115 "A regulatory_region that modulates splicing."^^xsd:string ; oboInOwl:hasExactSynonym "splicing regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001056"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "splicing_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0001057 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001057"^^xsd:string ; a owl:Class ; rdfs:label "enhanceosome"^^xsd:string ; owl:deprecated true . obo:SO_0001058 obo:IAO_0000115 "A transcriptional_cis_regulatory_region that restricts the activity of a CRM to a single promoter and which functions only when both itself and an insulator are located between the CRM and the promoter."^^xsd:string ; oboInOwl:hasExactSynonym "promoter targeting sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001058"^^xsd:string ; a owl:Class ; rdfs:comment "Obsoleted Jan 21, 2021 by Dave Sant. GREEKC consortium individuals pointed out that this did not fit with the other child terms of transcriptional_cis_regulatory_region (SO:0001055), which are currently promoter, CRM and promoter flanking region. No comments about when this term was created exist, no references are listed. GREEKC members assume that this was previously under enhansosome (SO:0001057), which was probably created along with this term but has since been obsoleted. This term can be resurrected as non-obsolete if we can find a reference publication and/or change the name to a term that is commonly used in the field."^^xsd:string ; rdfs:label "promoter_targeting_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 ; owl:deprecated true . obo:SO_0001059 obo:IAO_0000115 "A sequence_alteration is a sequence_feature whose extent is the deviation from another sequence."^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000004"^^xsd:string, "SO:1000007"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:variation"^^xsd:string, "INSDC_note:sequence_alteration"^^xsd:string, "sequence alteration"^^xsd:string ; oboInOwl:hasNarrowSynonym "partially characterised change in DNA sequence"^^xsd:string, "partially_characterised_change_in_DNA_sequence"^^xsd:string, "uncharacterised_change_in_nucleotide_sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sequence variation"^^xsd:string ; oboInOwl:id "SO:0001059"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Merged with partially characterized change in nucleotide sequence."^^xsd:string ; rdfs:label "sequence_alteration"^^xsd:string ; rdfs:subClassOf obo:SO_0002072 . obo:SO_0001060 obo:IAO_0000115 "A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration."^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:sequence_variant"^^xsd:string, "VAAST:sequence_variant"^^xsd:string, "sequence variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:unknown"^^xsd:string ; oboInOwl:id "SO:0001060"^^xsd:string ; a owl:Class ; rdfs:label "sequence_variant"^^xsd:string . obo:SO_0001061 obo:IAO_0000115 "The propeptide_cleavage_site is the arginine/lysine boundary on a propeptide where cleavage occurs."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00063"^^xsd:string ; oboInOwl:hasExactSynonym "propeptide cleavage site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001061"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "propeptide_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0100011, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001062 ] . obo:SO_0001062 obo:IAO_0000115 "Part of a peptide chain which is cleaved off during the formation of the mature protein."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00077"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Propeptide"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:propeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "propep"^^xsd:string ; oboInOwl:id "SO:0001062"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "propeptide"^^xsd:string ; rdfs:subClassOf obo:SO_0100011, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002250 ] . obo:SO_0001063 obo:IAO_0000115 "An immature_peptide_region is the extent of the peptide after it has been translated and before any processing occurs."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00129"^^xsd:string ; oboInOwl:hasExactSynonym "immature peptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001063"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "immature_peptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001064 obo:IAO_0000115 "Active peptides are proteins which are biologically active, released from a precursor molecule."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00076"^^xsd:string ; oboInOwl:hasBroadSynonym "peptide"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Peptide"^^xsd:string ; oboInOwl:hasExactSynonym "active peptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001064"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Hormones, neuropeptides, antimicrobial peptides, are active peptides. They are typically short (<40 amino acids) in length."^^xsd:string ; rdfs:label "active_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0000419 . obo:SO_0001065 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001149 ; a owl:Class ; owl:deprecated true . obo:SO_0001066 obo:IAO_0000115 "Polypeptide region that is rich in a particular amino acid or homopolymeric and greater than three residues in length."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00068"^^xsd:string ; oboInOwl:hasExactSynonym "compositionally_biased_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "compbias"^^xsd:string, "compositional bias"^^xsd:string, "compositionally biased"^^xsd:string, "compositionally biased region of peptide"^^xsd:string ; oboInOwl:id "SO:0001066"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "compositionally_biased_region_of_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001067 obo:IAO_0000115 "A sequence motif is a short (up to 20 amino acids) region of biological interest. Such motifs, although they are too short to constitute functional domains, share sequence similarities and are conserved in different proteins. They display a common function (protein-binding, subcellular location etc.)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00032"^^xsd:string ; oboInOwl:hasBroadSynonym "motif"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001067"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "polypeptide_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0100021 . obo:SO_0001068 obo:IAO_0000115 "A polypeptide_repeat is a single copy of an internal sequence repetition."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00070"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "repeat"^^xsd:string ; oboInOwl:id "SO:0001068"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "polypeptide_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0100021 . obo:SO_0001069 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000417 ; a owl:Class ; owl:deprecated true . obo:SO_0001070 obo:IAO_0000115 "Region of polypeptide with a given structural property."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00337"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide structural region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "structural_region"^^xsd:string ; oboInOwl:id "SO:0001070"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "polypeptide_structural_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001071 obo:IAO_0000115 "Arrangement of the polypeptide with respect to the lipid bilayer."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00128"^^xsd:string ; oboInOwl:hasExactSynonym "membrane structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001071"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "membrane_structure"^^xsd:string ; rdfs:subClassOf obo:SO_0001070 . obo:SO_0001072 obo:IAO_0000115 "Polypeptide region that is localized outside of a lipid bilayer."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00154"^^xsd:string ; oboInOwl:hasExactSynonym "extramembrane polypeptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "extramembrane"^^xsd:string, "extramembrane_region"^^xsd:string, "topo_dom"^^xsd:string ; oboInOwl:id "SO:0001072"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "extramembrane_polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001070, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001071 ] . obo:SO_0001073 obo:IAO_0000115 "Polypeptide region that is localized inside the cytoplasm."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00145"^^xsd:string ; oboInOwl:hasExactSynonym "cytoplasm_location"^^xsd:string, "cytoplasmic polypeptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "inside"^^xsd:string ; oboInOwl:id "SO:0001073"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "cytoplasmic_polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001072 . obo:SO_0001074 obo:IAO_0000115 "Polypeptide region that is localized outside of a lipid bilayer and outside of the cytoplasm."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00144"^^xsd:string ; oboInOwl:hasExactSynonym "non cytoplasmic polypeptide region"^^xsd:string, "non_cytoplasm_location"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "outside"^^xsd:string ; oboInOwl:id "SO:0001074"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "This could be inside an organelle within the cell."^^xsd:string ; rdfs:label "non_cytoplasmic_polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001072 . obo:SO_0001075 obo:IAO_0000115 "Polypeptide region present in the lipid bilayer."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00156"^^xsd:string ; oboInOwl:hasExactSynonym "intramembrane polypeptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "intramembrane"^^xsd:string ; oboInOwl:id "SO:0001075"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "intramembrane_polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001070, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001071 ] . obo:SO_0001076 obo:IAO_0000115 "Polypeptide region localized within the lipid bilayer where both ends traverse the same membrane."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00155"^^xsd:string ; oboInOwl:hasExactSynonym "membrane peptide loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "membrane_loop"^^xsd:string ; oboInOwl:id "SO:0001076"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "membrane_peptide_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001075 . obo:SO_0001077 obo:IAO_0000115 "Polypeptide region traversing the lipid bilayer."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00158"^^xsd:string ; oboInOwl:hasExactSynonym "transmembrane polypeptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "transmem"^^xsd:string, "transmembrane"^^xsd:string ; oboInOwl:id "SO:0001077"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "transmembrane_polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001075 . obo:SO_0001078 obo:IAO_0000115 "A region of peptide with secondary structure has hydrogen bonding along the peptide chain that causes a defined conformation of the chain."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00003"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Secondary_structure"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide secondary structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "2nary structure"^^xsd:string, "secondary structure"^^xsd:string, "secondary structure region"^^xsd:string, "secondary_structure"^^xsd:string ; oboInOwl:id "SO:0001078"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Biosapien term was secondary_structure."^^xsd:string ; rdfs:label "polypeptide_secondary_structure"^^xsd:string ; rdfs:subClassOf obo:SO_0001070 . obo:SO_0001079 obo:IAO_0000115 "Motif is a three-dimensional structural element within the chain, which appears also in a variety of other molecules. Unlike a domain, a motif does not need to form a stable globular unit."^^xsd:string ; oboInOwl:hasAlternativeId "BS:0000338"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Structural_motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "polypeptide structural motif"^^xsd:string, "structural_motif"^^xsd:string ; oboInOwl:id "SO:0001079"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_structural_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001070 . obo:SO_0001080 obo:IAO_0000115 "A coiled coil is a structural motif in proteins, in which alpha-helices are coiled together like the strands of a rope."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00041"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Coiled_coil"^^xsd:string ; oboInOwl:hasExactSynonym "coiled coil"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "coiled"^^xsd:string ; oboInOwl:id "SO:0001080"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "coiled_coil"^^xsd:string ; rdfs:subClassOf obo:SO_0001079 . obo:SO_0001081 obo:IAO_0000115 "A motif comprising two helices separated by a turn."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00147"^^xsd:string ; oboInOwl:hasExactSynonym "helix turn helix"^^xsd:string, "helix-turn-helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "HTH"^^xsd:string ; oboInOwl:id "SO:0001081"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "helix_turn_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001079, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001114 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001128 ] . obo:SO_0001082 obo:IAO_0000115 "Incompatibility in the sequence due to some experimental problem."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00125"^^xsd:string ; oboInOwl:hasExactSynonym "sequencing_information"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001082"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "polypeptide_sequencing_information"^^xsd:string ; rdfs:subClassOf obo:SO_0000700 . obo:SO_0001083 obo:IAO_0000115 "Indicates that two consecutive residues in a fragment sequence are not consecutive in the full-length protein and that there are a number of unsequenced residues between them."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00182"^^xsd:string ; oboInOwl:hasExactSynonym "non consecutive"^^xsd:string, "non_cons"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001083"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "non_adjacent_residues"^^xsd:string ; rdfs:subClassOf obo:SO_0001082 . obo:SO_0001084 obo:IAO_0000115 "The residue at an extremity of the sequence is not the terminal residue."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00072"^^xsd:string ; oboInOwl:hasExactSynonym "non terminal"^^xsd:string, "non_ter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001084"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "non_terminal_residue"^^xsd:string ; rdfs:subClassOf obo:SO_0001082 . obo:SO_0001085 obo:IAO_0000115 "Different sources report differing sequences."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00069"^^xsd:string ; oboInOwl:hasExactSynonym "conflict"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001085"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "sequence_conflict"^^xsd:string ; rdfs:subClassOf obo:SO_0001082 . obo:SO_0001086 obo:IAO_0000115 "Describes the positions in a sequence where the authors are unsure about the sequence assignment."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00181"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:unsure"^^xsd:string, "unsure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001086"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "sequence_uncertainty"^^xsd:string ; rdfs:subClassOf obo:SO_0001082 . obo:SO_0001087 obo:IAO_0000115 "Posttranslationally formed amino acid bonds."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00178"^^xsd:string ; oboInOwl:hasExactSynonym "cross link"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "crosslink"^^xsd:string ; oboInOwl:id "SO:0001087"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "cross_link"^^xsd:string ; owl:deprecated true . obo:SO_0001088 obo:IAO_0000115 "The covalent bond between sulfur atoms that binds two peptide chains or different parts of one peptide chain and is a structural determinant in many protein molecules."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00028"^^xsd:string ; oboInOwl:hasExactSynonym "disulphide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "disulfid"^^xsd:string, "disulfide"^^xsd:string, "disulfide bond"^^xsd:string, "disulphide bond"^^xsd:string ; oboInOwl:id "SO:0001088"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "2 discreet & joined."^^xsd:string ; rdfs:label "disulfide_bond"^^xsd:string ; owl:deprecated true . obo:SO_0001089 obo:IAO_0000115 "A region where a transformation occurs in a protein after it has been synthesized. This which may regulate, stabilize, crosslink or introduce new chemical functionalities in the protein."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00052"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Post_translational_modification"^^xsd:string ; oboInOwl:hasExactSynonym "mod_res"^^xsd:string, "modified residue"^^xsd:string, "post_translational_modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001089"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "post_translationally_modified_region"^^xsd:string ; rdfs:subClassOf obo:SO_0100001 . obo:SO_0001090 obo:IAO_0000115 "Binding involving a covalent bond."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00246"^^xsd:string ; oboInOwl:hasExactSynonym "covalent binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001090"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "covalent_binding_site"^^xsd:string ; owl:deprecated true . obo:SO_0001091 obo:IAO_0000115 "Binding site for any chemical group (co-enzyme, prosthetic group, etc.)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00029"^^xsd:string ; oboInOwl:hasExactSynonym "non covalent binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "binding"^^xsd:string, "binding site"^^xsd:string ; oboInOwl:id "SO:0001091"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "non_covalent_binding_site"^^xsd:string ; owl:deprecated true . obo:SO_0001092 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with metal ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00027"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "metal_binding"^^xsd:string ; oboInOwl:id "SO:0001092"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Residue is part of a binding site for a metal ion."^^xsd:string ; rdfs:label "polypeptide_metal_contact"^^xsd:string ; rdfs:subClassOf obo:SO_0001656, obo:SO_0100002 . obo:SO_0001093 obo:IAO_0000115 "A binding site that, in the protein molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00131"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Protein_protein_interaction"^^xsd:string ; oboInOwl:hasExactSynonym "protein protein contact"^^xsd:string, "protein protein contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "protein_protein_interaction"^^xsd:string ; oboInOwl:id "SO:0001093"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "protein_protein_contact"^^xsd:string ; rdfs:subClassOf obo:SO_0000410, obo:SO_0100002 . obo:SO_0001094 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with calcium ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00186"^^xsd:string ; oboInOwl:hasExactSynonym "Ca_contact_site"^^xsd:string, "ca_bind"^^xsd:string, "polypeptide calcium ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ca bind"^^xsd:string ; oboInOwl:id "SO:0001094"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Residue involved in contact with calcium."^^xsd:string ; rdfs:label "polypeptide_calcium_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001095 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with cobalt ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00136"^^xsd:string ; oboInOwl:hasExactSynonym "Co_contact_site"^^xsd:string, "polypeptide cobalt ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001095"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_cobalt_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001096 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with copper ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00146"^^xsd:string ; oboInOwl:hasExactSynonym "Cu_contact_site"^^xsd:string, "polypeptide copper ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001096"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_copper_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001097 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with iron ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00137"^^xsd:string ; oboInOwl:hasExactSynonym "Fe_contact_site"^^xsd:string, "polypeptide iron ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001097"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_iron_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001098 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with magnesium ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00187"^^xsd:string ; oboInOwl:hasExactSynonym "Mg_contact_site"^^xsd:string, "polypeptide magnesium ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001098"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_magnesium_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001099 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with manganese ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00140"^^xsd:string ; oboInOwl:hasExactSynonym "Mn_contact_site"^^xsd:string, "polypeptide manganese ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001099"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_manganese_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001100 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with molybdenum ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00141"^^xsd:string ; oboInOwl:hasExactSynonym "Mo_contact_site"^^xsd:string, "polypeptide molybdenum ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001100"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_molybdenum_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001101 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with nickel ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00142"^^xsd:string ; oboInOwl:hasExactSynonym "Ni_contact_site"^^xsd:string, "polypeptide nickel ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001101"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_nickel_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001102 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with tungsten ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00143"^^xsd:string ; oboInOwl:hasExactSynonym "W_contact_site"^^xsd:string, "polypeptide tungsten ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001102"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_tungsten_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001103 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with zinc ions."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00185"^^xsd:string ; oboInOwl:hasExactSynonym "Zn_contact_site"^^xsd:string, "polypeptide zinc ion contact site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001103"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_zinc_ion_contact_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001092 . obo:SO_0001104 obo:IAO_0000115 "Amino acid involved in the activity of an enzyme."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00026"^^xsd:string ; oboInOwl:hasExactSynonym "active site residue"^^xsd:string, "catalytic residue"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "act_site"^^xsd:string ; oboInOwl:id "SO:0001104"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "catalytic_residue"^^xsd:string ; rdfs:subClassOf obo:SO_0001237, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0100019 ] . obo:SO_0001105 obo:IAO_0000115 "Residues which interact with a ligand."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00157"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide ligand contact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "protein-ligand interaction"^^xsd:string ; oboInOwl:id "SO:0001105"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_ligand_contact"^^xsd:string ; rdfs:subClassOf obo:SO_0001657, obo:SO_0100002 . obo:SO_0001106 obo:IAO_0000115 "A motif of five consecutive residues and two H-bonds in which: Residue(i) is Aspartate or Asparagine (Asx), side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3), main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00202"^^xsd:string ; oboInOwl:hasExactSynonym "asx motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001106"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "asx_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001107 obo:IAO_0000115 "A motif of three residues within a beta-sheet in which the main chains of two consecutive residues are H-bonded to that of the third, and in which the dihedral angles are as follows: Residue(i): -140 degrees < phi(l) -20 degrees , -90 degrees < psi(l) < 40 degrees. Residue (i+1): -180 degrees < phi < -25 degrees or +120 degrees < phi < +180 degrees, +40 degrees < psi < +180 degrees or -180 degrees < psi < -120 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00208"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Beta_bulge"^^xsd:string ; oboInOwl:hasExactSynonym "beta bulge"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001107"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_bulge"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001108 obo:IAO_0000115 "A motif of three residues within a beta-sheet consisting of two H-bonds. Beta bulge loops often occur at the loop ends of beta-hairpins."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00209"^^xsd:string ; oboInOwl:hasExactSynonym "beta bulge loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001108"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_bulge_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001109 obo:IAO_0000115 "A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+4), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+3), these loops have an RL nest at residues i+2 and i+3."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00210"^^xsd:string ; oboInOwl:hasExactSynonym "beta bulge loop five"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001109"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_bulge_loop_five"^^xsd:string ; rdfs:subClassOf obo:SO_0001108 . obo:SO_0001110 obo:IAO_0000115 "A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+5), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+4), these loops have an RL nest at residues i+3 and i+4."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00211"^^xsd:string ; oboInOwl:hasExactSynonym "beta bulge loop six"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001110"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_bulge_loop_six"^^xsd:string ; rdfs:subClassOf obo:SO_0001108 . obo:SO_0001111 obo:IAO_0000115 "A beta strand describes a single length of polypeptide chain that forms part of a beta sheet. A single continuous stretch of amino acids adopting an extended conformation of hydrogen bonds between the N-O and the C=O of another part of the peptide. This forms a secondary protein structure in which two or more extended polypeptide regions are hydrogen-bonded to one another in a planar array."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00042"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Beta_sheet"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "strand"^^xsd:string ; oboInOwl:id "SO:0001111"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "beta_strand"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001112 obo:IAO_0000115 "A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (one running N-terminal to C-terminal and one running C-terminal to N-terminal). Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i) and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they form two mutual backbone hydrogen bonds to each other's flanking peptide groups; this is known as a close pair of hydrogen bonds. The peptide backbone dihedral angles (phi, psi) are about (-140 degrees, 135 degrees) in antiparallel sheets."^^xsd:string ; oboInOwl:hasAlternativeId "BS:0000341"^^xsd:string ; oboInOwl:hasExactSynonym "antiparallel beta strand"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001112"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "antiparallel_beta_strand"^^xsd:string ; rdfs:subClassOf obo:SO_0001111 . obo:SO_0001113 obo:IAO_0000115 "A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (both running N-terminal to C-terminal). This orientation is slightly less stable because it introduces nonplanarity in the inter-strand hydrogen bonding pattern. Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i)and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they do not hydrogen bond to each other; rather, one residue forms hydrogen bonds to the residues that flank the other (but not vice versa). For example, residue i may form hydrogen bonds to residues j - 1 and j + 1; this is known as a wide pair of hydrogen bonds. By contrast, residue j may hydrogen-bond to different residues altogether, or to none at all. The dihedral angles (phi, psi) are about (-120 degrees, 115 degrees) in parallel sheets."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00151"^^xsd:string ; oboInOwl:hasExactSynonym "parallel beta strand"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001113"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "parallel_beta_strand"^^xsd:string ; rdfs:subClassOf obo:SO_0001111 . obo:SO_0001114 obo:IAO_0000115 "A helix is a secondary_structure conformation where the peptide backbone forms a coil."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00152"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "helix"^^xsd:string ; oboInOwl:id "SO:0001114"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "peptide_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001115 obo:IAO_0000115 "A left handed helix is a region of peptide where the coiled conformation turns in an anticlockwise, left handed screw."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00222"^^xsd:string ; oboInOwl:hasExactSynonym "left handed helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "helix-l"^^xsd:string ; oboInOwl:id "SO:0001115"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "left_handed_peptide_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001114 . obo:SO_0001116 obo:IAO_0000115 "A right handed helix is a region of peptide where the coiled conformation turns in a clockwise, right handed screw."^^xsd:string ; oboInOwl:hasAlternativeId "BS:0000339"^^xsd:string ; oboInOwl:hasExactSynonym "right handed helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "helix"^^xsd:string ; oboInOwl:id "SO:0001116"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "right_handed_peptide_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001114 . obo:SO_0001117 obo:IAO_0000115 "The helix has 3.6 residues per turn which corresponds to a translation of 1.5 angstroms (= 0.15 nm) along the helical axis. Every backbone N-H group donates a hydrogen bond to the backbone C=O group of the amino acid four residues earlier."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00040"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Alpha_helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "a-helix"^^xsd:string, "helix"^^xsd:string ; oboInOwl:id "SO:0001117"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "alpha_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001116 . obo:SO_0001118 obo:IAO_0000115 "The pi helix has 4.1 residues per turn and a translation of 1.15 (=0.115 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid five residues earlier."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00153"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Pi_helix"^^xsd:string ; oboInOwl:hasExactSynonym "pi helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001118"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "pi_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001116 . obo:SO_0001119 obo:IAO_0000115 "The 3-10 helix has 3 residues per turn with a translation of 2.0 angstroms (=0.2 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid three residues earlier."^^xsd:string ; oboInOwl:hasAlternativeId "BS:0000340"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/310_helix"^^xsd:string ; oboInOwl:hasExactSynonym "3(10) helix"^^xsd:string, "3-10 helix"^^xsd:string, "310 helix"^^xsd:string, "three ten helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001119"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "three_ten_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001116 . obo:SO_0001120 obo:IAO_0000115 "A motif of two consecutive residues with dihedral angles. Nest should not have Proline as any residue. Nests frequently occur as parts of other motifs such as Schellman loops."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00223"^^xsd:string ; oboInOwl:hasExactSynonym "nest_motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "nest"^^xsd:string, "polypeptide nest motif"^^xsd:string ; oboInOwl:id "SO:0001120"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_nest_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001121 obo:IAO_0000115 "A motif of two consecutive residues with dihedral angles: Residue(i): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00224"^^xsd:string ; oboInOwl:hasExactSynonym "nest_left_right"^^xsd:string, "nest_lr"^^xsd:string, "polypeptide nest left right motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001121"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_nest_left_right_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001120 . obo:SO_0001122 obo:IAO_0000115 "A motif of two consecutive residues with dihedral angles: Residue(i): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00225"^^xsd:string ; oboInOwl:hasExactSynonym "nest_right_left"^^xsd:string, "nest_rl"^^xsd:string, "polypeptide nest right left motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001122"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_nest_right_left_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001120 . obo:SO_0001123 obo:IAO_0000115 "A motif of six or seven consecutive residues that contains two H-bonds."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00226"^^xsd:string ; oboInOwl:hasExactSynonym "schellmann loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "paperclip"^^xsd:string, "paperclip loop"^^xsd:string ; oboInOwl:id "SO:0001123"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "schellmann_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001124 obo:IAO_0000115 "Wild type: A motif of seven consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+6), the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+5)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00228"^^xsd:string ; oboInOwl:hasExactSynonym "schellmann loop seven"^^xsd:string, "seven-residue schellmann loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001124"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "schellmann_loop_seven"^^xsd:string ; rdfs:subClassOf obo:SO_0001123 . obo:SO_0001125 obo:IAO_0000115 "Common Type: A motif of six consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+5) the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+4)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00227"^^xsd:string ; oboInOwl:hasExactSynonym "schellmann loop six"^^xsd:string, "six-residue schellmann loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001125"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "schellmann_loop_six"^^xsd:string ; rdfs:subClassOf obo:SO_0001123 . obo:SO_0001126 obo:IAO_0000115 "A motif of five consecutive residues and two hydrogen bonds in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3) , the main-chain CO group of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00229"^^xsd:string ; oboInOwl:hasExactSynonym "serine/threonine motif"^^xsd:string, "st motif"^^xsd:string, "st_motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001126"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "serine_threonine_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001127 obo:IAO_0000115 "A motif of four or five consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain OH of residue(i) is H-bonded to the main-chain CO of residue(i3) or (i4), Phi angles of residues(i1), (i2) and (i3) are negative."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00230"^^xsd:string ; oboInOwl:hasExactSynonym "serine threonine staple motif"^^xsd:string, "st_staple"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001127"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "serine_threonine_staple_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001128 obo:IAO_0000115 "A reversal in the direction of the backbone of a protein that is stabilized by hydrogen bond between backbone NH and CO groups, involving no more than 4 amino acid residues."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00148"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "turn"^^xsd:string ; oboInOwl:id "SO:0001128"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "polypeptide_turn_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0001129 obo:IAO_0000115 "Left handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00206"^^xsd:string ; oboInOwl:hasExactSynonym "asx turn left handed type one"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "asx_turn_il"^^xsd:string ; oboInOwl:id "SO:0001129"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "asx_turn_left_handed_type_one"^^xsd:string ; rdfs:subClassOf obo:SO_0000912 . obo:SO_0001130 obo:IAO_0000115 "Left handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00204"^^xsd:string ; oboInOwl:hasExactSynonym "asx turn left handed type two"^^xsd:string, "asx_turn_iil"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001130"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "asx_turn_left_handed_type_two"^^xsd:string ; rdfs:subClassOf obo:SO_0000912 . obo:SO_0001131 obo:IAO_0000115 "Right handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00205"^^xsd:string ; oboInOwl:hasExactSynonym "asx turn right handed type two"^^xsd:string, "asx_turn_iir"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001131"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "asx_turn_right_handed_type_two"^^xsd:string ; rdfs:subClassOf obo:SO_0000912 . obo:SO_0001132 obo:IAO_0000115 "Right handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00207"^^xsd:string ; oboInOwl:hasExactSynonym "asx turn type right handed type one"^^xsd:string, "asx_turn_ir"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001132"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "asx_turn_right_handed_type_one"^^xsd:string ; rdfs:subClassOf obo:SO_0000912 . obo:SO_0001133 obo:IAO_0000115 "A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles of the second and third residues, which are the basis for sub-categorization."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00212"^^xsd:string ; oboInOwl:hasExactSynonym "beta turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001133"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn"^^xsd:string ; rdfs:subClassOf obo:SO_0001128 . obo:SO_0001134 obo:IAO_0000115 "Left handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles:- Residue(i+1): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. Residue(i+2): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00215"^^xsd:string ; oboInOwl:hasExactSynonym "beta turn left handed type one"^^xsd:string, "beta_turn_il"^^xsd:string, "type I' beta turn"^^xsd:string, "type I' turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001134"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_left_handed_type_one"^^xsd:string ; rdfs:subClassOf obo:SO_0001133 . obo:SO_0001135 obo:IAO_0000115 "Left handed type II: A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees > phi > -20 degrees, +80 degrees > psi > +180 degrees. Residue(i+2): +20 degrees > phi > +140 degrees, -40 degrees > psi > +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00213"^^xsd:string ; oboInOwl:hasExactSynonym "beta turn left handed type two"^^xsd:string, "beta_turn_iil"^^xsd:string, "type II' beta turn"^^xsd:string, "type II' turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001135"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_left_handed_type_two"^^xsd:string ; rdfs:subClassOf obo:SO_0001133 . obo:SO_0001136 obo:IAO_0000115 "Right handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+2): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00216"^^xsd:string ; oboInOwl:hasExactSynonym "beta turn right handed type one"^^xsd:string, "beta_turn_ir"^^xsd:string, "type I beta turn"^^xsd:string, "type I turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001136"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_right_handed_type_one"^^xsd:string ; rdfs:subClassOf obo:SO_0001133 . obo:SO_0001137 obo:IAO_0000115 "Right handed type II:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, +80 degrees < psi < +180 degrees. Residue(i+2): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00214"^^xsd:string ; oboInOwl:hasExactSynonym "beta turn right handed type two"^^xsd:string, "beta_turn_iir"^^xsd:string, "type II beta turn"^^xsd:string, "type II turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001137"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_right_handed_type_two"^^xsd:string ; rdfs:subClassOf obo:SO_0001133 . obo:SO_0001138 obo:IAO_0000115 "Gamma turns, defined for 3 residues i,( i+1),( i+2) if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00219"^^xsd:string ; oboInOwl:hasExactSynonym "gamma turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001138"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "gamma_turn"^^xsd:string ; rdfs:subClassOf obo:SO_0001128 . obo:SO_0001139 obo:IAO_0000115 "Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=75.0 - psi(i+1)=-64.0."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00220"^^xsd:string ; oboInOwl:hasExactSynonym "classic gamma turn"^^xsd:string, "gamma turn classic"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001139"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "gamma_turn_classic"^^xsd:string ; rdfs:subClassOf obo:SO_0001138 . obo:SO_0001140 obo:IAO_0000115 "Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=-79.0 - psi(i+1)=69.0."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00221"^^xsd:string ; oboInOwl:hasExactSynonym "gamma turn inverse"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001140"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "gamma_turn_inverse"^^xsd:string ; rdfs:subClassOf obo:SO_0001138 . obo:SO_0001141 obo:IAO_0000115 "A motif of three consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2)."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00231"^^xsd:string ; oboInOwl:hasExactSynonym "serine/threonine turn"^^xsd:string, "st_turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001141"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "serine_threonine_turn"^^xsd:string ; rdfs:subClassOf obo:SO_0001128 . obo:SO_0001142 obo:IAO_0000115 "The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00234"^^xsd:string ; oboInOwl:hasExactSynonym "st turn left handed type one"^^xsd:string, "st_turn_il"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001142"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "st_turn_left_handed_type_one"^^xsd:string ; rdfs:subClassOf obo:SO_0001141 . obo:SO_0001143 obo:IAO_0000115 "The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00232"^^xsd:string ; oboInOwl:hasExactSynonym "st turn left handed type two"^^xsd:string, "st_turn_iil"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001143"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "st_turn_left_handed_type_two"^^xsd:string ; rdfs:subClassOf obo:SO_0001141 . obo:SO_0001144 obo:IAO_0000115 "The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00235"^^xsd:string ; oboInOwl:hasExactSynonym "st turn right handed type one"^^xsd:string, "st_turn_ir"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001144"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "st_turn_right_handed_type_one"^^xsd:string ; rdfs:subClassOf obo:SO_0001141 . obo:SO_0001145 obo:IAO_0000115 "The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00233"^^xsd:string ; oboInOwl:hasExactSynonym "st turn right handed type two"^^xsd:string, "st_turn_iir"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001145"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "st_turn_right_handed_type_two"^^xsd:string ; rdfs:subClassOf obo:SO_0001141 . obo:SO_0001146 obo:IAO_0000115 "A site of sequence variation (alteration). Alternative sequence due to naturally occurring events such as polymorphisms and alternative splicing or experimental methods such as site directed mutagenesis."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00336"^^xsd:string ; oboInOwl:hasExactSynonym "sequence_variations"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001146"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "For example, was a substitution natural or mutated as part of an experiment? This term is added to merge the biosapiens term sequence_variations."^^xsd:string ; rdfs:label "polypeptide_variation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001147 obo:IAO_0000115 "Describes the natural sequence variants due to polymorphisms, disease-associated mutations, RNA editing and variations between strains, isolates or cultivars."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00071"^^xsd:string ; oboInOwl:hasBroadSynonym "natural_variant"^^xsd:string, "sequence variation"^^xsd:string, "variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001147"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "natural_variant_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001146 . obo:SO_0001148 obo:IAO_0000115 "Site which has been experimentally altered."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00036"^^xsd:string ; oboInOwl:hasExactSynonym "mutagen"^^xsd:string, "mutagenesis"^^xsd:string, "mutated_site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001148"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "mutated_variant_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001146 . obo:SO_0001149 obo:IAO_0000115 "Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting."^^xsd:string ; oboInOwl:hasAlternativeId "BS:00073"^^xsd:string, "SO:0001065"^^xsd:string ; oboInOwl:hasExactSynonym "alternative_sequence"^^xsd:string, "var_seq"^^xsd:string ; oboInOwl:hasNarrowSynonym "isoform"^^xsd:string, "sequence variation"^^xsd:string, "varsplic"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001149"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Discrete."^^xsd:string ; rdfs:label "alternate_sequence_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001146 . obo:SO_0001150 obo:IAO_0000115 "A motif of four consecutive peptide resides of type VIa or type VIb and where the i+2 residue is cis-proline."^^xsd:string ; oboInOwl:hasExactSynonym "beta turn type six"^^xsd:string, "cis-proline loop"^^xsd:string, "type VI beta turn"^^xsd:string, "type VI turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001150"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_type_six"^^xsd:string ; rdfs:subClassOf obo:SO_0001133 . obo:SO_0001151 obo:IAO_0000115 "A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -90 degrees, psi ~ 0 degrees."^^xsd:string ; oboInOwl:hasExactSynonym "beta turn type six a"^^xsd:string, "type VIa beta turn"^^xsd:string, "type VIa turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001151"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_type_six_a"^^xsd:string ; rdfs:subClassOf obo:SO_0001150 . obo:SO_0001152 obo:IAO_0000115 "A type VIa beta turn with the following phi and psi sngles on amino acid residues 2 and 3: phi-2 = -60 degrees, psi-2 = 120 degrees, phi-3 = -90 degrees, psi-3 = 0 degrees."^^xsd:string ; oboInOwl:hasExactSynonym "beta turn type six a one"^^xsd:string, "type VIa1 beta turn"^^xsd:string, "type VIa1 turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001152"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_type_six_a_one"^^xsd:string ; rdfs:subClassOf obo:SO_0001151 . obo:SO_0001153 obo:IAO_0000115 "A type VIa beta turn with the following phi and psi sngles on amino acid residues 2 and 3: phi-2 = -120 degrees, psi-2 = 120 degrees, phi-3 = -60 degrees, psi-3 = 0 degrees."^^xsd:string ; oboInOwl:hasExactSynonym "beta turn type six a two"^^xsd:string, "type VIa2 beta turn"^^xsd:string, "type VIa2 turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001153"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_type_six_a_two"^^xsd:string ; rdfs:subClassOf obo:SO_0001151 . obo:SO_0001154 obo:IAO_0000115 "A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -120 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -60 degrees, psi ~ 0 degrees."^^xsd:string ; oboInOwl:hasExactSynonym "beta turn type six b"^^xsd:string, "type VIb beta turn"^^xsd:string, "type VIb turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001154"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_type_six_b"^^xsd:string ; rdfs:subClassOf obo:SO_0001150 . obo:SO_0001155 obo:IAO_0000115 "A motif of four consecutive peptide residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ -30 degrees. Residue(i+2): phi ~ -120 degrees, psi ~ 120 degrees."^^xsd:string ; oboInOwl:hasExactSynonym "beta turn type eight"^^xsd:string, "type VIII beta turn"^^xsd:string, "type VIII turn"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001155"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "beta_turn_type_eight"^^xsd:string ; rdfs:subClassOf obo:SO_0001133 . obo:SO_0001156 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, usually located between -10 and -60 relative to the TSS. Consensus sequence is WATCGATW."^^xsd:string ; oboInOwl:hasExactSynonym "DRE motif"^^xsd:string, "NDM4"^^xsd:string, "WATCGATW_motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001156"^^xsd:string ; a owl:Class ; rdfs:comment "This consensus sequence was identified computationally using the MEME algorithm within core promoter sequences from -60 to +40, with an E value of 1.7e-183. Tends to co-occur with Motif 7. Tends to not occur with DPE motif (SO:0000015) or motif 10."^^xsd:string ; rdfs:label "DRE_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001157 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements with respect to the TSS (+1). Consensus sequence is YGGTCACACTR. Marked spatial preference within core promoter; tend to occur near the TSS, although not as tightly as INR (SO:0000014)."^^xsd:string ; oboInOwl:hasExactSynonym "DMv4"^^xsd:string, "DMv4 motif"^^xsd:string, "directional motif v4"^^xsd:string, "motif 1 element"^^xsd:string, "promoter motif 1"^^xsd:string ; oboInOwl:hasNarrowSynonym "YGGTCACATR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001157"^^xsd:string ; a owl:Class ; rdfs:label "DMv4_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001158 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and +1 relative to the TSS. Consensus sequence is AWCAGCTGWT. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015)."^^xsd:string ; oboInOwl:hasExactSynonym "E box motif"^^xsd:string, "generic E box motif"^^xsd:string ; oboInOwl:hasNarrowSynonym "AWCAGCTGWT"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "NDM5"^^xsd:string ; oboInOwl:id "SO:0001158"^^xsd:string ; a owl:Class ; rdfs:label "E_box_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001159 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, usually located between -50 and -10 relative to the TSS. Consensus sequence is KTYRGTATWTTT. Tends to co-occur with DMv4 (SO:0001157) . Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162)."^^xsd:string ; oboInOwl:hasExactSynonym "DMv5"^^xsd:string, "DMv5 motif"^^xsd:string, "directional motif v5"^^xsd:string ; oboInOwl:hasNarrowSynonym "KTYRGTATWTTT"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "promoter motif 6"^^xsd:string ; oboInOwl:id "SO:0001159"^^xsd:string ; a owl:Class ; rdfs:label "DMv5_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001160 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, usually located between -30 and +15 relative to the TSS. Consensus sequence is KNNCAKCNCTRNY. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015) or MTE (0001162)."^^xsd:string ; oboInOwl:hasExactSynonym "DMv3"^^xsd:string, "DMv3 motif"^^xsd:string, "directional motif v3"^^xsd:string, "promoter motif 7"^^xsd:string ; oboInOwl:hasNarrowSynonym "KNNCAKCNCTRNY"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001160"^^xsd:string ; a owl:Class ; rdfs:label "DMv3_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001161 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and -45 relative to the TSS. Consensus sequence is MKSYGGCARCGSYSS. Tends to co-occur with DMv3 (SO:0001160). Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162)."^^xsd:string ; oboInOwl:hasExactSynonym "DMv2"^^xsd:string, "DMv2 motif"^^xsd:string, "directional motif v2"^^xsd:string, "promoter motif 8"^^xsd:string ; oboInOwl:hasNarrowSynonym "MKSYGGCARCGSYSS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001161"^^xsd:string ; a owl:Class ; rdfs:label "DMv2_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001162 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters, usually located between +20 and +30 relative to the TSS. Consensus sequence is CSARCSSAACGS. Tends to co-occur with INR motif (SO:0000014). Tends to not occur with DPE motif (SO:0000015) or DMv5 (SO:0001159)."^^xsd:string ; oboInOwl:hasExactSynonym "motif ten element"^^xsd:string, "motif_ten_element"^^xsd:string ; oboInOwl:hasNarrowSynonym "CSARCSSAACGS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001162"^^xsd:string ; a owl:Class ; rdfs:label "MTE"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0001163 obo:IAO_0000115 "A promoter motif with consensus sequence TCATTCG."^^xsd:string ; oboInOwl:hasExactSynonym "DMp3"^^xsd:string, "INR1 motif"^^xsd:string, "directional motif p3"^^xsd:string, "directional promoter motif 3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001163"^^xsd:string ; a owl:Class ; rdfs:label "INR1_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001164 obo:IAO_0000115 "A promoter motif with consensus sequence CGGACGT."^^xsd:string ; oboInOwl:hasExactSynonym "DMp5"^^xsd:string, "DPE1 motif"^^xsd:string, "directional motif 5"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "directional promoter motif 5"^^xsd:string ; oboInOwl:id "SO:0001164"^^xsd:string ; a owl:Class ; rdfs:label "DPE1_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001165 obo:IAO_0000115 "A promoter motif with consensus sequence CARCCCT."^^xsd:string ; oboInOwl:hasExactSynonym "DMv1 motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "DMv1"^^xsd:string, "directional promoter motif v1"^^xsd:string ; oboInOwl:id "SO:0001165"^^xsd:string ; a owl:Class ; rdfs:label "DMv1_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001166 obo:IAO_0000115 "A non directional promoter motif with consensus sequence GAGAGCG."^^xsd:string ; oboInOwl:hasExactSynonym "GAGA"^^xsd:string, "GAGA motif"^^xsd:string, "NDM1"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001166"^^xsd:string ; a owl:Class ; rdfs:label "GAGA_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001167 obo:IAO_0000115 "A non directional promoter motif with consensus CGMYGYCR."^^xsd:string ; oboInOwl:hasExactSynonym "NDM2"^^xsd:string, "NDM2 motif"^^xsd:string, "non directional promoter motif 2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001167"^^xsd:string ; a owl:Class ; rdfs:label "NDM2_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001168 obo:IAO_0000115 "A non directional promoter motif with consensus sequence GAAAGCT."^^xsd:string ; oboInOwl:hasExactSynonym "NDM3"^^xsd:string, "NDM3 motif"^^xsd:string, "non directional motif 3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001168"^^xsd:string ; a owl:Class ; rdfs:label "NDM3_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001169 obo:IAO_0000115 "A ds_RNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded RNA."^^xsd:string ; oboInOwl:hasExactSynonym "double stranded RNA virus sequence"^^xsd:string, "ds RNA viral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001169"^^xsd:string ; a owl:Class ; rdfs:label "ds_RNA_viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001041 . obo:SO_0001170 obo:IAO_0000115 "A kind of DNA transposon that populates the genomes of protists, fungi, and animals, characterized by a unique set of proteins necessary for their transposition, including a protein-primed DNA polymerase B, retroviral integrase, cysteine protease, and ATPase. Polintons are characterized by 6-bp target site duplications, terminal-inverted repeats that are several hundred nucleotides long, and 5'-AG and TC-3' termini. Polintons exist as autonomous and nonautonomous elements."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "maverick element"^^xsd:string ; oboInOwl:id "SO:0001170"^^xsd:string ; a owl:Class ; rdfs:label "polinton"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0001171 obo:IAO_0000115 "A component of the large ribosomal subunit in mitochondrial rRNA."^^xsd:string ; obo:IAO_0100001 "SO:0002345"^^xsd:string ; oboInOwl:hasExactSynonym "21S LSU rRNA"^^xsd:string, "21S rRNA"^^xsd:string, "21S ribosomal RNA"^^xsd:string, "rRNA 21S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001171"^^xsd:string ; a owl:Class ; rdfs:comment "This term has been merged into mt_LSU_rRNA (SO:0002345) as part of reorganization of rRNA child terms 10 June 2021. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "rRNA_21S"^^xsd:string ; owl:deprecated true . obo:SO_0001172 obo:IAO_0000115 "A region of a tRNA."^^xsd:string ; oboInOwl:hasExactSynonym "tRNA region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001172"^^xsd:string ; a owl:Class ; rdfs:label "tRNA_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000834, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000253 ] . obo:SO_0001173 obo:IAO_0000115 "A sequence of seven nucleotide bases in tRNA which contains the anticodon. It has the sequence 5'-pyrimidine-purine-anticodon-modified purine-any base-3."^^xsd:string ; oboInOwl:hasExactSynonym "anti-codon loop"^^xsd:string, "anticodon loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001173"^^xsd:string ; a owl:Class ; rdfs:label "anticodon_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001172 . obo:SO_0001174 obo:IAO_0000115 "A sequence of three nucleotide bases in tRNA which recognizes a codon in mRNA."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Anticodon"^^xsd:string ; oboInOwl:hasExactSynonym "anti-codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001174"^^xsd:string ; a owl:Class ; rdfs:label "anticodon"^^xsd:string ; rdfs:subClassOf obo:SO_0001172, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001173 ] . obo:SO_0001175 obo:IAO_0000115 "Base sequence at the 3' end of a tRNA. The 3'-hydroxyl group on the terminal adenosine is the attachment point for the amino acid."^^xsd:string ; oboInOwl:hasExactSynonym "CCA sequence"^^xsd:string, "CCA tail"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001175"^^xsd:string ; a owl:Class ; rdfs:label "CCA_tail"^^xsd:string ; rdfs:subClassOf obo:SO_0001172 . obo:SO_0001176 obo:IAO_0000115 "Non-base-paired sequence of nucleotide bases in tRNA. It contains several dihydrouracil residues."^^xsd:string ; oboInOwl:hasExactSynonym "DHU loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "D loop"^^xsd:string ; oboInOwl:id "SO:0001176"^^xsd:string ; a owl:Class ; rdfs:label "DHU_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001172 . obo:SO_0001177 obo:IAO_0000115 "Non-base-paired sequence of three nucleotide bases in tRNA. It has sequence T-Psi-C."^^xsd:string ; oboInOwl:hasExactSynonym "T loop"^^xsd:string, "TpsiC loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001177"^^xsd:string ; a owl:Class ; rdfs:label "T_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001172 . obo:SO_0001178 obo:IAO_0000115 "A primary transcript encoding pyrrolysyl tRNA (SO:0000766)."^^xsd:string ; oboInOwl:hasExactSynonym "pyrrolysine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001178"^^xsd:string ; a owl:Class ; rdfs:label "pyrrolysine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0001179 obo:IAO_0000115 "U3 snoRNA is a member of the box C/D class of small nucleolar RNAs. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localization, stability and hypermethylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Small_nucleolar_RNA_U3"^^xsd:string ; oboInOwl:hasExactSynonym "U3 small nucleolar RNA"^^xsd:string, "U3 snoRNA"^^xsd:string, "small nucleolar RNA U3"^^xsd:string, "snoRNA U3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001179"^^xsd:string ; a owl:Class ; rdfs:comment "The definition is most of the old definition for snoRNA (SO:0000275)."^^xsd:string ; rdfs:label "U3_snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000593 . obo:SO_0001180 obo:IAO_0000115 "A cis-acting element found in the 3' UTR of some mRNA which is rich in AUUUA pentamers. Messenger RNAs bearing multiple AU-rich elements are often unstable."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/AU-rich_element"^^xsd:string ; oboInOwl:hasExactSynonym "AU rich element"^^xsd:string, "AU-rich element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ARE"^^xsd:string ; oboInOwl:id "SO:0001180"^^xsd:string ; a owl:Class ; rdfs:label "AU_rich_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000837, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000205 ] . obo:SO_0001181 obo:IAO_0000115 "A cis-acting element found in the 3' UTR of some mRNA which is bound by the Drosophila Bruno protein and its homologs."^^xsd:string ; oboInOwl:hasExactSynonym "Bruno response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "BRE"^^xsd:string ; oboInOwl:id "SO:0001181"^^xsd:string ; a owl:Class ; rdfs:comment "Not to be confused with BRE_motif (SO:0000016), which binds transcription factor II B."^^xsd:string ; rdfs:label "Bruno_response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000837, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000205 ] . obo:SO_0001182 obo:IAO_0000115 "A regulatory sequence found in the 5' and 3' UTRs of many mRNAs which encode iron-binding proteins. It has a hairpin structure and is recognized by trans-acting proteins known as iron-regulatory proteins."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Iron_responsive_element"^^xsd:string ; oboInOwl:hasExactSynonym "IRE"^^xsd:string, "iron responsive element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001182"^^xsd:string ; a owl:Class ; rdfs:label "iron_responsive_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000837, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000203 ] . obo:SO_0001183 obo:IAO_0000115 "An attribute describing a sequence composed of nucleobases bound to a morpholino backbone. A morpholino backbone consists of morpholine (CHEBI:34856) rings connected by phosphorodiamidate linkages."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Morpholino"^^xsd:string ; oboInOwl:hasExactSynonym "morpholino backbone"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001183"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this for feature annotation. Use morpholino_oligo (SO:0000034) instead."^^xsd:string ; rdfs:label "morpholino_backbone"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0001184 obo:IAO_0000115 "An attribute describing a sequence composed of peptide nucleic acid (CHEBI:48021), a chemical consisting of nucleobases bound to a backbone composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "peptide nucleic acid"^^xsd:string ; oboInOwl:id "SO:0001184"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this term for feature annotation. Use PNA_oligo (SO:0001011) instead."^^xsd:string ; rdfs:label "PNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0001185 obo:IAO_0000115 "An attribute describing the sequence of a transcript that has catalytic activity with or without an associated ribonucleoprotein."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001185"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this for feature annotation. Use enzymatic_RNA (SO:0000372) instead."^^xsd:string ; rdfs:label "enzymatic"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0001186 obo:IAO_0000115 "An attribute describing the sequence of a transcript that has catalytic activity even without an associated ribonucleoprotein."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001186"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this for feature annotation. Use ribozyme (SO:0000374) instead."^^xsd:string ; rdfs:label "ribozymic"^^xsd:string ; rdfs:subClassOf obo:SO_0001185 . obo:SO_0001187 obo:IAO_0000115 "A snoRNA that specifies the site of pseudouridylation in an RNA molecule by base pairing with a short sequence around the target residue."^^xsd:string ; oboInOwl:hasExactSynonym "pseudouridylation guide snoRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001187"^^xsd:string ; a owl:Class ; rdfs:comment "Has RNA pseudouridylation guide activity (GO:0030558)."^^xsd:string ; rdfs:label "pseudouridylation_guide_snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000594 . obo:SO_0001188 obo:IAO_0000115 "An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of 'locked' deoxyribose rings connected to a phosphate backbone. The deoxyribose unit's conformation is 'locked' by a 2'-C,4'-C-oxymethylene link."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001188"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this term for feature annotation. Use LNA_oligo (SO:0001189) instead."^^xsd:string ; rdfs:label "LNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0001189 obo:IAO_0000115 "An oligo composed of LNA residues."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Locked_nucleic_acid"^^xsd:string ; oboInOwl:hasExactSynonym "LNA oligo"^^xsd:string, "locked nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001189"^^xsd:string ; a owl:Class ; rdfs:label "LNA_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001247, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001188 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001247 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001188 ] ) ] . obo:SO_0001190 obo:IAO_0000115 "An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of threose rings connected to a phosphate backbone."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001190"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this term for feature annotation. Use TNA_oligo (SO:0001191) instead."^^xsd:string ; rdfs:label "TNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0001191 obo:IAO_0000115 "An oligo composed of TNA residues."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Threose_nucleic_acid"^^xsd:string ; oboInOwl:hasExactSynonym "TNA oligo"^^xsd:string, "threose nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001191"^^xsd:string ; a owl:Class ; rdfs:label "TNA_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001247, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001190 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001247 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001190 ] ) ] . obo:SO_0001192 obo:IAO_0000115 "An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of an acyclic three-carbon propylene glycol connected to a phosphate backbone. It has two enantiomeric forms, (R)-GNA and (S)-GNA."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001192"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this term for feature annotation. Use GNA_oligo (SO:0001192) instead."^^xsd:string ; rdfs:label "GNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000348 . obo:SO_0001193 obo:IAO_0000115 "An oligo composed of GNA residues."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Glycerol_nucleic_acid"^^xsd:string ; oboInOwl:hasExactSynonym "GNA oligo"^^xsd:string, "glycerol nucleic acid"^^xsd:string, "glycol nucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001193"^^xsd:string ; a owl:Class ; rdfs:label "GNA_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001247, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001192 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001247 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001192 ] ) ] . obo:SO_0001194 obo:IAO_0000115 "An attribute describing a GNA sequence in the (R)-GNA enantiomer."^^xsd:string ; oboInOwl:hasExactSynonym "R GNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001194"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this term for feature annotation. Use R_GNA_oligo (SO:0001195) instead."^^xsd:string ; rdfs:label "R_GNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001192 . obo:SO_0001195 obo:IAO_0000115 "An oligo composed of (R)-GNA residues."^^xsd:string ; oboInOwl:hasExactSynonym "(R)-glycerol nucleic acid"^^xsd:string, "(R)-glycol nucleic acid"^^xsd:string, "R GNA oligo"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001195"^^xsd:string ; a owl:Class ; rdfs:label "R_GNA_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001193, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001194 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001193 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001194 ] ) ] . obo:SO_0001196 obo:IAO_0000115 "An attribute describing a GNA sequence in the (S)-GNA enantiomer."^^xsd:string ; oboInOwl:hasExactSynonym "S GNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001196"^^xsd:string ; a owl:Class ; rdfs:comment "Do not use this term for feature annotation. Use S_GNA_oligo (SO:0001197) instead."^^xsd:string ; rdfs:label "S_GNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001192 . obo:SO_0001197 obo:IAO_0000115 "An oligo composed of (S)-GNA residues."^^xsd:string ; oboInOwl:hasExactSynonym "(S)-glycerol nucleic acid"^^xsd:string, "(S)-glycol nucleic acid"^^xsd:string, "S GNA oligo"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001197"^^xsd:string ; a owl:Class ; rdfs:label "S_GNA_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0001193, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001196 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001193 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001196 ] ) ] . obo:SO_0001198 obo:IAO_0000115 "A ds_DNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded DNA."^^xsd:string ; oboInOwl:hasExactSynonym "double stranded DNA virus"^^xsd:string, "ds DNA viral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001198"^^xsd:string ; a owl:Class ; rdfs:label "ds_DNA_viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001041 . obo:SO_0001199 obo:IAO_0000115 "A ss_RNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as single stranded RNA."^^xsd:string ; oboInOwl:hasExactSynonym "single strand RNA virus"^^xsd:string, "ss RNA viral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001199"^^xsd:string ; a owl:Class ; rdfs:label "ss_RNA_viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001041 . obo:SO_0001200 obo:IAO_0000115 "A negative_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that is complementary to mRNA and must be converted to positive sense RNA by RNA polymerase before translation."^^xsd:string ; oboInOwl:hasExactSynonym "negative sense ssRNA viral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "negative sense single stranded RNA virus"^^xsd:string ; oboInOwl:id "SO:0001200"^^xsd:string ; a owl:Class ; rdfs:label "negative_sense_ssRNA_viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001199 . obo:SO_0001201 obo:IAO_0000115 "A positive_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that can be immediately translated by the host."^^xsd:string ; oboInOwl:hasExactSynonym "positive sense ssRNA viral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "positive sense single stranded RNA virus"^^xsd:string ; oboInOwl:id "SO:0001201"^^xsd:string ; a owl:Class ; rdfs:label "positive_sense_ssRNA_viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001199 . obo:SO_0001202 obo:IAO_0000115 "A ambisense_RNA_virus is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus with both messenger and anti messenger polarity."^^xsd:string ; oboInOwl:hasExactSynonym "ambisense single stranded RNA virus"^^xsd:string, "ambisense ssRNA viral sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001202"^^xsd:string ; a owl:Class ; rdfs:label "ambisense_ssRNA_viral_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0001199 . obo:SO_0001203 obo:IAO_0000115 "A region (DNA) to which RNA polymerase binds, to begin transcription."^^xsd:string ; obo:IAO_0100001 "SO:0000167"^^xsd:string ; oboInOwl:hasExactSynonym "RNA polymerase promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001203"^^xsd:string ; a owl:Class ; rdfs:comment "Term merged with promoter SO:0000167 in August 2020 as part of GREEKC initiative. See GitHub Issue 492 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/492)"^^xsd:string ; rdfs:label "RNA_polymerase_promoter"^^xsd:string ; owl:deprecated true . obo:SO_0001204 obo:IAO_0000115 "A region (DNA) to which Bacteriophage RNA polymerase binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "Phage RNA Polymerase Promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001204"^^xsd:string ; a owl:Class ; rdfs:comment "former parent RNA_polymerase_promoter SO:0001203 was merged with promoter SO:0000167 in Aug 2020 as part of GREEKC."^^xsd:string ; rdfs:label "Phage_RNA_Polymerase_Promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0002311 . obo:SO_0001205 obo:IAO_0000115 "A region (DNA) to which the SP6 RNA polymerase binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "SP6 RNA Polymerase Promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001205"^^xsd:string ; a owl:Class ; rdfs:label "SP6_RNA_Polymerase_Promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0001204 . obo:SO_0001206 obo:IAO_0000115 "A DNA sequence to which the T3 RNA polymerase binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "T3 RNA Polymerase Promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001206"^^xsd:string ; a owl:Class ; rdfs:label "T3_RNA_Polymerase_Promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0001204 . obo:SO_0001207 obo:IAO_0000115 "A region (DNA) to which the T7 RNA polymerase binds, to begin transcription."^^xsd:string ; oboInOwl:hasExactSynonym "T7 RNA Polymerase Promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001207"^^xsd:string ; a owl:Class ; rdfs:label "T7_RNA_Polymerase_Promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0001204 . obo:SO_0001208 obo:IAO_0000115 "An EST read from the 5' end of a transcript that usually codes for a protein. These regions tend to be conserved across species and do not change much within a gene family."^^xsd:string ; oboInOwl:hasExactSynonym "5' EST"^^xsd:string, "five prime EST"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001208"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_EST"^^xsd:string ; rdfs:subClassOf obo:SO_0000345 . obo:SO_0001209 obo:IAO_0000115 "An EST read from the 3' end of a transcript. They are more likely to fall within non-coding, or untranslated regions(UTRs)."^^xsd:string ; oboInOwl:hasExactSynonym "3' EST"^^xsd:string, "three prime EST"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001209"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_EST"^^xsd:string ; rdfs:subClassOf obo:SO_0000345 . obo:SO_0001210 obo:IAO_0000115 "The region of mRNA (not divisible by 3 bases) that is skipped or added during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Translational_frameshift"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:ribosomal_slippage"^^xsd:string, "ribosomal frameshift"^^xsd:string, "ribosomal slippage"^^xsd:string, "translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001210"^^xsd:string ; a owl:Class ; rdfs:comment "Added synonym 'ribosomal_slippage' on Feb 1, 2021, a term in INSDC and GenBank. See GitHub Issue #522."^^xsd:string ; rdfs:label "translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0000836 . obo:SO_0001211 obo:IAO_0000115 "The region of mRNA 1 base long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string ; oboInOwl:hasExactSynonym "plus 1 ribosomal frameshift"^^xsd:string, "plus 1 translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001211"^^xsd:string ; a owl:Class ; rdfs:label "plus_1_translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0001210 . obo:SO_0001212 obo:IAO_0000115 "The region of mRNA 2 bases long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string ; oboInOwl:hasExactSynonym "plus 2 ribosomal frameshift"^^xsd:string, "plus 2 translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001212"^^xsd:string ; a owl:Class ; rdfs:label "plus_2_translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0001210 . obo:SO_0001213 obo:IAO_0000115 "Group III introns are introns found in the mRNA of the plastids of euglenoid protists. They are spliced by a two step transesterification with bulged adenosine as initiating nucleophile."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Group_III_intron"^^xsd:string ; oboInOwl:hasExactSynonym "group III intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001213"^^xsd:string ; a owl:Class ; rdfs:comment "GO:0000374."^^xsd:string ; rdfs:label "group_III_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000588 . obo:SO_0001214 obo:IAO_0000115 "The maximal intersection of exon and UTR."^^xsd:string ; oboInOwl:hasExactSynonym "noncoding region of exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001214"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "An exon either containing but not starting with a start codon or containing but not ending with a stop codon will be partially coding and partially non coding."^^xsd:string ; rdfs:label "noncoding_region_of_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000852 . obo:SO_0001215 obo:IAO_0000115 "The region of an exon that encodes for protein sequence."^^xsd:string ; oboInOwl:hasExactSynonym "coding region of exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001215"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "An exon containing either a start or stop codon will be partially coding and partially non coding."^^xsd:string ; rdfs:label "coding_region_of_exon"^^xsd:string ; rdfs:subClassOf obo:SO_0000852 . obo:SO_0001216 obo:IAO_0000115 "An intron that spliced via endonucleolytic cleavage and ligation rather than transesterification."^^xsd:string ; oboInOwl:hasExactSynonym "endonuclease spliced intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001216"^^xsd:string ; a owl:Class ; rdfs:label "endonuclease_spliced_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0001217 obo:IAO_0000115 "A gene that codes for an RNA that can be translated into a protein."^^xsd:string ; oboInOwl:hasExactSynonym "protein coding gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001217"^^xsd:string ; oboInOwl:inSubset so:Alliance_of_Genome_Resources ; a owl:Class ; rdfs:label "protein_coding_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000010 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000010 ] ) ] . obo:SO_0001218 obo:IAO_0000115 "An insertion that derives from another organism, via the use of recombinant DNA technology."^^xsd:string ; oboInOwl:hasExactSynonym "transgenic insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001218"^^xsd:string ; a owl:Class ; rdfs:label "transgenic_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0000667, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000781 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000667 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000781 ] ) ] . obo:SO_0001219 obo:IAO_0000115 "A gene that has been produced as the product of a reverse transcriptase mediated event."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001219"^^xsd:string ; a owl:Class ; rdfs:label "retrogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000569 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000569 ] ) ] . obo:SO_0001220 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated by RNA interference."^^xsd:string ; oboInOwl:hasExactSynonym "silenced by RNA interference"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001220"^^xsd:string ; a owl:Class ; rdfs:comment "RNA interference is GO:0016246."^^xsd:string ; rdfs:label "silenced_by_RNA_interference"^^xsd:string ; rdfs:subClassOf obo:SO_0000893 . obo:SO_0001221 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated by histone modification."^^xsd:string ; oboInOwl:hasExactSynonym "silenced by histone modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001221"^^xsd:string ; a owl:Class ; rdfs:comment "Histone modification is GO:0016570."^^xsd:string ; rdfs:label "silenced_by_histone_modification"^^xsd:string ; rdfs:subClassOf obo:SO_0000893 . obo:SO_0001222 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated by histone methylation."^^xsd:string ; oboInOwl:hasExactSynonym "silenced by histone methylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001222"^^xsd:string ; a owl:Class ; rdfs:comment "Histone methylation is GO:0016571."^^xsd:string ; rdfs:label "silenced_by_histone_methylation"^^xsd:string ; rdfs:subClassOf obo:SO_0001221 . obo:SO_0001223 obo:IAO_0000115 "An attribute describing an epigenetic process where a gene is inactivated by histone deacetylation."^^xsd:string ; oboInOwl:hasExactSynonym "silenced by histone deacetylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001223"^^xsd:string ; a owl:Class ; rdfs:comment "Histone deacetylation is GO:0016573."^^xsd:string ; rdfs:label "silenced_by_histone_deacetylation"^^xsd:string ; rdfs:subClassOf obo:SO_0001221 . obo:SO_0001224 obo:IAO_0000115 "A gene that is silenced by RNA interference."^^xsd:string ; oboInOwl:hasExactSynonym "RNA interference silenced gene"^^xsd:string, "RNAi silenced gene"^^xsd:string, "gene silenced by RNA interference"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001224"^^xsd:string ; a owl:Class ; rdfs:label "gene_silenced_by_RNA_interference"^^xsd:string ; rdfs:subClassOf obo:SO_0000127, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001220 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000127 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001220 ] ) ] . obo:SO_0001225 obo:IAO_0000115 "A gene that is silenced by histone modification."^^xsd:string ; oboInOwl:hasExactSynonym "gene silenced by histone modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001225"^^xsd:string ; a owl:Class ; rdfs:label "gene_silenced_by_histone_modification"^^xsd:string ; rdfs:subClassOf obo:SO_0000127, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001221 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000127 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001221 ] ) ] . obo:SO_0001226 obo:IAO_0000115 "A gene that is silenced by histone methylation."^^xsd:string ; oboInOwl:hasExactSynonym "gene silenced by histone methylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001226"^^xsd:string ; a owl:Class ; rdfs:label "gene_silenced_by_histone_methylation"^^xsd:string ; rdfs:subClassOf obo:SO_0001225, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001222 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001225 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001222 ] ) ] . obo:SO_0001227 obo:IAO_0000115 "A gene that is silenced by histone deacetylation."^^xsd:string ; oboInOwl:hasExactSynonym "gene silenced by histone deacetylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001227"^^xsd:string ; a owl:Class ; rdfs:label "gene_silenced_by_histone_deacetylation"^^xsd:string ; rdfs:subClassOf obo:SO_0001225, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001223 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001225 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001223 ] ) ] . obo:SO_0001228 obo:IAO_0000115 "A modified RNA base in which the 5,6-dihydrouracil is bound to the ribose ring."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:051"^^xsd:string, "http://en.wikipedia.org/wiki/Dihydrouridine"^^xsd:string ; oboInOwl:hasExactSynonym " D"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001228"^^xsd:string ; a owl:Class ; rdfs:label "dihydrouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001229 obo:IAO_0000115 "A modified RNA base in which the 5- position of the uracil is bound to the ribose ring instead of the 4- position."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:050"^^xsd:string, "http://en.wikipedia.org/wiki/Pseudouridine"^^xsd:string ; oboInOwl:hasExactSynonym " Y"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001229"^^xsd:string ; a owl:Class ; rdfs:comment "The free molecule is CHEBI:17802."^^xsd:string ; rdfs:label "pseudouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001230 obo:IAO_0000115 "A modified RNA base in which hypoxanthine is bound to the ribose ring."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Inosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "I"^^xsd:string, "RNAMOD:017"^^xsd:string ; oboInOwl:id "SO:0001230"^^xsd:string ; a owl:Class ; rdfs:comment "The free molecule is CHEBI:17596."^^xsd:string ; rdfs:label "inosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001231 obo:IAO_0000115 "A modified RNA base in which guanine is methylated at the 7- position."^^xsd:string ; oboInOwl:hasExactSynonym "7-methylguanine"^^xsd:string, "seven methylguanine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001231"^^xsd:string ; a owl:Class ; rdfs:comment "The free molecule is CHEBI:2274."^^xsd:string ; rdfs:label "seven_methylguanine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001232 obo:IAO_0000115 "A modified RNA base in which thymine is bound to the ribose ring."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001232"^^xsd:string ; a owl:Class ; rdfs:comment "The free molecule is CHEBI:30832."^^xsd:string ; rdfs:label "ribothymidine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001233 obo:IAO_0000115 "A modified RNA base in which methylhypoxanthine is bound to the ribose ring."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001233"^^xsd:string ; a owl:Class ; rdfs:label "methylinosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001274 . obo:SO_0001234 obo:IAO_0000115 "An attribute describing a feature that has either intra-genome or intracellular mobility."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Mobile"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001234"^^xsd:string ; a owl:Class ; rdfs:label "mobile"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0001235 obo:IAO_0000115 "A region containing at least one unique origin of replication and a unique termination site."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Replicon_(genetics)"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001235"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "replicon"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001236 obo:IAO_0000115 "A base is a sequence feature that corresponds to a single unit of a nucleotide polymer."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Nucleobase"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001236"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "base"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001237 obo:IAO_0000115 "A sequence feature that corresponds to a single amino acid residue in a polypeptide."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Amino_acid"^^xsd:string ; oboInOwl:hasExactSynonym "amino acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001237"^^xsd:string ; a owl:Class ; rdfs:comment "Probably in the future this will cross reference to Chebi."^^xsd:string ; rdfs:label "amino_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000104 ] . obo:SO_0001238 obo:IAO_0000115 "The tanscription start site that is most frequently used for transcription of a gene."^^xsd:string ; oboInOwl:hasExactSynonym "major TSS"^^xsd:string, "major transcription start site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001238"^^xsd:string ; a owl:Class ; rdfs:label "major_TSS"^^xsd:string ; rdfs:subClassOf obo:SO_0000315 . obo:SO_0001239 obo:IAO_0000115 "A tanscription start site that is not the most frequently used for transcription of a gene."^^xsd:string ; oboInOwl:hasExactSynonym "minor TSS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001239"^^xsd:string ; a owl:Class ; rdfs:label "minor_TSS"^^xsd:string ; rdfs:subClassOf obo:SO_0000315 . obo:SO_0001240 obo:IAO_0000115 "The region of a gene from the 5' most TSS to the 3' TSS."^^xsd:string ; obo:IAO_0100001 "SO:0000167"^^xsd:string ; oboInOwl:hasExactSynonym "TSS region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001240"^^xsd:string ; a owl:Class ; rdfs:comment "Merged into promoter (SO:0000167) on 11 Feb 2021 by Dave Sant. GREEKC had asked us to merge these terms to reduce redundancy. See GitHub Issue #528"^^xsd:string ; rdfs:label "TSS_region"^^xsd:string ; owl:deprecated true . obo:SO_0001241 obo:IAO_0000115 "A gene that has multiple possible transcription start sites."^^xsd:string ; oboInOwl:hasExactSynonym "encodes alternate transcription start sites"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001241"^^xsd:string ; a owl:Class ; rdfs:label "encodes_alternate_transcription_start_sites"^^xsd:string ; rdfs:subClassOf obo:SO_0000401 . obo:SO_0001242 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001021 ; a owl:Class ; owl:deprecated true . obo:SO_0001243 obo:IAO_0000115 "A part of an miRNA primary_transcript."^^xsd:string ; oboInOwl:hasExactSynonym "miRNA primary transcript region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001243"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_primary_transcript_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000835 . obo:SO_0001244 obo:IAO_0000115 "The 60-70 nucleotide region remain after Drosha processing of the primary transcript, that folds back upon itself to form a hairpin structure."^^xsd:string ; oboInOwl:hasExactSynonym "pre-miRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001244"^^xsd:string ; a owl:Class ; rdfs:label "pre_miRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001243 . obo:SO_0001245 obo:IAO_0000115 "The stem of the hairpin loop formed by folding of the pre-miRNA."^^xsd:string ; oboInOwl:hasExactSynonym "miRNA stem"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001245"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_stem"^^xsd:string ; rdfs:subClassOf obo:SO_0001243, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0001246 obo:IAO_0000115 "The loop of the hairpin loop formed by folding of the pre-miRNA."^^xsd:string ; oboInOwl:hasExactSynonym "miRNA loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001246"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0001243, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0001247 obo:IAO_0000115 "An oligo composed of synthetic nucleotides."^^xsd:string ; oboInOwl:hasExactSynonym "synthetic oligo"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001247"^^xsd:string ; a owl:Class ; rdfs:label "synthetic_oligo"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0001248 obo:IAO_0000115 "A region of the genome of known length that is composed by ordering and aligning two or more different regions."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Genome_assembly#Genome_assembly"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001248"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "assembly"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0001249 obo:IAO_0000115 "A fragment assembly is a genome assembly that orders overlapping fragments of the genome based on landmark sequences. The base pair distance between the landmarks is known allowing additivity of lengths."^^xsd:string ; oboInOwl:hasExactSynonym "fragment assembly"^^xsd:string, "physical map"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001249"^^xsd:string ; a owl:Class ; rdfs:label "fragment_assembly"^^xsd:string ; rdfs:subClassOf obo:SO_0001248 . obo:SO_0001250 obo:IAO_0000115 "A fingerprint_map is a physical map composed of restriction fragments."^^xsd:string ; oboInOwl:hasExactSynonym "BACmap"^^xsd:string, "FPC"^^xsd:string, "FPCmap"^^xsd:string, "fingerprint map"^^xsd:string, "restriction map"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001250"^^xsd:string ; a owl:Class ; rdfs:label "fingerprint_map"^^xsd:string ; rdfs:subClassOf obo:SO_0001249, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000412 ] . obo:SO_0001251 obo:IAO_0000115 "An STS map is a physical map organized by the unique STS landmarks."^^xsd:string ; oboInOwl:hasExactSynonym "STS map"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001251"^^xsd:string ; a owl:Class ; rdfs:label "STS_map"^^xsd:string ; rdfs:subClassOf obo:SO_0001249, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000331 ] . obo:SO_0001252 obo:IAO_0000115 "A radiation hybrid map is a physical map."^^xsd:string ; oboInOwl:hasExactSynonym "RH map"^^xsd:string, "radiation hybrid map"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001252"^^xsd:string ; a owl:Class ; rdfs:label "RH_map"^^xsd:string ; rdfs:subClassOf obo:SO_0001249, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000331 ] . obo:SO_0001253 obo:IAO_0000115 "A DNA fragment generated by sonication. Sonication is a technique used to sheer DNA into smaller fragments."^^xsd:string ; oboInOwl:hasExactSynonym "sonicate fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001253"^^xsd:string ; a owl:Class ; rdfs:label "sonicate_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000143 . obo:SO_0001254 obo:IAO_0000115 "A kind of chromosome variation where the chromosome complement is an exact multiple of the haploid number and is greater than the diploid number."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Polyploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001254"^^xsd:string ; a owl:Class ; rdfs:label "polyploid"^^xsd:string ; rdfs:subClassOf obo:SO_1000182 . obo:SO_0001255 obo:IAO_0000115 "A polyploid where the multiple chromosome set was derived from the same organism."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Autopolyploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001255"^^xsd:string ; a owl:Class ; rdfs:label "autopolyploid"^^xsd:string ; rdfs:subClassOf obo:SO_0001254 . obo:SO_0001256 obo:IAO_0000115 "A polyploid where the multiple chromosome set was derived from a different organism."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Allopolyploid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001256"^^xsd:string ; a owl:Class ; rdfs:label "allopolyploid"^^xsd:string ; rdfs:subClassOf obo:SO_0001254 . obo:SO_0001257 obo:IAO_0000115 "The binding site (recognition site) of a homing endonuclease. The binding site is typically large."^^xsd:string ; oboInOwl:hasExactSynonym "homing endonuclease binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001257"^^xsd:string ; a owl:Class ; rdfs:label "homing_endonuclease_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000059 . obo:SO_0001258 obo:IAO_0000115 "A sequence element characteristic of some RNA polymerase II promoters with sequence ATTGCAT that binds Pou-domain transcription factors."^^xsd:string ; oboInOwl:hasExactSynonym "octamer motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001258"^^xsd:string ; a owl:Class ; rdfs:comment "Nature. 1986 Oct 16-22;323(6089):640-3."^^xsd:string ; rdfs:label "octamer_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000170 ] . obo:SO_0001259 obo:IAO_0000115 "A chromosome originating in an apicoplast."^^xsd:string ; oboInOwl:hasExactSynonym "apicoplast chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001259"^^xsd:string ; a owl:Class ; rdfs:label "apicoplast_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_0000340, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000743 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000340 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000743 ] ) ] . obo:SO_0001260 obo:IAO_0000115 "A collection of discontinuous sequences."^^xsd:string ; oboInOwl:hasExactSynonym "sequence collection"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001260"^^xsd:string ; a owl:Class ; rdfs:label "sequence_collection"^^xsd:string . obo:SO_0001261 obo:IAO_0000115 "A continuous region of sequence composed of the overlapping of multiple sequence_features, which ultimately provides evidence for another sequence_feature."^^xsd:string ; oboInOwl:hasExactSynonym "overlapping feature set"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001261"^^xsd:string ; a owl:Class ; rdfs:comment "This feature was requested by Nicole, tracker id 1911479. It is required to gather evidence together for annotation. An example would be overlapping ESTs that support an mRNA."^^xsd:string ; rdfs:label "overlapping_feature_set"^^xsd:string ; rdfs:subClassOf obo:SO_0000703 . obo:SO_0001262 obo:IAO_0000115 "A continous experimental result region extending the length of multiple overlapping EST's."^^xsd:string ; oboInOwl:hasExactSynonym "overlapping EST set"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001262"^^xsd:string ; a owl:Class ; rdfs:label "overlapping_EST_set"^^xsd:string ; rdfs:subClassOf obo:SO_0001261, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000345 ] . obo:SO_0001263 obo:IAO_0000115 "A gene that encodes a non-coding RNA."^^xsd:string ; oboInOwl:hasExactSynonym "ncRNA gene"^^xsd:string, "non-coding RNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001263"^^xsd:string ; oboInOwl:inSubset so:Alliance_of_Genome_Resources ; a owl:Class ; rdfs:label "ncRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704 . obo:SO_0001264 obo:IAO_0000115 "A noncoding RNA that guides the insertion or deletion of uridine residues in mitochondrial mRNAs. This may also refer to synthetic RNAs used to guide DNA editing using the CRIPSR/Cas9 system."^^xsd:string ; oboInOwl:hasExactSynonym "gRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001264"^^xsd:string ; a owl:Class ; rdfs:label "gRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000979 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001263 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000979 ] ) ] . obo:SO_0001265 obo:IAO_0000115 "A small noncoding RNA of approximately 22 nucleotides in length which may be involved in regulation of gene expression."^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001270"^^xsd:string ; oboInOwl:hasExactSynonym "miRNA gene"^^xsd:string, "stRNA gene"^^xsd:string, "stRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001265"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from ncRNA_gene to sncRNA_gene 27 April 2021 to be more consistent with the organization of the ncRNA branch of SO. Requested by FlyBase, moved by Dave Sant. See GitHub Issue #514."^^xsd:string ; rdfs:label "miRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002342, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000571 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000656 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0002342 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000571 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000656 ] ) ] . obo:SO_0001266 obo:IAO_0000115 "A small noncoding RNA that is generally found only in the cytoplasm."^^xsd:string ; oboInOwl:hasExactSynonym "scRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001266"^^xsd:string ; a owl:Class ; rdfs:label "scRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000575 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001263 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000575 ] ) ] . obo:SO_0001267 obo:IAO_0000115 "A gene encoding a small noncoding RNA that participates in the processing or chemical modifications of many RNAs, including ribosomal RNAs and spliceosomal RNAs."^^xsd:string ; oboInOwl:hasExactSynonym "snoRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001267"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from ncRNA_gene to sncRNA_gene 27 April 2021 to be more consistent with the organization of the ncRNA branch of SO. Requested by FlyBase, moved by Dave Sant. See GitHub Issue #514."^^xsd:string ; rdfs:label "snoRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002342, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000578 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0002342 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000578 ] ) ] . obo:SO_0001268 obo:IAO_0000115 "A gene that encodes a small nuclear RNA."^^xsd:string ; oboInOwl:hasExactSynonym "small nuclear RNA gene"^^xsd:string, "snRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001268"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from ncRNA_gene to sncRNA_gene 27 April 2021 to be more consistent with the organization of the ncRNA branch of SO. Requested by FlyBase, moved by Dave Sant. See GitHub Issue #514."^^xsd:string ; rdfs:label "snRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002342 . obo:SO_0001269 obo:IAO_0000115 "A noncoding RNA that binds to the ribosome to halt protein synthesis when the signal peptide is present."^^xsd:string ; oboInOwl:hasExactSynonym "SRP RNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001269"^^xsd:string ; a owl:Class ; rdfs:label "SRP_RNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000642 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001263 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000642 ] ) ] . obo:SO_0001270 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001265 ; a owl:Class ; owl:deprecated true . obo:SO_0001271 obo:IAO_0000115 "A bacterial RNA with both tRNA and mRNA like properties."^^xsd:string ; oboInOwl:hasExactSynonym "tmRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001271"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from ncRNA_gene to sncRNA_gene 27 April 2021 to be more consistent with the organization of the ncRNA branch of SO. Requested by FlyBase, moved by Dave Sant. See GitHub Issue #514."^^xsd:string ; rdfs:label "tmRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002342, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000659 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0002342 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000659 ] ) ] . obo:SO_0001272 obo:IAO_0000115 "A noncoding RNA that binds to a specific amino acid to allow that amino acid to be used by the ribosome during translation of RNA."^^xsd:string ; oboInOwl:hasExactSynonym "tRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001272"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from ncRNA_gene to sncRNA_gene 27 April 2021 to be more consistent with the organization of the ncRNA branch of SO. Requested by FlyBase, moved by Dave Sant. See GitHub Issue #514."^^xsd:string ; rdfs:label "tRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002342, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000663 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0002342 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000663 ] ) ] . obo:SO_0001273 obo:IAO_0000115 "A modified adenine is an adenine base feature that has been altered."^^xsd:string ; oboInOwl:hasExactSynonym "modified adenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001273"^^xsd:string ; a owl:Class ; rdfs:label "modified_adenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001274 obo:IAO_0000115 "A modified inosine is an inosine base feature that has been altered."^^xsd:string ; oboInOwl:hasExactSynonym "modified inosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001274"^^xsd:string ; a owl:Class ; rdfs:label "modified_inosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001230 . obo:SO_0001275 obo:IAO_0000115 "A modified cytidine is a cytidine base feature which has been altered."^^xsd:string ; oboInOwl:hasExactSynonym "modified cytidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001275"^^xsd:string ; a owl:Class ; rdfs:label "modified_cytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001276 obo:IAO_0000115 "A guanosine base that has been modified."^^xsd:string ; oboInOwl:hasExactSynonym "modified guanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001276"^^xsd:string ; a owl:Class ; rdfs:label "modified_guanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001277 obo:IAO_0000115 "A uridine base that has been modified."^^xsd:string ; oboInOwl:hasExactSynonym "modified uridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001277"^^xsd:string ; a owl:Class ; rdfs:label "modified_uridine"^^xsd:string ; rdfs:subClassOf obo:SO_0000250 . obo:SO_0001278 obo:IAO_0000115 "1-methylinosine is a modified inosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:018"^^xsd:string ; oboInOwl:hasExactSynonym "1-methylinosine"^^xsd:string, "m1I"^^xsd:string, "one methylinosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001278"^^xsd:string ; a owl:Class ; rdfs:label "one_methylinosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001274 . obo:SO_0001279 obo:IAO_0000115 "1,2'-O-dimethylinosine is a modified inosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:019"^^xsd:string ; oboInOwl:hasExactSynonym "1,2'-O-dimethylinosine"^^xsd:string, "m'Im"^^xsd:string, "one two prime O dimethylinosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001279"^^xsd:string ; a owl:Class ; rdfs:label "one_two_prime_O_dimethylinosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001274 . obo:SO_0001280 obo:IAO_0000115 "2'-O-methylinosine is a modified inosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:081"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-methylinosine"^^xsd:string, "Im"^^xsd:string, "two prime O methylinosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001280"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_methylinosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001274 . obo:SO_0001281 obo:IAO_0000115 "3-methylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:020"^^xsd:string ; oboInOwl:hasExactSynonym "3-methylcytidine"^^xsd:string, "m3C"^^xsd:string, "three methylcytidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001281"^^xsd:string ; a owl:Class ; rdfs:label "three_methylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001282 obo:IAO_0000115 "5-methylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:021"^^xsd:string ; oboInOwl:hasExactSynonym "5-methylcytidine"^^xsd:string, "five methylcytidine"^^xsd:string, "m5C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001282"^^xsd:string ; a owl:Class ; rdfs:label "five_methylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001283 obo:IAO_0000115 "2'-O-methylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:022"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-methylcytidine"^^xsd:string, "Cm"^^xsd:string, "two prime O methylcytidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001283"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_methylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001284 obo:IAO_0000115 "2-thiocytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:023"^^xsd:string ; oboInOwl:hasExactSynonym "2-thiocytidine"^^xsd:string, "s2C"^^xsd:string, "two thiocytidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001284"^^xsd:string ; a owl:Class ; rdfs:label "two_thiocytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001285 obo:IAO_0000115 "N4-acetylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:024"^^xsd:string ; oboInOwl:hasExactSynonym "N4 acetylcytidine"^^xsd:string, "N4-acetylcytidine"^^xsd:string, "ac4C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001285"^^xsd:string ; a owl:Class ; rdfs:label "N4_acetylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001286 obo:IAO_0000115 "5-formylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:025"^^xsd:string ; oboInOwl:hasExactSynonym "5-formylcytidine"^^xsd:string, "f5C"^^xsd:string, "five formylcytidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001286"^^xsd:string ; a owl:Class ; rdfs:label "five_formylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001287 obo:IAO_0000115 "5,2'-O-dimethylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:026"^^xsd:string ; oboInOwl:hasExactSynonym "5,2'-O-dimethylcytidine"^^xsd:string, "five two prime O dimethylcytidine"^^xsd:string, "m5Cm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001287"^^xsd:string ; a owl:Class ; rdfs:label "five_two_prime_O_dimethylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001288 obo:IAO_0000115 "N4-acetyl-2'-O-methylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:027"^^xsd:string ; oboInOwl:hasExactSynonym "N4 acetyl 2 prime O methylcytidine"^^xsd:string, "N4-acetyl-2'-O-methylcytidine"^^xsd:string, "ac4Cm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001288"^^xsd:string ; a owl:Class ; rdfs:label "N4_acetyl_2_prime_O_methylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001289 obo:IAO_0000115 "Lysidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:028"^^xsd:string, "http://en.wikipedia.org/wiki/Lysidine"^^xsd:string ; oboInOwl:hasExactSynonym "k2C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001289"^^xsd:string ; a owl:Class ; rdfs:label "lysidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001290 obo:IAO_0000115 "N4-methylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:082"^^xsd:string ; oboInOwl:hasExactSynonym "N4 methylcytidine"^^xsd:string, "N4-methylcytidine"^^xsd:string, "m4C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001290"^^xsd:string ; a owl:Class ; rdfs:label "N4_methylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001291 obo:IAO_0000115 "N4,2'-O-dimethylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:083"^^xsd:string ; oboInOwl:hasExactSynonym "N4 2 prime O dimethylcytidine"^^xsd:string, "N4,2'-O-dimethylcytidine"^^xsd:string, "m4Cm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001291"^^xsd:string ; a owl:Class ; rdfs:label "N4_2_prime_O_dimethylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001292 obo:IAO_0000115 "5-hydroxymethylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:084"^^xsd:string ; oboInOwl:hasExactSynonym "5-hydroxymethylcytidine"^^xsd:string, "five hydroxymethylcytidine"^^xsd:string, "hm5C"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001292"^^xsd:string ; a owl:Class ; rdfs:label "five_hydroxymethylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001293 obo:IAO_0000115 "5-formyl-2'-O-methylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:095"^^xsd:string ; oboInOwl:hasExactSynonym "5-formyl-2'-O-methylcytidine"^^xsd:string, "f5Cm"^^xsd:string, "five formyl two prime O methylcytidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001293"^^xsd:string ; a owl:Class ; rdfs:label "five_formyl_two_prime_O_methylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001294 obo:IAO_0000115 "N4_N4_2_prime_O_trimethylcytidine is a modified cytidine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:107"^^xsd:string ; oboInOwl:hasExactSynonym "N4,N4,2'-O-trimethylcytidine"^^xsd:string, "m42Cm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001294"^^xsd:string ; a owl:Class ; rdfs:label "N4_N4_2_prime_O_trimethylcytidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001275 . obo:SO_0001295 obo:IAO_0000115 "1_methyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:001"^^xsd:string ; oboInOwl:hasExactSynonym "1-methyladenosine"^^xsd:string, "m1A"^^xsd:string, "one methyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001295"^^xsd:string ; a owl:Class ; rdfs:label "one_methyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001296 obo:IAO_0000115 "2_methyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:002"^^xsd:string ; oboInOwl:hasExactSynonym "2-methyladenosine"^^xsd:string, "m2A"^^xsd:string, "two methyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001296"^^xsd:string ; a owl:Class ; rdfs:label "two_methyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001297 obo:IAO_0000115 "N6_methyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:003"^^xsd:string ; oboInOwl:hasExactSynonym "N6 methyladenosine"^^xsd:string, "N6-methyladenosine"^^xsd:string, "m6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001297"^^xsd:string ; a owl:Class ; rdfs:label "N6_methyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001298 obo:IAO_0000115 "2prime_O_methyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:004"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-methyladenosine"^^xsd:string, "Am"^^xsd:string, "two prime O methyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001298"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_methyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001299 obo:IAO_0000115 "2_methylthio_N6_methyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:005"^^xsd:string ; oboInOwl:hasExactSynonym "2-methylthio-N6-methyladenosine"^^xsd:string, "ms2m6A"^^xsd:string, "two methylthio N6 methyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001299"^^xsd:string ; a owl:Class ; rdfs:label "two_methylthio_N6_methyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001300 obo:IAO_0000115 "N6_isopentenyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:006"^^xsd:string ; oboInOwl:hasExactSynonym "N6 isopentenyladenosine"^^xsd:string, "N6-isopentenyladenosine"^^xsd:string, "i6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001300"^^xsd:string ; a owl:Class ; rdfs:label "N6_isopentenyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001301 obo:IAO_0000115 "2_methylthio_N6_isopentenyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:007"^^xsd:string ; oboInOwl:hasExactSynonym "2-methylthio-N6-isopentenyladenosine"^^xsd:string, "ms2i6A"^^xsd:string, "two methylthio N6 isopentenyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001301"^^xsd:string ; a owl:Class ; rdfs:label "two_methylthio_N6_isopentenyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001302 obo:IAO_0000115 "N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:008"^^xsd:string ; oboInOwl:hasExactSynonym "N6 cis hydroxyisopentenyl adenosine"^^xsd:string, "N6-(cis-hydroxyisopentenyl)adenosine"^^xsd:string, "io6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001302"^^xsd:string ; a owl:Class ; rdfs:label "N6_cis_hydroxyisopentenyl_adenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001303 obo:IAO_0000115 "2_methylthio_N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:009"^^xsd:string ; oboInOwl:hasExactSynonym "2-methylthio-N6-(cis-hydroxyisopentenyl) adenosine"^^xsd:string, "ms2io6A"^^xsd:string, "two methylthio N6 cis hydroxyisopentenyl adenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001303"^^xsd:string ; a owl:Class ; rdfs:label "two_methylthio_N6_cis_hydroxyisopentenyl_adenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001304 obo:IAO_0000115 "N6_glycinylcarbamoyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:010"^^xsd:string ; oboInOwl:hasExactSynonym "N6 glycinylcarbamoyladenosine"^^xsd:string, "N6-glycinylcarbamoyladenosine"^^xsd:string, "g6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001304"^^xsd:string ; a owl:Class ; rdfs:label "N6_glycinylcarbamoyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001305 obo:IAO_0000115 "N6_threonylcarbamoyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:011"^^xsd:string ; oboInOwl:hasExactSynonym "N6 threonylcarbamoyladenosine"^^xsd:string, "N6-threonylcarbamoyladenosine"^^xsd:string, "t6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001305"^^xsd:string ; a owl:Class ; rdfs:label "N6_threonylcarbamoyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001306 obo:IAO_0000115 "2_methylthio_N6_threonyl_carbamoyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:012"^^xsd:string ; oboInOwl:hasExactSynonym "2-methylthio-N6-threonyl carbamoyladenosine"^^xsd:string, "ms2t6A"^^xsd:string, "two methylthio N6 threonyl carbamoyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001306"^^xsd:string ; a owl:Class ; rdfs:label "two_methylthio_N6_threonyl_carbamoyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001307 obo:IAO_0000115 "N6_methyl_N6_threonylcarbamoyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:013"^^xsd:string ; oboInOwl:hasExactSynonym "N6 methyl N6 threonylcarbamoyladenosine"^^xsd:string, "N6-methyl-N6-threonylcarbamoyladenosine"^^xsd:string, "m6t6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001307"^^xsd:string ; a owl:Class ; rdfs:label "N6_methyl_N6_threonylcarbamoyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001308 obo:IAO_0000115 "N6_hydroxynorvalylcarbamoyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:014"^^xsd:string ; oboInOwl:hasExactSynonym "N6 hydroxynorvalylcarbamoyladenosine"^^xsd:string, "N6-hydroxynorvalylcarbamoyladenosine"^^xsd:string, "hn6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001308"^^xsd:string ; a owl:Class ; rdfs:label "N6_hydroxynorvalylcarbamoyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001309 obo:IAO_0000115 "2_methylthio_N6_hydroxynorvalyl_carbamoyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:015"^^xsd:string ; oboInOwl:hasExactSynonym "2-methylthio-N6-hydroxynorvalyl carbamoyladenosine"^^xsd:string, "ms2hn6A"^^xsd:string, "two methylthio N6 hydroxynorvalyl carbamoyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001309"^^xsd:string ; a owl:Class ; rdfs:label "two_methylthio_N6_hydroxynorvalyl_carbamoyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001310 obo:IAO_0000115 "2prime_O_ribosyladenosine_phosphate is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:016"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-ribosyladenosine (phosphate)"^^xsd:string, "Ar(p)"^^xsd:string, "two prime O ribosyladenosine phosphate"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001310"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_ribosyladenosine_phosphate"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001311 obo:IAO_0000115 "N6_N6_dimethyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:080"^^xsd:string ; oboInOwl:hasExactSynonym "N6,N6-dimethyladenosine"^^xsd:string, "m62A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001311"^^xsd:string ; a owl:Class ; rdfs:label "N6_N6_dimethyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001312 obo:IAO_0000115 "N6_2prime_O_dimethyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:088"^^xsd:string ; oboInOwl:hasExactSynonym "N6 2 prime O dimethyladenosine"^^xsd:string, "N6,2'-O-dimethyladenosine"^^xsd:string, "m6Am"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001312"^^xsd:string ; a owl:Class ; rdfs:label "N6_2_prime_O_dimethyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001313 obo:IAO_0000115 "N6_N6_2prime_O_trimethyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:089"^^xsd:string ; oboInOwl:hasExactSynonym "N6,N6,2'-O-trimethyladenosine"^^xsd:string, "m62Am"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001313"^^xsd:string ; a owl:Class ; rdfs:label "N6_N6_2_prime_O_trimethyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001314 obo:IAO_0000115 "1,2'-O-dimethyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:097"^^xsd:string ; oboInOwl:hasExactSynonym "1,2'-O-dimethyladenosine"^^xsd:string, "m1Am"^^xsd:string, "one two prime O dimethyladenosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001314"^^xsd:string ; a owl:Class ; rdfs:label "one_two_prime_O_dimethyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001315 obo:IAO_0000115 "N6_acetyladenosine is a modified adenosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:102"^^xsd:string ; oboInOwl:hasExactSynonym "N6 acetyladenosine"^^xsd:string, "N6-acetyladenosine"^^xsd:string, "ac6A"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001315"^^xsd:string ; a owl:Class ; rdfs:label "N6_acetyladenosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001273 . obo:SO_0001316 obo:IAO_0000115 "7-deazaguanosine is a modified guanosine."^^xsd:string ; oboInOwl:hasExactSynonym "seven deazaguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "7-deazaguanosine"^^xsd:string ; oboInOwl:id "SO:0001316"^^xsd:string ; a owl:Class ; rdfs:label "seven_deazaguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001317 obo:IAO_0000115 "Queuosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:043"^^xsd:string, "http://en.wikipedia.org/wiki/Queuosine"^^xsd:string ; oboInOwl:hasExactSynonym " Q"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001317"^^xsd:string ; a owl:Class ; rdfs:label "queuosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001318 obo:IAO_0000115 "Epoxyqueuosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:044"^^xsd:string ; oboInOwl:hasExactSynonym "eQ"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001318"^^xsd:string ; a owl:Class ; rdfs:label "epoxyqueuosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001319 obo:IAO_0000115 "Galactosyl_queuosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:045"^^xsd:string ; oboInOwl:hasExactSynonym "galQ"^^xsd:string, "galactosyl queuosine"^^xsd:string, "galactosyl-queuosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001319"^^xsd:string ; a owl:Class ; rdfs:label "galactosyl_queuosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001320 obo:IAO_0000115 "Mannosyl_queuosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:046"^^xsd:string ; oboInOwl:hasExactSynonym "manQ"^^xsd:string, "mannosyl queuosine"^^xsd:string, "mannosyl-queuosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001320"^^xsd:string ; a owl:Class ; rdfs:label "mannosyl_queuosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001321 obo:IAO_0000115 "7_cyano_7_deazaguanosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:047"^^xsd:string ; oboInOwl:hasExactSynonym "7-cyano-7-deazaguanosine"^^xsd:string, "preQ0"^^xsd:string, "seven cyano seven deazaguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001321"^^xsd:string ; a owl:Class ; rdfs:label "seven_cyano_seven_deazaguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001322 obo:IAO_0000115 "7_aminomethyl_7_deazaguanosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:048"^^xsd:string ; oboInOwl:hasExactSynonym "7-aminomethyl-7-deazaguanosine"^^xsd:string, "preQ1"^^xsd:string, "seven aminomethyl seven deazaguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001322"^^xsd:string ; a owl:Class ; rdfs:label "seven_aminomethyl_seven_deazaguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001323 obo:IAO_0000115 "Archaeosine is a modified 7-deazoguanosine."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:049"^^xsd:string ; oboInOwl:hasExactSynonym "G+"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001323"^^xsd:string ; a owl:Class ; rdfs:label "archaeosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001316 . obo:SO_0001324 obo:IAO_0000115 "1_methylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:029"^^xsd:string ; oboInOwl:hasExactSynonym "1-methylguanosine"^^xsd:string, "m1G"^^xsd:string, "one methylguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001324"^^xsd:string ; a owl:Class ; rdfs:label "one_methylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001325 obo:IAO_0000115 "N2_methylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:030"^^xsd:string ; oboInOwl:hasExactSynonym "N2 methylguanosine"^^xsd:string, "N2-methylguanosine"^^xsd:string, "m2G"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001325"^^xsd:string ; a owl:Class ; rdfs:label "N2_methylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001326 obo:IAO_0000115 "7_methylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:031"^^xsd:string ; oboInOwl:hasExactSynonym "7-methylguanosine"^^xsd:string, "m7G"^^xsd:string, "seven methylguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001326"^^xsd:string ; a owl:Class ; rdfs:label "seven_methylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001327 obo:IAO_0000115 "2prime_O_methylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:032"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-methylguanosine"^^xsd:string, "Gm"^^xsd:string, "two prime O methylguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001327"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_methylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001328 obo:IAO_0000115 "N2_N2_dimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:033"^^xsd:string ; oboInOwl:hasExactSynonym "N2,N2-dimethylguanosine"^^xsd:string, "m22G"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001328"^^xsd:string ; a owl:Class ; rdfs:label "N2_N2_dimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001329 obo:IAO_0000115 "N2_2prime_O_dimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:034"^^xsd:string ; oboInOwl:hasExactSynonym "N2 2 prime O dimethylguanosine"^^xsd:string, "N2,2'-O-dimethylguanosine"^^xsd:string, "m2Gm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001329"^^xsd:string ; a owl:Class ; rdfs:label "N2_2_prime_O_dimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001330 obo:IAO_0000115 "N2_N2_2prime_O_trimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:035"^^xsd:string ; oboInOwl:hasExactSynonym "N2,N2,2'-O-trimethylguanosine"^^xsd:string, "m22Gmv"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001330"^^xsd:string ; a owl:Class ; rdfs:label "N2_N2_2_prime_O_trimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001331 obo:IAO_0000115 "2prime_O_ribosylguanosine_phosphate is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:036"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-ribosylguanosine (phosphate)"^^xsd:string, "Gr(p)"^^xsd:string, "two prime O ribosylguanosine phosphate"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001331"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_ribosylguanosine_phosphate"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001332 obo:IAO_0000115 "Wybutosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:037"^^xsd:string ; oboInOwl:hasExactSynonym "yW"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001332"^^xsd:string ; a owl:Class ; rdfs:label "wybutosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001333 obo:IAO_0000115 "Peroxywybutosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:038"^^xsd:string ; oboInOwl:hasExactSynonym "o2yW"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001333"^^xsd:string ; a owl:Class ; rdfs:label "peroxywybutosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001334 obo:IAO_0000115 "Hydroxywybutosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:039"^^xsd:string ; oboInOwl:hasExactSynonym "OHyW"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001334"^^xsd:string ; a owl:Class ; rdfs:label "hydroxywybutosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001335 obo:IAO_0000115 "Undermodified_hydroxywybutosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:040"^^xsd:string ; oboInOwl:hasExactSynonym "OHyW*"^^xsd:string, "undermodified hydroxywybutosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001335"^^xsd:string ; a owl:Class ; rdfs:label "undermodified_hydroxywybutosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001336 obo:IAO_0000115 "Wyosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:041"^^xsd:string ; oboInOwl:hasExactSynonym "IMG"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001336"^^xsd:string ; a owl:Class ; rdfs:label "wyosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001337 obo:IAO_0000115 "Methylwyosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:042"^^xsd:string ; oboInOwl:hasExactSynonym "mimG"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001337"^^xsd:string ; a owl:Class ; rdfs:label "methylwyosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001338 obo:IAO_0000115 "N2_7_dimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:090"^^xsd:string ; oboInOwl:hasExactSynonym "N2 7 dimethylguanosine"^^xsd:string, "N2,7-dimethylguanosine"^^xsd:string, "m2,7G"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001338"^^xsd:string ; a owl:Class ; rdfs:label "N2_7_dimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001339 obo:IAO_0000115 "N2_N2_7_trimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:091"^^xsd:string ; oboInOwl:hasExactSynonym "N2,N2,7-trimethylguanosine"^^xsd:string, "m2,2,7G"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001339"^^xsd:string ; a owl:Class ; rdfs:label "N2_N2_7_trimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001340 obo:IAO_0000115 "1_2prime_O_dimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:096"^^xsd:string ; oboInOwl:hasExactSynonym "1,2'-O-dimethylguanosine"^^xsd:string, "m1Gm"^^xsd:string, "one two prime O dimethylguanosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001340"^^xsd:string ; a owl:Class ; rdfs:label "one_two_prime_O_dimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001341 obo:IAO_0000115 "4_demethylwyosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:100"^^xsd:string ; oboInOwl:hasExactSynonym "4-demethylwyosine"^^xsd:string, "four demethylwyosine"^^xsd:string, "imG-14"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001341"^^xsd:string ; a owl:Class ; rdfs:label "four_demethylwyosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001342 obo:IAO_0000115 "Isowyosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:101"^^xsd:string ; oboInOwl:hasExactSynonym "imG2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001342"^^xsd:string ; a owl:Class ; rdfs:label "isowyosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001343 obo:IAO_0000115 "N2_7_2prirme_O_trimethylguanosine is a modified guanosine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:106"^^xsd:string ; oboInOwl:hasExactSynonym "N2 7 2prirme O trimethylguanosine"^^xsd:string, "N2,7,2'-O-trimethylguanosine"^^xsd:string, "m2,7Gm"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001343"^^xsd:string ; a owl:Class ; rdfs:label "N2_7_2prirme_O_trimethylguanosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001276 . obo:SO_0001344 obo:IAO_0000115 "5_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:052"^^xsd:string, "http://en.wikipedia.org/wiki/5-methyluridine"^^xsd:string ; oboInOwl:hasExactSynonym "5-methyluridine"^^xsd:string, "five methyluridine"^^xsd:string, "m5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001344"^^xsd:string ; a owl:Class ; rdfs:label "five_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001345 obo:IAO_0000115 "2prime_O_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:053"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-methyluridine"^^xsd:string, "Um"^^xsd:string, "two prime O methyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001345"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001346 obo:IAO_0000115 "5_2_prime_O_dimethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:054"^^xsd:string ; oboInOwl:hasExactSynonym "5,2'-O-dimethyluridine"^^xsd:string, "five two prime O dimethyluridine"^^xsd:string, "m5Um"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001346"^^xsd:string ; a owl:Class ; rdfs:label "five_two_prime_O_dimethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001347 obo:IAO_0000115 "1_methylpseudouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:055"^^xsd:string ; oboInOwl:hasExactSynonym "1-methylpseudouridine"^^xsd:string, "m1Y"^^xsd:string, "one methylpseudouridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001347"^^xsd:string ; a owl:Class ; rdfs:label "one_methylpseudouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001348 obo:IAO_0000115 "2prime_O_methylpseudouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:056"^^xsd:string ; oboInOwl:hasExactSynonym "2'-O-methylpseudouridine"^^xsd:string, "Ym"^^xsd:string, "two prime O methylpseudouridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001348"^^xsd:string ; a owl:Class ; rdfs:label "two_prime_O_methylpseudouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001349 obo:IAO_0000115 "2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:057"^^xsd:string ; oboInOwl:hasExactSynonym "2-thiouridine"^^xsd:string, "s2U"^^xsd:string, "two thiouridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001349"^^xsd:string ; a owl:Class ; rdfs:label "two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001350 obo:IAO_0000115 "4_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:058"^^xsd:string ; oboInOwl:hasExactSynonym "4-thiouridine"^^xsd:string, "four thiouridine"^^xsd:string, "s4U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001350"^^xsd:string ; a owl:Class ; rdfs:label "four_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001351 obo:IAO_0000115 "5_methyl_2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:059"^^xsd:string ; oboInOwl:hasExactSynonym "5-methyl-2-thiouridine"^^xsd:string, "five methyl 2 thiouridine"^^xsd:string, "m5s2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001351"^^xsd:string ; a owl:Class ; rdfs:label "five_methyl_2_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001352 obo:IAO_0000115 "2_thio_2prime_O_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:060"^^xsd:string ; oboInOwl:hasExactSynonym "2-thio-2'-O-methyluridine"^^xsd:string, "s2Um"^^xsd:string, "two thio two prime O methyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001352"^^xsd:string ; a owl:Class ; rdfs:label "two_thio_two_prime_O_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001353 obo:IAO_0000115 "3_3_amino_3_carboxypropyl_uridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:061"^^xsd:string ; oboInOwl:hasExactSynonym "3-(3-amino-3-carboxypropyl)uridine"^^xsd:string, "acp3U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001353"^^xsd:string ; a owl:Class ; rdfs:label "three_three_amino_three_carboxypropyl_uridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001354 obo:IAO_0000115 "5_hydroxyuridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:060"^^xsd:string ; oboInOwl:hasExactSynonym "5-hydroxyuridine"^^xsd:string, "five hydroxyuridine"^^xsd:string, "ho5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001354"^^xsd:string ; a owl:Class ; rdfs:label "five_hydroxyuridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001355 obo:IAO_0000115 "5_methoxyuridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:063"^^xsd:string ; oboInOwl:hasExactSynonym "5-methoxyuridine"^^xsd:string, "five methoxyuridine"^^xsd:string, "mo5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001355"^^xsd:string ; a owl:Class ; rdfs:label "five_methoxyuridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001356 obo:IAO_0000115 "Uridine_5_oxyacetic_acid is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:064"^^xsd:string ; oboInOwl:hasExactSynonym "cmo5U"^^xsd:string, "uridine 5-oxyacetic acid"^^xsd:string, "uridine five oxyacetic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001356"^^xsd:string ; a owl:Class ; rdfs:label "uridine_five_oxyacetic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001357 obo:IAO_0000115 "Uridine_5_oxyacetic_acid_methyl_ester is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:065"^^xsd:string ; oboInOwl:hasExactSynonym "mcmo5U"^^xsd:string, "uridine 5-oxyacetic acid methyl ester"^^xsd:string, "uridine five oxyacetic acid methyl ester"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001357"^^xsd:string ; a owl:Class ; rdfs:label "uridine_five_oxyacetic_acid_methyl_ester"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001358 obo:IAO_0000115 "5_carboxyhydroxymethyl_uridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:066"^^xsd:string ; oboInOwl:hasExactSynonym "5-(carboxyhydroxymethyl)uridine"^^xsd:string, "chm5U"^^xsd:string, "five carboxyhydroxymethyl uridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001358"^^xsd:string ; a owl:Class ; rdfs:label "five_carboxyhydroxymethyl_uridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001359 obo:IAO_0000115 "5_carboxyhydroxymethyl_uridine_methyl_ester is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:067"^^xsd:string ; oboInOwl:hasExactSynonym "5-(carboxyhydroxymethyl)uridine methyl ester"^^xsd:string, "five carboxyhydroxymethyl uridine methyl ester"^^xsd:string, "mchm5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001359"^^xsd:string ; a owl:Class ; rdfs:label "five_carboxyhydroxymethyl_uridine_methyl_ester"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001360 obo:IAO_0000115 "Five_methoxycarbonylmethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:068"^^xsd:string ; oboInOwl:hasExactSynonym "5-methoxycarbonylmethyluridine"^^xsd:string, "five methoxycarbonylmethyluridine"^^xsd:string, "mcm5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001360"^^xsd:string ; a owl:Class ; rdfs:label "five_methoxycarbonylmethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001361 obo:IAO_0000115 "Five_methoxycarbonylmethyl_2_prime_O_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:069"^^xsd:string ; oboInOwl:hasExactSynonym "5-methoxycarbonylmethyl-2'-O-methyluridine"^^xsd:string, "five methoxycarbonylmethyl two prime O methyluridine"^^xsd:string, "mcm5Um"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001361"^^xsd:string ; a owl:Class ; rdfs:label "five_methoxycarbonylmethyl_two_prime_O_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001362 obo:IAO_0000115 "5_methoxycarbonylmethyl_2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:070"^^xsd:string ; oboInOwl:hasExactSynonym "5-methoxycarbonylmethyl-2-thiouridine"^^xsd:string, "five methoxycarbonylmethyl two thiouridine"^^xsd:string, "mcm5s2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001362"^^xsd:string ; a owl:Class ; rdfs:label "five_methoxycarbonylmethyl_two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001363 obo:IAO_0000115 "5_aminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:071"^^xsd:string ; oboInOwl:hasExactSynonym "5-aminomethyl-2-thiouridine"^^xsd:string, "five aminomethyl two thiouridine"^^xsd:string, "nm5s2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001363"^^xsd:string ; a owl:Class ; rdfs:label "five_aminomethyl_two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001364 obo:IAO_0000115 "5_methylaminomethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:072"^^xsd:string ; oboInOwl:hasExactSynonym "5-methylaminomethyluridine"^^xsd:string, "five methylaminomethyluridine"^^xsd:string, "mnm5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001364"^^xsd:string ; a owl:Class ; rdfs:label "five_methylaminomethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001365 obo:IAO_0000115 "5_methylaminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:073"^^xsd:string ; oboInOwl:hasExactSynonym "5-methylaminomethyl-2-thiouridine"^^xsd:string, "five methylaminomethyl two thiouridine"^^xsd:string, "mnm5s2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001365"^^xsd:string ; a owl:Class ; rdfs:label "five_methylaminomethyl_two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001366 obo:IAO_0000115 "5_methylaminomethyl_2_selenouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:074"^^xsd:string ; oboInOwl:hasExactSynonym "5-methylaminomethyl-2-selenouridine"^^xsd:string, "five methylaminomethyl two selenouridine"^^xsd:string, "mnm5se2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001366"^^xsd:string ; a owl:Class ; rdfs:label "five_methylaminomethyl_two_selenouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001367 obo:IAO_0000115 "5_carbamoylmethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:075"^^xsd:string ; oboInOwl:hasExactSynonym "5-carbamoylmethyluridine"^^xsd:string, "five carbamoylmethyluridine"^^xsd:string, "ncm5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001367"^^xsd:string ; a owl:Class ; rdfs:label "five_carbamoylmethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001368 obo:IAO_0000115 "5_carbamoylmethyl_2_prime_O_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:076"^^xsd:string ; oboInOwl:hasExactSynonym "5-carbamoylmethyl-2'-O-methyluridine"^^xsd:string, "five carbamoylmethyl two prime O methyluridine"^^xsd:string, "ncm5Um"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001368"^^xsd:string ; a owl:Class ; rdfs:label "five_carbamoylmethyl_two_prime_O_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001369 obo:IAO_0000115 "5_carboxymethylaminomethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:077"^^xsd:string ; oboInOwl:hasExactSynonym "5-carboxymethylaminomethyluridine"^^xsd:string, "cmnm5U"^^xsd:string, "five carboxymethylaminomethyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001369"^^xsd:string ; a owl:Class ; rdfs:label "five_carboxymethylaminomethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001370 obo:IAO_0000115 "5_carboxymethylaminomethyl_2_prime_O_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:078"^^xsd:string ; oboInOwl:hasExactSynonym "5-carboxymethylaminomethyl- 2'-O-methyluridine"^^xsd:string, "cmnm5Um"^^xsd:string, "five carboxymethylaminomethyl two prime O methyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001370"^^xsd:string ; a owl:Class ; rdfs:label "five_carboxymethylaminomethyl_two_prime_O_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001371 obo:IAO_0000115 "5_carboxymethylaminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:079"^^xsd:string ; oboInOwl:hasExactSynonym "5-carboxymethylaminomethyl-2-thiouridine"^^xsd:string, "cmnm5s2U"^^xsd:string, "five carboxymethylaminomethyl two thiouridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001371"^^xsd:string ; a owl:Class ; rdfs:label "five_carboxymethylaminomethyl_two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001372 obo:IAO_0000115 "3_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:085"^^xsd:string ; oboInOwl:hasExactSynonym "3-methyluridine"^^xsd:string, "m3U"^^xsd:string, "three methyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001372"^^xsd:string ; a owl:Class ; rdfs:label "three_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001373 obo:IAO_0000115 "1_methyl_3_3_amino_3_carboxypropyl_pseudouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:086"^^xsd:string ; oboInOwl:hasExactSynonym "1-methyl-3-(3-amino-3-carboxypropyl) pseudouridine"^^xsd:string, "m1acp3Y"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001373"^^xsd:string ; a owl:Class ; rdfs:label "one_methyl_three_three_amino_three_carboxypropyl_pseudouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001374 obo:IAO_0000115 "5_carboxymethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:087"^^xsd:string ; oboInOwl:hasExactSynonym "5-carboxymethyluridine"^^xsd:string, "cm5U"^^xsd:string, "five carboxymethyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001374"^^xsd:string ; a owl:Class ; rdfs:label "five_carboxymethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001375 obo:IAO_0000115 "3_2prime_O_dimethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:092"^^xsd:string ; oboInOwl:hasExactSynonym "3,2'-O-dimethyluridine"^^xsd:string, "m3Um"^^xsd:string, "three two prime O dimethyluridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001375"^^xsd:string ; a owl:Class ; rdfs:label "three_two_prime_O_dimethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001376 obo:IAO_0000115 "5_methyldihydrouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:093"^^xsd:string ; oboInOwl:hasExactSynonym "5-methyldihydrouridine"^^xsd:string, "five methyldihydrouridine"^^xsd:string, "m5D"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001376"^^xsd:string ; a owl:Class ; rdfs:label "five_methyldihydrouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001377 obo:IAO_0000115 "3_methylpseudouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:094"^^xsd:string ; oboInOwl:hasExactSynonym "3-methylpseudouridine"^^xsd:string, "m3Y"^^xsd:string, "three methylpseudouridine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001377"^^xsd:string ; a owl:Class ; rdfs:label "three_methylpseudouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001378 obo:IAO_0000115 "5_taurinomethyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:098"^^xsd:string ; oboInOwl:hasExactSynonym "5-taurinomethyluridine"^^xsd:string, "five taurinomethyluridine"^^xsd:string, "tm5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001378"^^xsd:string ; a owl:Class ; rdfs:label "five_taurinomethyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001379 obo:IAO_0000115 "5_taurinomethyl_2_thiouridineis a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:099"^^xsd:string ; oboInOwl:hasExactSynonym "5-taurinomethyl-2-thiouridine"^^xsd:string, "five taurinomethyl two thiouridine"^^xsd:string, "tm5s2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001379"^^xsd:string ; a owl:Class ; rdfs:label "five_taurinomethyl_two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001380 obo:IAO_0000115 "5_isopentenylaminomethyl_uridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:103"^^xsd:string ; oboInOwl:hasExactSynonym "5-(isopentenylaminomethyl)uridine"^^xsd:string, "five isopentenylaminomethyl uridine"^^xsd:string, "inm5U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001380"^^xsd:string ; a owl:Class ; rdfs:label "five_isopentenylaminomethyl_uridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001381 obo:IAO_0000115 "5_isopentenylaminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:104"^^xsd:string ; oboInOwl:hasExactSynonym "5-(isopentenylaminomethyl)- 2-thiouridine"^^xsd:string, "five isopentenylaminomethyl two thiouridine"^^xsd:string, "inm5s2U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001381"^^xsd:string ; a owl:Class ; rdfs:label "five_isopentenylaminomethyl_two_thiouridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001382 obo:IAO_0000115 "5_isopentenylaminomethyl_2prime_O_methyluridine is a modified uridine base feature."^^xsd:string ; oboInOwl:hasDbXref "RNAMOD:105"^^xsd:string ; oboInOwl:hasExactSynonym "5-(isopentenylaminomethyl)- 2'-O-methyluridine"^^xsd:string, "five isopentenylaminomethyl two prime O methyluridine"^^xsd:string, "inm5Um"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001382"^^xsd:string ; a owl:Class ; rdfs:label "five_isopentenylaminomethyl_two_prime_O_methyluridine"^^xsd:string ; rdfs:subClassOf obo:SO_0001277 . obo:SO_0001383 obo:IAO_0000115 "A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a histone."^^xsd:string ; oboInOwl:hasExactSynonym "histone binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001383"^^xsd:string ; a owl:Class ; rdfs:label "histone_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001654 . obo:SO_0001384 obo:IAO_0000115 "A portion of a CDS that is not the complete CDS."^^xsd:string ; oboInOwl:hasExactSynonym "CDS fragment"^^xsd:string, "incomplete CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001384"^^xsd:string ; a owl:Class ; rdfs:label "CDS_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000316, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000731 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000316 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000731 ] ) ] . obo:SO_0001385 obo:IAO_0000115 "A post translationally modified amino acid feature."^^xsd:string ; oboInOwl:hasExactSynonym "modified amino acid feature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001385"^^xsd:string ; a owl:Class ; rdfs:label "modified_amino_acid_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001386 obo:IAO_0000115 "A post translationally modified glycine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00908"^^xsd:string ; oboInOwl:hasExactSynonym "ModGly"^^xsd:string, "modified glycine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001386"^^xsd:string ; a owl:Class ; rdfs:label "modified_glycine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001387 obo:IAO_0000115 "A post translationally modified alanine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00901"^^xsd:string ; oboInOwl:hasExactSynonym "ModAla"^^xsd:string, "modified L alanine"^^xsd:string, "modified L-alanine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001387"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_alanine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001388 obo:IAO_0000115 "A post translationally modified asparagine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00903"^^xsd:string ; oboInOwl:hasExactSynonym "ModAsn"^^xsd:string, "modified L asparagine"^^xsd:string, "modified L-asparagine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001388"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_asparagine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001389 obo:IAO_0000115 "A post translationally modified aspartic acid amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00904"^^xsd:string ; oboInOwl:hasExactSynonym "ModAsp"^^xsd:string, "modified L aspartic acid"^^xsd:string, "modified L-aspartic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001389"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_aspartic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001390 obo:IAO_0000115 "A post translationally modified cysteine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00905"^^xsd:string ; oboInOwl:hasExactSynonym "ModCys"^^xsd:string, "modified L cysteine"^^xsd:string, "modified L-cysteine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001390"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_cysteine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001391 obo:IAO_0000115 "A post translationally modified glutamic acid."^^xsd:string ; oboInOwl:hasDbXref "MOD:00906"^^xsd:string ; oboInOwl:hasExactSynonym "ModGlu"^^xsd:string, "modified L glutamic acid"^^xsd:string, "modified L-glutamic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001391"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_glutamic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001392 obo:IAO_0000115 "A post translationally modified threonine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00917"^^xsd:string ; oboInOwl:hasExactSynonym "ModThr"^^xsd:string, "modified L threonine"^^xsd:string, "modified L-threonine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001392"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_threonine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001393 obo:IAO_0000115 "A post translationally modified tryptophan amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00918"^^xsd:string ; oboInOwl:hasExactSynonym "ModTrp"^^xsd:string, "modified L tryptophan"^^xsd:string, "modified L-tryptophan"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001393"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_tryptophan"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001394 obo:IAO_0000115 "A post translationally modified glutamine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00907"^^xsd:string ; oboInOwl:hasExactSynonym "ModGln"^^xsd:string, "modified L glutamine"^^xsd:string, "modified L-glutamine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001394"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_glutamine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001395 obo:IAO_0000115 "A post translationally modified methionine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00913"^^xsd:string ; oboInOwl:hasExactSynonym "ModMet"^^xsd:string, "modified L methionine"^^xsd:string, "modified L-methionine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001395"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_methionine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001396 obo:IAO_0000115 "A post translationally modified isoleucine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00910"^^xsd:string ; oboInOwl:hasExactSynonym "ModIle"^^xsd:string, "modified L isoleucine"^^xsd:string, "modified L-isoleucine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001396"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_isoleucine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001397 obo:IAO_0000115 "A post translationally modified phenylalanine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00914"^^xsd:string ; oboInOwl:hasExactSynonym "ModPhe"^^xsd:string, "modified L phenylalanine"^^xsd:string, "modified L-phenylalanine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001397"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_phenylalanine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001398 obo:IAO_0000115 "A post translationally modified histidine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00909"^^xsd:string ; oboInOwl:hasExactSynonym "ModHis"^^xsd:string, "modified L histidine"^^xsd:string, "modified L-histidine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001398"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_histidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001399 obo:IAO_0000115 "A post translationally modified serine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00916"^^xsd:string ; oboInOwl:hasExactSynonym "MosSer"^^xsd:string, "modified L serine"^^xsd:string, "modified L-serine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001399"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_serine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001400 obo:IAO_0000115 "A post translationally modified lysine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00912"^^xsd:string ; oboInOwl:hasExactSynonym "ModLys"^^xsd:string, "modified L lysine"^^xsd:string, "modified L-lysine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001400"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_lysine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001401 obo:IAO_0000115 "A post translationally modified leucine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00911"^^xsd:string ; oboInOwl:hasExactSynonym "ModLeu"^^xsd:string, "modified L leucine"^^xsd:string, "modified L-leucine "^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001401"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_leucine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001402 obo:IAO_0000115 "A post translationally modified selenocysteine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:01158"^^xsd:string ; oboInOwl:hasExactSynonym "modified L selenocysteine"^^xsd:string, "modified L-selenocysteine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001402"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_selenocysteine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001403 obo:IAO_0000115 "A post translationally modified valine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00920"^^xsd:string ; oboInOwl:hasExactSynonym "ModVal"^^xsd:string, "modified L valine"^^xsd:string, "modified L-valine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001403"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_valine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001404 obo:IAO_0000115 "A post translationally modified proline amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00915"^^xsd:string ; oboInOwl:hasExactSynonym "ModPro"^^xsd:string, "modified L proline"^^xsd:string, "modified L-proline "^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001404"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_proline"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001405 obo:IAO_0000115 "A post translationally modified tyrosine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00919"^^xsd:string ; oboInOwl:hasExactSynonym "ModTry"^^xsd:string, "modified L tyrosine"^^xsd:string, "modified L-tyrosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001405"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_tyrosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001406 obo:IAO_0000115 "A post translationally modified arginine amino acid feature."^^xsd:string ; oboInOwl:hasDbXref "MOD:00902"^^xsd:string ; oboInOwl:hasExactSynonym "ModArg"^^xsd:string, "modified L arginine"^^xsd:string, "modified L-arginine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001406"^^xsd:string ; a owl:Class ; rdfs:label "modified_L_arginine"^^xsd:string ; rdfs:subClassOf obo:SO_0001385 . obo:SO_0001407 obo:IAO_0000115 "An attribute describing the nature of a proteinaceous polymer, where by the amino acid units are joined by peptide bonds."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001407"^^xsd:string ; a owl:Class ; rdfs:label "peptidyl"^^xsd:string ; rdfs:subClassOf obo:SO_0000443 . obo:SO_0001408 obo:IAO_0000115 "The C-terminal residues of a polypeptide which are exchanged for a GPI-anchor."^^xsd:string ; oboInOwl:hasExactSynonym "cleaved for gpi anchor region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001408"^^xsd:string ; a owl:Class ; rdfs:label "cleaved_for_gpi_anchor_region"^^xsd:string ; rdfs:subClassOf obo:SO_0100011 . obo:SO_0001409 obo:IAO_0000115 "A region which is intended for use in an experiment."^^xsd:string ; oboInOwl:hasExactSynonym "biomaterial region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001409"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "biomaterial_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000001 . obo:SO_0001410 obo:IAO_0000115 "A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer."^^xsd:string ; oboInOwl:hasExactSynonym "experimental output artefact"^^xsd:string, "experimental_output_artefact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "analysis feature"^^xsd:string ; oboInOwl:id "SO:0001410"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "experimental_feature"^^xsd:string ; rdfs:subClassOf obo:SO_0000001 . obo:SO_0001411 obo:IAO_0000115 "A region defined by its disposition to be involved in a biological process."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:biological_region"^^xsd:string, "biological region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001411"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "biological_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000001 . obo:SO_0001412 obo:IAO_0000115 "A DNA region within which self-interaction occurs more often than expected by chance because of DNA-looping."^^xsd:string ; oboInOwl:hasExactSynonym "topologically defined region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001412"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "topologically_defined_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000001 . obo:SO_0001413 obo:IAO_0000115 "The point within a chromosome where a translocation begins or ends."^^xsd:string ; oboInOwl:hasExactSynonym "translocation breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001413"^^xsd:string ; a owl:Class ; rdfs:label "translocation_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0001414 obo:IAO_0000115 "The point within a chromosome where a insertion begins or ends."^^xsd:string ; oboInOwl:hasExactSynonym "insertion breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001414"^^xsd:string ; a owl:Class ; rdfs:label "insertion_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0001415 obo:IAO_0000115 "The point within a chromosome where a deletion begins or ends."^^xsd:string ; oboInOwl:hasExactSynonym "deletion breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001415"^^xsd:string ; a owl:Class ; rdfs:label "deletion_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0001416 obo:IAO_0000115 "A flanking region located five prime of a specific region."^^xsd:string ; oboInOwl:hasExactSynonym "five prime flanking region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "5' flanking region"^^xsd:string ; oboInOwl:id "SO:0001416"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_flanking_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000239 . obo:SO_0001417 obo:IAO_0000115 "A flanking region located three prime of a specific region."^^xsd:string ; oboInOwl:hasExactSynonym "three prime flanking region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' flanking region"^^xsd:string ; oboInOwl:id "SO:0001417"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_flanking_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000239 . obo:SO_0001418 obo:IAO_0000115 "An experimental region, defined by a tiling array experiment to be transcribed at some level."^^xsd:string ; oboInOwl:hasExactSynonym "transcribed fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "transfrag"^^xsd:string ; oboInOwl:id "SO:0001418"^^xsd:string ; a owl:Class ; rdfs:comment "Term requested by the MODencode group."^^xsd:string ; rdfs:label "transcribed_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0001419 obo:IAO_0000115 "Intronic 2 bp region bordering exon. A splice_site that adjacent_to exon and overlaps intron."^^xsd:string ; oboInOwl:hasExactSynonym "cis splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001419"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "cis_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000162 . obo:SO_0001420 obo:IAO_0000115 "Primary transcript region bordering trans-splice junction."^^xsd:string ; oboInOwl:hasExactSynonym "trans splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001420"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "trans_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000162 . obo:SO_0001421 obo:IAO_0000115 "The boundary between an intron and an exon."^^xsd:string ; oboInOwl:hasExactSynonym "splice boundary"^^xsd:string, "splice junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001421"^^xsd:string ; a owl:Class ; rdfs:label "splice_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0000699 . obo:SO_0001422 obo:IAO_0000115 "A region of a polypeptide, involved in the transition from one conformational state to another."^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide conformational switch"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001422"^^xsd:string ; a owl:Class ; rdfs:comment "MM Young, K Kirshenbaum, KA Dill & S Highsmith. Predicting conformational switches in proteins. Protein Science, 1999, 8, 1752-64. K. Kirshenbaum, M.M. Young and S. Highsmith. Predicting Allosteric Switches in Myosins. Protein Science 8(9):1806-1815. 1999."^^xsd:string ; rdfs:label "conformational_switch"^^xsd:string ; rdfs:subClassOf obo:SO_0100001 . obo:SO_0001423 obo:IAO_0000115 "A read produced by the dye terminator method of sequencing."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "dye terminator read"^^xsd:string ; oboInOwl:id "SO:0001423"^^xsd:string ; a owl:Class ; rdfs:label "dye_terminator_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0001424 obo:IAO_0000115 "A read produced by pyrosequencing technology."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "pyorsequenced read"^^xsd:string ; oboInOwl:id "SO:0001424"^^xsd:string ; a owl:Class ; rdfs:comment "An example is a read produced by Roche 454 technology."^^xsd:string ; rdfs:label "pyrosequenced_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0001425 obo:IAO_0000115 "A read produced by ligation based sequencing technologies."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ligation based read"^^xsd:string ; oboInOwl:id "SO:0001425"^^xsd:string ; a owl:Class ; rdfs:comment "An example of this kind of read is one produced by ABI SOLiD."^^xsd:string ; rdfs:label "ligation_based_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0001426 obo:IAO_0000115 "A read produced by the polymerase based sequence by synthesis method."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "polymerase synthesis read"^^xsd:string ; oboInOwl:id "SO:0001426"^^xsd:string ; a owl:Class ; rdfs:comment "An example is a read produced by Illumina technology."^^xsd:string ; rdfs:label "polymerase_synthesis_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0001427 obo:IAO_0000115 "A structural region in an RNA molecule which promotes ribosomal frameshifting of cis coding sequence."^^xsd:string ; oboInOwl:hasExactSynonym "cis regulatory frameshift element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001427"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "cis_regulatory_frameshift_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0001428 obo:IAO_0000115 "A sequence assembly derived from expressed sequences."^^xsd:string ; oboInOwl:hasExactSynonym "expressed sequence assembly"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001428"^^xsd:string ; a owl:Class ; rdfs:comment "From tracker [ 2372385 ] expressed_sequence_assembly."^^xsd:string ; rdfs:label "expressed_sequence_assembly"^^xsd:string ; rdfs:subClassOf obo:SO_0000353 . obo:SO_0001429 obo:IAO_0000115 "A binding site that, in the molecule, interacts selectively and non-covalently with DNA."^^xsd:string ; oboInOwl:hasExactSynonym "DNA binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001429"^^xsd:string ; a owl:Class ; rdfs:label "DNA_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001655 . obo:SO_0001430 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000553 ; a owl:Class ; owl:deprecated true . obo:SO_0001431 obo:IAO_0000115 "A gene that is not transcribed under normal conditions and is not critical to normal cellular functioning."^^xsd:string ; oboInOwl:hasExactSynonym "cryptic gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001431"^^xsd:string ; a owl:Class ; rdfs:label "cryptic_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000976 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000976 ] ) ] . obo:SO_0001432 obo:IAO_0100001 "SO:0001545"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting polyadenylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting polyadenylation"^^xsd:string ; oboInOwl:id "SO:0001432"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_polyadenylation"^^xsd:string ; owl:deprecated true . obo:SO_0001433 obo:IAO_0000115 "A three prime RACE (Rapid Amplification of cDNA Ends) clone is a cDNA clone copied from the 3' end of an mRNA (using a poly-dT primer to capture the polyA tail and a gene-specific or randomly primed 5' primer), and spliced into a vector for propagation in a suitable host."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' RACE clone"^^xsd:string ; oboInOwl:id "SO:0001433"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_RACE_clone"^^xsd:string ; rdfs:subClassOf obo:SO_0000317 . obo:SO_0001434 obo:IAO_0000115 "A cassette pseudogene is a kind of gene in an inactive form which may recombine at a telomeric locus to form a functional copy."^^xsd:string ; oboInOwl:hasExactSynonym "cassette pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "cassette type psedogene"^^xsd:string ; oboInOwl:id "SO:0001434"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by the Trypanosome community."^^xsd:string ; rdfs:label "cassette_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0001435 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codons GCN (GCT, GCC, GCA and GCG)."^^xsd:string ; oboInOwl:hasExactSynonym "A"^^xsd:string, "Ala"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001435"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "alanine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001436 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codons GTN (GTT, GTC, GTA and GTG)."^^xsd:string ; oboInOwl:hasExactSynonym "V"^^xsd:string, "Val"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001436"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "valine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001437 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codons CTN (CTT, CTC, CTA and CTG), TTA and TTG."^^xsd:string ; oboInOwl:hasExactSynonym "L"^^xsd:string, "Leu"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001437"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "leucine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001438 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codons ATH (ATT, ATC and ATA)."^^xsd:string ; oboInOwl:hasExactSynonym "I"^^xsd:string, "Ile"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001438"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "isoleucine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001439 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codons CCN (CCT, CCC, CCA and CCG)."^^xsd:string ; oboInOwl:hasExactSynonym "P"^^xsd:string, "Pro"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001439"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "proline"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001440 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codon TGG."^^xsd:string ; oboInOwl:hasExactSynonym "Trp"^^xsd:string, "W"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001440"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "tryptophan"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001441 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codons TTT and TTC."^^xsd:string ; oboInOwl:hasExactSynonym "F"^^xsd:string, "Phe"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001441"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "phenylalanine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001442 obo:IAO_0000115 "A non-polar, hydorophobic amino acid encoded by the codon ATG."^^xsd:string ; oboInOwl:hasExactSynonym "M"^^xsd:string, "Met"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001442"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "methionine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001443 obo:IAO_0000115 "A non-polar, hydorophilic amino acid encoded by the codons GGN (GGT, GGC, GGA and GGG)."^^xsd:string ; oboInOwl:hasExactSynonym "G"^^xsd:string, "Gly"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001443"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "glycine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001444 obo:IAO_0000115 "A polar, hydorophilic amino acid encoded by the codons TCN (TCT, TCC, TCA, TCG), AGT and AGC."^^xsd:string ; oboInOwl:hasExactSynonym "S"^^xsd:string, "Ser"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001444"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "serine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001445 obo:IAO_0000115 "A polar, hydorophilic amino acid encoded by the codons ACN (ACT, ACC, ACA and ACG)."^^xsd:string ; oboInOwl:hasExactSynonym "T"^^xsd:string, "Thr"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001445"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "threonine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001446 obo:IAO_0000115 "A polar, hydorophilic amino acid encoded by the codons TAT and TAC."^^xsd:string ; oboInOwl:hasExactSynonym "Tyr"^^xsd:string, "Y"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001446"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "tyrosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001447 obo:IAO_0000115 "A polar amino acid encoded by the codons TGT and TGC."^^xsd:string ; oboInOwl:hasExactSynonym "C"^^xsd:string, "Cys"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001447"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "cysteine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001448 obo:IAO_0000115 "A polar, hydorophilic amino acid encoded by the codons CAA and CAG. "^^xsd:string ; oboInOwl:hasExactSynonym "Gln"^^xsd:string, "Q"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001448"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "glutamine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001449 obo:IAO_0000115 "A polar, hydorophilic amino acid encoded by the codons AAT and AAC."^^xsd:string ; oboInOwl:hasExactSynonym "Asn"^^xsd:string, "N"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001449"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "asparagine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001450 obo:IAO_0000115 "A positively charged, hydorophilic amino acid encoded by the codons AAA and AAG."^^xsd:string ; oboInOwl:hasExactSynonym "K"^^xsd:string, "Lys"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001450"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "lysine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001451 obo:IAO_0000115 "A positively charged, hydorophilic amino acid encoded by the codons CGN (CGT, CGC, CGA and CGG), AGA and AGG."^^xsd:string ; oboInOwl:hasExactSynonym "Arg"^^xsd:string, "R"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001451"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "arginine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001452 obo:IAO_0000115 "A positively charged, hydorophilic amino acid encoded by the codons CAT and CAC."^^xsd:string ; oboInOwl:hasExactSynonym "H"^^xsd:string, "His"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001452"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "histidine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001453 obo:IAO_0000115 "A negatively charged, hydorophilic amino acid encoded by the codons GAT and GAC."^^xsd:string ; oboInOwl:hasExactSynonym "Asp"^^xsd:string, "D"^^xsd:string, "aspartic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001453"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "aspartic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001454 obo:IAO_0000115 "A negatively charged, hydorophilic amino acid encoded by the codons GAA and GAG."^^xsd:string ; oboInOwl:hasExactSynonym "E"^^xsd:string, "Glu"^^xsd:string, "glutamic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001454"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "glutamic_acid"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001455 obo:IAO_0000115 "A relatively rare amino acid encoded by the codon UGA in some contexts, whereas UGA is a termination codon in other contexts."^^xsd:string ; oboInOwl:hasExactSynonym "Sec"^^xsd:string, "U"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001455"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "selenocysteine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001456 obo:IAO_0000115 "A relatively rare amino acid encoded by the codon UAG in some contexts, whereas UAG is a termination codon in other contexts."^^xsd:string ; oboInOwl:hasExactSynonym "O"^^xsd:string, "Pyl"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001456"^^xsd:string ; a owl:Class ; rdfs:comment "A place holder for a cross product with chebi."^^xsd:string ; rdfs:label "pyrrolysine"^^xsd:string ; rdfs:subClassOf obo:SO_0001237 . obo:SO_0001457 obo:IAO_0000115 "A region defined by a set of transcribed sequences from the same gene or expressed pseudogene."^^xsd:string ; oboInOwl:hasExactSynonym "transcribed cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "unigene cluster"^^xsd:string ; oboInOwl:id "SO:0001457"^^xsd:string ; a owl:Class ; rdfs:comment "This term was requested by Jeff Bowes, using the tracker, ID = 2594157."^^xsd:string ; rdfs:label "transcribed_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0001410, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000695 ] . obo:SO_0001458 obo:IAO_0000115 "A kind of transcribed_cluster defined by a set of transcribed sequences from the a unique gene."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "unigene cluster"^^xsd:string ; oboInOwl:id "SO:0001458"^^xsd:string ; a owl:Class ; rdfs:comment "This term was requested by Jeff Bowes, using the tracker, ID = 2594157."^^xsd:string ; rdfs:label "unigene_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0001457 . obo:SO_0001459 obo:IAO_0000115 "Clustered Palindromic Repeats interspersed with bacteriophage derived spacer sequences."^^xsd:string ; oboInOwl:hasDbXref "http:en.wikipedia.org/wiki/CRISPR"^^xsd:string ; oboInOwl:hasExactSynonym "CRISPR element"^^xsd:string, "Clustered_Regularly_Interspaced_Short_Palindromic_Repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001459"^^xsd:string ; a owl:Class ; rdfs:label "CRISPR"^^xsd:string ; rdfs:subClassOf obo:SO_0000314 . obo:SO_0001460 obo:IAO_0000115 "A binding site that, in an insulator region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "insulator binding site"^^xsd:string ; oboInOwl:id "SO:0001460"^^xsd:string ; a owl:Class ; rdfs:comment "See tracker ID 2060908."^^xsd:string ; rdfs:label "insulator_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001654, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000627 ] . obo:SO_0001461 obo:IAO_0000115 "A binding site that, in the enhancer region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "enhancer binding site"^^xsd:string ; oboInOwl:id "SO:0001461"^^xsd:string ; a owl:Class ; rdfs:label "enhancer_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001654, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000165 ] . obo:SO_0001462 obo:IAO_0000115 "A collection of contigs."^^xsd:string ; oboInOwl:hasExactSynonym "contig collection"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001462"^^xsd:string ; a owl:Class ; rdfs:comment "See tracker ID: 2138359."^^xsd:string ; rdfs:label "contig_collection"^^xsd:string ; rdfs:subClassOf obo:SO_0001085, obo:SO_0001260, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000149 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001085 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000149 ] ) ] . obo:SO_0001463 obo:IAO_0000115 "Long, intervening non-coding RNA. A transcript that does not overlap within the start or end genomic coordinates of a coding gene or pseudogene on either strand."^^xsd:string ; oboInOwl:hasExactSynonym "large intervening non-coding RNA"^^xsd:string, "long intergenic non-coding RNA"^^xsd:string, "long intervening non-coding RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001463"^^xsd:string ; a owl:Class ; rdfs:label "lincRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001877 . obo:SO_0001464 obo:IAO_0000115 "An EST spanning part or all of the untranslated regions of a protein-coding transcript."^^xsd:string ; oboInOwl:hasExactSynonym "UTR sequence tag"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001464"^^xsd:string ; a owl:Class ; rdfs:label "UST"^^xsd:string ; rdfs:subClassOf obo:SO_0000345 . obo:SO_0001465 obo:IAO_0000115 "A UST located in the 3'UTR of a protein-coding transcript."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "3' UST"^^xsd:string ; oboInOwl:id "SO:0001465"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_UST"^^xsd:string ; rdfs:subClassOf obo:SO_0001464 . obo:SO_0001466 obo:IAO_0000115 "An UST located in the 5'UTR of a protein-coding transcript."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "5' UST"^^xsd:string ; oboInOwl:id "SO:0001466"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_UST"^^xsd:string ; rdfs:subClassOf obo:SO_0001464 . obo:SO_0001467 obo:IAO_0000115 "A tag produced from a single sequencing read from a RACE product; typically a few hundred base pairs long."^^xsd:string ; oboInOwl:hasExactSynonym "RACE sequence tag"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001467"^^xsd:string ; a owl:Class ; rdfs:label "RST"^^xsd:string ; rdfs:subClassOf obo:SO_0000345 . obo:SO_0001468 obo:IAO_0000115 "A tag produced from a single sequencing read from a 3'-RACE product; typically a few hundred base pairs long."^^xsd:string ; oboInOwl:hasExactSynonym "3' RST"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001468"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_RST"^^xsd:string ; rdfs:subClassOf obo:SO_0001467 . obo:SO_0001469 obo:IAO_0000115 "A tag produced from a single sequencing read from a 5'-RACE product; typically a few hundred base pairs long."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "5' RST"^^xsd:string ; oboInOwl:id "SO:0001469"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_RST"^^xsd:string ; rdfs:subClassOf obo:SO_0001467 . obo:SO_0001470 obo:IAO_0000115 "A match against an UST sequence."^^xsd:string ; oboInOwl:hasExactSynonym "UST match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001470"^^xsd:string ; a owl:Class ; rdfs:label "UST_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000102 . obo:SO_0001471 obo:IAO_0000115 "A match against an RST sequence."^^xsd:string ; oboInOwl:hasExactSynonym "RST match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001471"^^xsd:string ; a owl:Class ; rdfs:label "RST_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000102 . obo:SO_0001472 obo:IAO_0000115 "A nucleotide match to a primer sequence."^^xsd:string ; oboInOwl:hasExactSynonym "primer match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001472"^^xsd:string ; a owl:Class ; rdfs:label "primer_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000347 . obo:SO_0001473 obo:IAO_0000115 "A region of the pri miRNA that base pairs with the guide to form the hairpin."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-05-27T03:35:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "miRNA antiguide "^^xsd:string, "miRNA passenger strand"^^xsd:string, "miRNA star"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001473"^^xsd:string ; a owl:Class ; rdfs:label "miRNA_antiguide"^^xsd:string ; rdfs:subClassOf obo:SO_0001243 . obo:SO_0001474 obo:IAO_0000115 "The boundary between the spliced leader and the first exon of the mRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-07-13T04:50:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "trans-splice junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001474"^^xsd:string ; a owl:Class ; rdfs:label "trans_splice_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0000699 . obo:SO_0001475 obo:IAO_0000115 "A region of a primary transcript, that is removed via trans splicing."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-07-14T11:36:08Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001475"^^xsd:string ; a owl:Class ; rdfs:label "outron"^^xsd:string ; rdfs:subClassOf obo:SO_0000835 . obo:SO_0001476 obo:IAO_0000115 "A plasmid that occurs naturally."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-01T03:43:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "natural plasmid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001476"^^xsd:string ; a owl:Class ; rdfs:label "natural_plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0000155, obo:SO_0001038, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000782 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000155 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000782 ] ) ] . obo:SO_0001477 obo:IAO_0000115 "A gene trap construct is a type of engineered plasmid which is designed to integrate into a genome and produce a fusion transcript between exons of the gene into which it inserts and a reporter element in the construct. Gene traps contain a splice acceptor, do not contain promoter elements for the reporter, and are mutagenic. Gene traps may be bicistronic with the second cassette containing a promoter driving an a selectable marker."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-01T03:49:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "gene trap construct"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001477"^^xsd:string ; a owl:Class ; rdfs:label "gene_trap_construct"^^xsd:string ; rdfs:subClassOf obo:SO_0000637 . obo:SO_0001478 obo:IAO_0000115 "A promoter trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when inserted in close proximity to a promoter element. Promoter traps typically do not contain promoter elements and are mutagenic."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-01T03:52:01Z"^^xsd:string ; oboInOwl:hasExactSynonym "promoter trap construct"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001478"^^xsd:string ; a owl:Class ; rdfs:label "promoter_trap_construct"^^xsd:string ; rdfs:subClassOf obo:SO_0000637 . obo:SO_0001479 obo:IAO_0000115 "An enhancer trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when the expression from a basic minimal promoter is enhanced by genomic enhancer elements. Enhancer traps contain promoter elements and are not usually mutagenic."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-01T03:53:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "enhancer trap construct"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001479"^^xsd:string ; a owl:Class ; rdfs:label "enhancer_trap_construct"^^xsd:string ; rdfs:subClassOf obo:SO_0000637 . obo:SO_0001480 obo:IAO_0000115 "A region of sequence from the end of a PAC clone that may provide a highly specific marker."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-09T05:18:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "PAC end"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001480"^^xsd:string ; a owl:Class ; rdfs:label "PAC_end"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000154 ] . obo:SO_0001481 obo:IAO_0000115 "RAPD is a 'PCR product' where a sequence variant is identified through the use of PCR with random primers."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-09T05:26:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "Random Amplification Polymorphic DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001481"^^xsd:string ; a owl:Class ; rdfs:label "RAPD"^^xsd:string ; rdfs:subClassOf obo:SO_0000006 . obo:SO_0001482 obo:IAO_0000115 "An enhancer that drives the pattern of transcription and binds to the same TF as the primary enhancer, but is located in the intron of or on the far side of a neighboring gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-09-09T05:29:29Z"^^xsd:string ; oboInOwl:hasExactSynonym "shadow enhancer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001482"^^xsd:string ; a owl:Class ; rdfs:label "shadow_enhancer"^^xsd:string ; rdfs:subClassOf obo:SO_0000165 . obo:SO_0001483 obo:IAO_0000115 "SNVs are single nucleotide positions in genomic DNA at which different sequence alternatives exist."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-08T11:37:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "single nucleotide variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001483"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "SNV"^^xsd:string ; rdfs:subClassOf obo:SO_1000002 . obo:SO_0001484 obo:IAO_0000115 "An X element combinatorial repeat is a repeat region located between the X element and the telomere or adjacent Y' element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-10T11:03:37Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:x_element_combinatorial_repeat"^^xsd:string, "X element combinatorial repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001484"^^xsd:string ; a owl:Class ; rdfs:comment """X element combinatorial repeats contain Tbf1p binding sites, and possible functions include a role in telomerase-independent telomere maintenance via recombination or as a barrier against transcriptional silencing. These are usually present as a combination of one or more of several types of smaller elements (designated A, B, C, or D). This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880747."""^^xsd:string ; rdfs:label "X_element_combinatorial_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000624 ] . obo:SO_0001485 obo:IAO_0000115 "A Y' element is a repeat region (SO:0000657) located adjacent to telomeric repeats or X element combinatorial repeats, either as a single copy or tandem repeat of two to four copies."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-10T12:08:57Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:Y_prime_element"^^xsd:string, "Y prime element"^^xsd:string, "Y' element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001485"^^xsd:string ; a owl:Class ; rdfs:comment "This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880747."^^xsd:string ; rdfs:label "Y_prime_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000657, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000624 ] . obo:SO_0001486 obo:IAO_0000115 "The status of a whole genome sequence, where the data is minimally filtered or un-filtered, from any number of sequencing platforms, and is assembled into contigs. Genome sequence of this quality may harbour regions of poor quality and can be relatively incomplete."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T12:48:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "standard draft"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001486"^^xsd:string ; a owl:Class ; rdfs:label "standard_draft"^^xsd:string ; rdfs:subClassOf obo:SO_0001499 . obo:SO_0001487 obo:IAO_0000115 "The status of a whole genome sequence, where overall coverage represents at least 90 percent of the genome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T12:52:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "high quality draft"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001487"^^xsd:string ; a owl:Class ; rdfs:label "high_quality_draft"^^xsd:string ; rdfs:subClassOf obo:SO_0001499 . obo:SO_0001488 obo:IAO_0000115 "The status of a whole genome sequence, where additional work has been performed, using either manual or automated methods, such as gap resolution."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T12:54:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "improved high quality draft"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001488"^^xsd:string ; a owl:Class ; rdfs:label "improved_high_quality_draft"^^xsd:string ; rdfs:subClassOf obo:SO_0001499 . obo:SO_0001489 obo:IAO_0000115 "The status of a whole genome sequence,where annotation, and verification of coding regions has occurred."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T12:57:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "annotation directed improvement"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001489"^^xsd:string ; a owl:Class ; rdfs:label "annotation_directed_improved_draft"^^xsd:string ; rdfs:subClassOf obo:SO_0001499 . obo:SO_0001490 obo:IAO_0000115 "The status of a whole genome sequence, where the assembly is high quality, closure approaches have been successful for most gaps, misassemblies and low quality regions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T01:01:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "non contiguous finished"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001490"^^xsd:string ; a owl:Class ; rdfs:label "noncontiguous_finished"^^xsd:string ; rdfs:subClassOf obo:SO_0001499 . obo:SO_0001491 obo:IAO_0000115 "The status of a whole genome sequence, with less than 1 error per 100,000 base pairs."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T01:04:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "finished"^^xsd:string, "finished genome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001491"^^xsd:string ; a owl:Class ; rdfs:label "finished_genome"^^xsd:string ; rdfs:subClassOf obo:SO_0001499 . obo:SO_0001492 obo:IAO_0000115 "A regulatory region that is part of an intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-08T02:48:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "intronic regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001492"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "intronic_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001055, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000188 ] . obo:SO_0001493 obo:IAO_0000115 "A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region composed of 8-11bp which enables binding by the centromere binding factor 1(Cbf1p)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-09T05:47:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDEI"^^xsd:string, "Centromere DNA Element I"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001493"^^xsd:string ; a owl:Class ; rdfs:comment "This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880699."^^xsd:string ; rdfs:label "centromere_DNA_Element_I"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001794 ] . obo:SO_0001494 obo:IAO_0000115 "A centromere DNA Element II (CDEII) is part a conserved region of the centromere, consisting of a consensus region that is AT-rich and ~ 75-100 bp in length."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-09T05:51:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDEII"^^xsd:string, "centromere DNA Element II"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001494"^^xsd:string ; a owl:Class ; rdfs:comment "This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880699."^^xsd:string ; rdfs:label "centromere_DNA_Element_II"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001794 ] . obo:SO_0001495 obo:IAO_0000115 "A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region that consists of a 25-bp which enables binding by the centromere DNA binding factor 3 (CBF3) complex."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-09T05:54:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDEIII"^^xsd:string, "centromere DNA Element III"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001495"^^xsd:string ; a owl:Class ; rdfs:comment "This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880699."^^xsd:string ; rdfs:label "centromere_DNA_Element_III"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001794 ] . obo:SO_0001496 obo:IAO_0000115 "The telomeric repeat is a repeat region, part of the chromosome, which in yeast, is a G-rich terminal sequence of the form (TG(1-3))n or more precisely ((TG)(1-6)TG(2-3))n."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-09T06:00:42Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:telomeric_repeat"^^xsd:string, "telomeric repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001496"^^xsd:string ; a owl:Class ; rdfs:comment "The repeats are maintained by telomerase and there is generally 300 (+/-) 75 bp of TG(1-3) at a given end. Telomeric repeats function in completing chromosome replication and protecting the ends from degradation and end-to-end fusions. This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880739."^^xsd:string ; rdfs:label "telomeric_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000624 ] . obo:SO_0001497 obo:IAO_0000115 "The X element is a conserved region, of the telomere, of ~475 bp that contains an ARS sequence and in most cases an Abf1p binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-10T10:56:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "X element core sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "X element"^^xsd:string ; oboInOwl:id "SO:0001497"^^xsd:string ; a owl:Class ; rdfs:comment """Possible functions include roles in chromosomal segregation, maintenance of chromosome stability, recombinational sequestering, or as a barrier to transcriptional silencing. This term was requested 2009-10-16 by Michel Dumontier, tracker id 2880747. From Janos Demeter: The only region shared by all chromosome ends, the X element core sequence is a small conserved element (~475 bp) that contains an ARS sequence and in most cases an Abf1p binding site. Between these is a GC-rich region nearly identical to the meiosis-specific regulatory sequence URS1."""^^xsd:string ; rdfs:label "X_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000624 ] . obo:SO_0001498 obo:IAO_0000115 "A region of sequence from the end of a YAC clone that may provide a highly specific marker."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-11-19T11:07:18Z"^^xsd:string ; oboInOwl:hasExactSynonym "YAC end"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001498"^^xsd:string ; a owl:Class ; rdfs:label "YAC_end"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000152 ] . obo:SO_0001499 obo:IAO_0000115 "The status of whole genome sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-10-23T12:47:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "whole genome sequence status"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001499"^^xsd:string ; a owl:Class ; rdfs:comment "This terms and children were added to SO in response to tracker request by Patrick Chain. The paper Genome Project Standards in a New Era of Sequencing. Science October 9th 2009, addresses these terms."^^xsd:string ; rdfs:label "whole_genome_sequence_status"^^xsd:string ; rdfs:subClassOf obo:SO_0000905 . obo:SO_0001500 obo:IAO_0000115 "A biological_region characterized as a single heritable trait in a phenotype screen. The heritable phenotype may be mapped to a chromosome but generally has not been characterized to a specific gene locus."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-12-07T01:50:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "heritable phenotypic marker"^^xsd:string, "phenotypic marker"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001500"^^xsd:string ; a owl:Class ; rdfs:label "heritable_phenotypic_marker"^^xsd:string ; rdfs:subClassOf obo:SO_0001645 . obo:SO_0001501 obo:IAO_0000115 "A collection of peptide sequences."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-12-11T10:58:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "peptide collection"^^xsd:string, "peptide set"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001501"^^xsd:string ; a owl:Class ; rdfs:comment "Term requested via tracker ID: 2910829."^^xsd:string ; rdfs:label "peptide_collection"^^xsd:string ; rdfs:subClassOf obo:SO_0001260, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000104 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001260 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000104 ] ) ] . obo:SO_0001502 obo:IAO_0000115 "An experimental feature with high sequence identity to another sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-12-11T11:06:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "high identity region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001502"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by tracker ID: 2902685."^^xsd:string ; rdfs:label "high_identity_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0001503 obo:IAO_0000115 "A transcript for which no open reading frame has been identified and for which no other function has been determined."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-12-21T05:37:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "processed transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001503"^^xsd:string ; a owl:Class ; rdfs:comment "Ensembl and Vega also use this term name. Requested by Howard Deen of MGI."^^xsd:string ; rdfs:label "processed_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673 . obo:SO_0001504 obo:IAO_0000115 "A chromosome variation derived from an event during meiosis."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-02T05:03:18Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "assortment derived variation"^^xsd:string ; oboInOwl:id "SO:0001504"^^xsd:string ; a owl:Class ; rdfs:label "assortment_derived_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0000240 . obo:SO_0001505 obo:IAO_0000115 "A collection of sequences (often chromosomes) taken as the standard for a given organism and genome assembly."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-03T02:10:03Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "reference genome"^^xsd:string ; oboInOwl:id "SO:0001505"^^xsd:string ; a owl:Class ; rdfs:label "reference_genome"^^xsd:string ; rdfs:subClassOf obo:SO_0001026 . obo:SO_0001506 obo:IAO_0000115 "A collection of sequences (often chromosomes) of an individual."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-03T02:11:25Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "variant genome"^^xsd:string ; oboInOwl:id "SO:0001506"^^xsd:string ; a owl:Class ; rdfs:label "variant_genome"^^xsd:string ; rdfs:subClassOf obo:SO_0001026 . obo:SO_0001507 obo:IAO_0000115 "A collection of one or more sequences of an individual."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-03T02:13:28Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "variant collection"^^xsd:string ; oboInOwl:id "SO:0001507"^^xsd:string ; a owl:Class ; rdfs:label "variant_collection"^^xsd:string ; rdfs:subClassOf obo:SO_0001260, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001059 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001260 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001059 ] ) ] . obo:SO_0001508 obo:IAO_0000115 "An attribute of alteration of one or more chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:53:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "alteration attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001508"^^xsd:string ; a owl:Class ; rdfs:label "alteration_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0001509 obo:IAO_0000115 "An attribute of a change in the structure or number of a chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:54:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal variation attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001509"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_variation_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0001508 . obo:SO_0001510 obo:IAO_0000115 "A change in chromosomes that occurs between two separate chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:55:25Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001510"^^xsd:string ; a owl:Class ; rdfs:label "intrachromosomal"^^xsd:string ; rdfs:subClassOf obo:SO_0001509 . obo:SO_0001511 obo:IAO_0000115 "A change in chromosomes that occurs between two sections of the same chromosome or between homologous chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:55:43Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001511"^^xsd:string ; a owl:Class ; rdfs:label "interchromosomal"^^xsd:string ; rdfs:subClassOf obo:SO_0001509 . obo:SO_0001512 obo:IAO_0000115 "A quality of a chromosomal insertion,."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:55:56Z"^^xsd:string ; oboInOwl:hasExactSynonym "insertion attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001512"^^xsd:string ; a owl:Class ; rdfs:label "insertion_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0001508 . obo:SO_0001513 obo:IAO_0000115 "An insertion of extension of a tandem repeat."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:56:37Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001513"^^xsd:string ; a owl:Class ; rdfs:label "tandem"^^xsd:string ; rdfs:subClassOf obo:SO_0001512 . obo:SO_0001514 obo:IAO_0000115 "A quality of an insertion where the insert is not in a cytologically inverted orientation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:56:49Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001514"^^xsd:string ; a owl:Class ; rdfs:label "direct"^^xsd:string ; rdfs:subClassOf obo:SO_0001512 . obo:SO_0001515 obo:IAO_0000115 "A quality of an insertion where the insert is in a cytologically inverted orientation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:57:40Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001515"^^xsd:string ; a owl:Class ; rdfs:label "inverted"^^xsd:string ; rdfs:subClassOf obo:SO_0001512 . obo:SO_0001516 obo:IAO_0000115 "The quality of a duplication where the new region exists independently of the original."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:57:51Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001516"^^xsd:string ; a owl:Class ; rdfs:label "free"^^xsd:string ; rdfs:subClassOf obo:SO_0001523 . obo:SO_0001517 obo:IAO_0000115 "When a region of a chromosome is changed to the reverse order without duplication or deletion."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:58:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "inversion attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001517"^^xsd:string ; a owl:Class ; rdfs:label "inversion_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0001508 . obo:SO_0001518 obo:IAO_0000115 "An inversion event that includes the centromere."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:58:24Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001518"^^xsd:string ; a owl:Class ; rdfs:label "pericentric"^^xsd:string ; rdfs:subClassOf obo:SO_0001517 . obo:SO_0001519 obo:IAO_0000115 "An inversion event that does not include the centromere."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:58:35Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001519"^^xsd:string ; a owl:Class ; rdfs:label "paracentric"^^xsd:string ; rdfs:subClassOf obo:SO_0001517 . obo:SO_0001520 obo:IAO_0000115 "An attribute of a translocation, which is then a region of nucleotide sequence that has translocated to a new position. The observed adjacency of two previously separated regions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:58:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "translocation attribute"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001520"^^xsd:string ; a owl:Class ; rdfs:label "translocaton_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0001508 . obo:SO_0001521 obo:IAO_0000115 "When translocation occurs between nonhomologous chromosomes and involved an equal exchange of genetic materials."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:59:34Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001521"^^xsd:string ; a owl:Class ; rdfs:label "reciprocal"^^xsd:string ; rdfs:subClassOf obo:SO_0001520 . obo:SO_0001522 obo:IAO_0000115 "When a translocation is simply moving genetic material from one chromosome to another."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-04T02:59:51Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001522"^^xsd:string ; a owl:Class ; rdfs:label "insertional"^^xsd:string ; rdfs:subClassOf obo:SO_0001520 . obo:SO_0001523 obo:IAO_0000115 "An attribute of a duplication, which is an insertion which derives from, or is identical in sequence to, nucleotides present at a known location in the genome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-05T01:56:33Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "duplication attribute"^^xsd:string ; oboInOwl:id "SO:0001523"^^xsd:string ; a owl:Class ; rdfs:label "duplication_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0001508 . obo:SO_0001524 obo:IAO_0000115 "When a genome contains an abnormal amount of chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-05T02:21:00Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "chromosomally aberrant genome"^^xsd:string ; oboInOwl:id "SO:0001524"^^xsd:string ; a owl:Class ; rdfs:label "chromosomally_aberrant_genome"^^xsd:string ; rdfs:subClassOf obo:SO_0001506 . obo:SO_0001525 obo:IAO_0000115 "A region of sequence where the final nucleotide assignment differs from the original assembly due to an improvement that replaces a mistake."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-09T02:16:31Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "assembly error correction"^^xsd:string ; oboInOwl:id "SO:0001525"^^xsd:string ; a owl:Class ; rdfs:label "assembly_error_correction"^^xsd:string ; rdfs:subClassOf obo:SO_0000413 . obo:SO_0001526 obo:IAO_0000115 "A region of sequence where the final nucleotide assignment is different from that given by the base caller due to an improvement that replaces a mistake."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-09T02:18:07Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "base call error correction"^^xsd:string ; oboInOwl:id "SO:0001526"^^xsd:string ; a owl:Class ; rdfs:label "base_call_error_correction"^^xsd:string ; rdfs:subClassOf obo:SO_0000413 . obo:SO_0001527 obo:IAO_0000115 "A region of peptide sequence used to target the polypeptide molecule to a specific organelle."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T02:15:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "peptide localization signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "localization signal"^^xsd:string ; oboInOwl:id "SO:0001527"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "peptide_localization_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001528 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to the nucleus."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T02:16:38Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Nuclear_localization_signal"^^xsd:string ; oboInOwl:hasExactSynonym "NLS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001528"^^xsd:string ; a owl:Class ; rdfs:label "nuclear_localization_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001529 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to the endosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T02:20:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "endosomal localization signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001529"^^xsd:string ; a owl:Class ; rdfs:label "endosomal_localization_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001530 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to the lysosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T02:24:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "lysosomal localization signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001530"^^xsd:string ; a owl:Class ; rdfs:label "lysosomal_localization_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001531 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to he cytoplasm."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T02:25:25Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Nuclear_export_signal"^^xsd:string ; oboInOwl:hasExactSynonym "NES"^^xsd:string, "nuclear export signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001531"^^xsd:string ; a owl:Class ; rdfs:label "nuclear_export_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001532 obo:IAO_0000115 "A region recognized by a recombinase."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T03:16:47Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Recombination_Signal_Sequences"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "recombination signal sequence"^^xsd:string ; oboInOwl:id "SO:0001532"^^xsd:string ; a owl:Class ; rdfs:label "recombination_signal_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000299 . obo:SO_0001533 obo:IAO_0000115 "A splice site that is in part of the transcript not normally spliced. They occur via mutation or transcriptional error."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T03:25:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "cryptic splice signal"^^xsd:string ; oboInOwl:id "SO:0001533"^^xsd:string ; a owl:Class ; rdfs:label "cryptic_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000162 . obo:SO_0001534 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to the nuclear rim."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-11T03:31:30Z"^^xsd:string ; oboInOwl:hasDbXref "PMID:16027110"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "nuclear rim localization signal"^^xsd:string ; oboInOwl:id "SO:0001534"^^xsd:string ; a owl:Class ; rdfs:label "nuclear_rim_localization_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001535 obo:IAO_0000115 "A P-element is a DNA transposon responsible for hybrid dysgenesis. P elements in this terminal inverted repeat (TIR) transposon superfamily have 31 bp perfect TIR and upon insertion duplicate an 8 bp sequence. It contains transposase that may lack the DDE domain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-12T03:40:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTP transposon"^^xsd:string, "P TIR transposon"^^xsd:string, "P element"^^xsd:string, "P transposable element"^^xsd:string, "P-element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001535"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from under DNA_transposon (SO:0000182) by Dave Sant as per request from GitHub issue #488 on June 25, 2020"^^xsd:string ; rdfs:label "P_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0001536 obo:IAO_0000115 "A variant whereby the effect is evaluated with respect to a reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:30:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "functional effect variant"^^xsd:string, "functional variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001536"^^xsd:string ; a owl:Class ; rdfs:comment "Updated after request from Lea Starita, lea.starita@gmail.com from the NCBI."^^xsd:string ; rdfs:label "functional_effect_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001060 . obo:SO_0001537 obo:IAO_0000115 "A sequence variant that changes one or more sequence features."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:31:01Z"^^xsd:string ; oboInOwl:hasDbXref "http://vat.gersteinlab.org/formats.php"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:structural_variant"^^xsd:string, "VAT:svOverlap"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "structural variant"^^xsd:string ; oboInOwl:id "SO:0001537"^^xsd:string ; a owl:Class ; rdfs:label "structural_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001060 . obo:SO_0001538 obo:IAO_0000115 "A sequence variant which alters the functioning of a transcript with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:32:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript function variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001538"^^xsd:string ; a owl:Class ; rdfs:label "transcript_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0001539 obo:IAO_0000115 "A sequence variant that affects the functioning of a translational product with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:46:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "translational product variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001539"^^xsd:string ; a owl:Class ; rdfs:label "translational_product_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0001540 obo:IAO_0000115 "A sequence variant which alters the level of a transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:47:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "level of transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001540"^^xsd:string ; a owl:Class ; rdfs:label "level_of_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001538 . obo:SO_0001541 obo:IAO_0000115 "A sequence variant that decreases the level of mature, spliced and processed RNA with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:47:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "decreased transcript level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001541"^^xsd:string ; a owl:Class ; rdfs:label "decreased_transcript_level_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001540 . obo:SO_0001542 obo:IAO_0000115 "A sequence variant that increases the level of mature, spliced and processed RNA with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:48:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "increased transcript level variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001542"^^xsd:string ; a owl:Class ; rdfs:label "increased_transcript_level_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001540 . obo:SO_0001543 obo:IAO_0000115 "A sequence variant that affects the post transcriptional processing of a transcript with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:48:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript processing variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001543"^^xsd:string ; a owl:Class ; rdfs:label "transcript_processing_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001538 . obo:SO_0001544 obo:IAO_0000115 "A transcript processing variant whereby the process of editing is disrupted with respect to the reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:49:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "editing variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001544"^^xsd:string ; a owl:Class ; rdfs:label "editing_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001543 . obo:SO_0001545 obo:IAO_0000115 "A sequence variant that changes polyadenylation with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:49:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "polyadenylation variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001545"^^xsd:string ; a owl:Class ; rdfs:label "polyadenylation_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001543 . obo:SO_0001546 obo:IAO_0000115 "A variant that changes the stability of a transcript with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:50:01Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript stability variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001546"^^xsd:string ; a owl:Class ; rdfs:label "transcript_stability_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001538 . obo:SO_0001547 obo:IAO_0000115 "A sequence variant that decreases transcript stability with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:50:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "decrease transcript stability variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001547"^^xsd:string ; a owl:Class ; rdfs:label "decreased_transcript_stability_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001546 . obo:SO_0001548 obo:IAO_0000115 "A sequence variant that increases transcript stability with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:50:39Z"^^xsd:string ; oboInOwl:hasExactSynonym "increased transcript stability variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001548"^^xsd:string ; a owl:Class ; rdfs:label "increased_transcript_stability_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001546 . obo:SO_0001549 obo:IAO_0000115 "A variant that changes alters the transcription of a transcript with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:51:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcription variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001549"^^xsd:string ; a owl:Class ; rdfs:label "transcription_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001538 . obo:SO_0001550 obo:IAO_0000115 "A sequence variant that changes the rate of transcription with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:51:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "rate of transcription variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001550"^^xsd:string ; a owl:Class ; rdfs:label "rate_of_transcription_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001549 . obo:SO_0001551 obo:IAO_0000115 "A sequence variant that increases the rate of transcription with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:52:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "increased transcription rate variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001551"^^xsd:string ; a owl:Class ; rdfs:label "increased_transcription_rate_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001550 . obo:SO_0001552 obo:IAO_0000115 "A sequence variant that decreases the rate of transcription with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:52:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "decreased transcription rate variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001552"^^xsd:string ; a owl:Class ; rdfs:label "decreased_transcription_rate_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001550 . obo:SO_0001553 obo:IAO_0000115 "A functional variant that changes the translational product level with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:53:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "translational product level variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001553"^^xsd:string ; a owl:Class ; rdfs:label "translational_product_level_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001539 . obo:SO_0001554 obo:IAO_0000115 "A sequence variant which changes polypeptide functioning with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:53:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide function variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001554"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001539 . obo:SO_0001555 obo:IAO_0000115 "A sequence variant which decreases the translational product level with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:54:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "decrease translational product level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001555"^^xsd:string ; a owl:Class ; rdfs:label "decreased_translational_product_level"^^xsd:string ; rdfs:subClassOf obo:SO_0001553 . obo:SO_0001556 obo:IAO_0000115 "A sequence variant which increases the translational product level with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:55:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "increase translational product level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001556"^^xsd:string ; a owl:Class ; rdfs:label "increased_translational_product_level"^^xsd:string ; rdfs:subClassOf obo:SO_0001553 . obo:SO_0001557 obo:IAO_0000115 "A sequence variant which causes gain of polypeptide function with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:56:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide gain of function variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001557"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_gain_of_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001554 . obo:SO_0001558 obo:IAO_0000115 "A sequence variant which changes the localization of a polypeptide with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:56:37Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide localization variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001558"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_localization_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001554 . obo:SO_0001559 obo:IAO_0000115 "A sequence variant that causes the loss of a polypeptide function with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:56:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide loss of function variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001559"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_loss_of_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001554 . obo:SO_0001560 obo:IAO_0000115 "A sequence variant that causes the inactivation of a ligand binding site with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:58:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "inactive ligand binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001560"^^xsd:string ; a owl:Class ; rdfs:label "inactive_ligand_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001559 . obo:SO_0001561 obo:IAO_0000115 "A sequence variant that causes some but not all loss of polypeptide function with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:58:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide partial loss of function"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001561"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_partial_loss_of_function"^^xsd:string ; rdfs:subClassOf obo:SO_0001559 . obo:SO_0001562 obo:IAO_0000115 "A sequence variant that causes a change in post translational processing of the peptide with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T11:59:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide post translational processing variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001562"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_post_translational_processing_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001554 . obo:SO_0001563 obo:IAO_0000115 "A sequence variant where copies of a feature (CNV) are either increased or decreased."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:27:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "copy number change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001563"^^xsd:string ; a owl:Class ; rdfs:label "copy_number_change"^^xsd:string ; rdfs:subClassOf obo:SO_0002160 . obo:SO_0001564 obo:IAO_0000115 "A sequence variant where the structure of the gene is changed."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:28:01Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:gene_variant"^^xsd:string, "VAAST:gene_variant"^^xsd:string, "gene structure variant"^^xsd:string, "snpEff:GENE"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001564"^^xsd:string ; a owl:Class ; rdfs:label "gene_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001878 . obo:SO_0001565 obo:IAO_0000115 "A sequence variant whereby a two genes have become joined."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:28:28Z"^^xsd:string ; oboInOwl:hasExactSynonym "gene fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001565"^^xsd:string ; a owl:Class ; rdfs:label "gene_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001564, obo:SO_0001882 . obo:SO_0001566 obo:IAO_0000115 "A sequence variant located within a regulatory region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:28:48Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:regulatory_region_variant"^^xsd:string, "VEP:regulatory_region_variant"^^xsd:string, "regulatory region variant"^^xsd:string, "regulatory_region_"^^xsd:string, "snpEff:REGULATION"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001566"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Regulatory region variations - In regulatory region annotated by Ensembl."^^xsd:string ; rdfs:label "regulatory_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001878 . obo:SO_0001567 obo:IAO_0000115 "A sequence variant where at least one base in the terminator codon is changed, but the terminator remains."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-19T05:02:30Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:stop_retained_variant"^^xsd:string, "VAAST:stop_retained"^^xsd:string, "VAAST:stop_retained_variant"^^xsd:string, "VEP:stop_retained_variant"^^xsd:string, "snpEff:NON_SYNONYMOUS_STOP"^^xsd:string, "snpEff:SYNONYMOUS_STOP"^^xsd:string, "stop retained variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001567"^^xsd:string ; a owl:Class ; rdfs:label "stop_retained_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001590, obo:SO_0001819 . obo:SO_0001568 obo:IAO_0000115 "A sequence variant that changes the process of splicing."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:29:22Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:splicing_variant"^^xsd:string, "splicing variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001568"^^xsd:string ; a owl:Class ; rdfs:label "splicing_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001569 obo:IAO_0000115 "A sequence variant causing a new (functional) splice site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:29:41Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic splice site activation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001569"^^xsd:string ; a owl:Class ; rdfs:label "cryptic_splice_site_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568 . obo:SO_0001570 obo:IAO_0000115 "A sequence variant whereby a new splice site is created due to the activation of a new acceptor."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:30:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic splice acceptor"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001570"^^xsd:string ; a owl:Class ; rdfs:label "cryptic_splice_acceptor"^^xsd:string ; rdfs:subClassOf obo:SO_0001569 . obo:SO_0001571 obo:IAO_0000115 "A sequence variant whereby a new splice site is created due to the activation of a new donor."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:30:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic splice donor"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001571"^^xsd:string ; a owl:Class ; rdfs:label "cryptic_splice_donor"^^xsd:string ; rdfs:subClassOf obo:SO_0001569 . obo:SO_0001572 obo:IAO_0000115 "A sequence variant whereby an exon is lost from the transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:31:09Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:exon_loss_variant"^^xsd:string, "exon loss"^^xsd:string, "snpEff:EXON_DELETED"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001572"^^xsd:string ; a owl:Class ; rdfs:label "exon_loss_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568 . obo:SO_0001573 obo:IAO_0000115 "A sequence variant whereby an intron is gained by the processed transcript; usually a result of an alteration of the donor or acceptor."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:31:25Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "intron gain"^^xsd:string, "intron gain variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001573"^^xsd:string ; a owl:Class ; rdfs:label "intron_gain_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568 . obo:SO_0001574 obo:IAO_0000115 "A splice variant that changes the 2 base region at the 3' end of an intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:31:52Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:splice_acceptor_variant"^^xsd:string, "Seattleseq:splice-acceptor"^^xsd:string, "VAAST:splice_acceptor_variant"^^xsd:string, "VEP:splice_acceptor_variant"^^xsd:string, "snpEff:SPLICE_SITE_ACCEPTOR"^^xsd:string, "splice acceptor variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001574"^^xsd:string ; a owl:Class ; rdfs:label "splice_acceptor_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001629 . obo:SO_0001575 obo:IAO_0000115 "A splice variant that changes the 2 base pair region at the 5' end of an intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:32:10Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:splice_donor_variant"^^xsd:string, "Seattleseq:splice-donor"^^xsd:string, "VAAST:splice_donor_variant"^^xsd:string, "VEP:splice_donor_variant"^^xsd:string, "snpEff:SPLICE_SITE_DONOR"^^xsd:string, "splice donor variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001575"^^xsd:string ; a owl:Class ; rdfs:label "splice_donor_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001629 . obo:SO_0001576 obo:IAO_0000115 "A sequence variant that changes the structure of the transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:32:41Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:transcript_variant"^^xsd:string, "VAAST:transcript_variant"^^xsd:string, "snpEff:TRANSCRIPT"^^xsd:string, "transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001576"^^xsd:string ; a owl:Class ; rdfs:label "transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001564 . obo:SO_0001577 obo:IAO_0000115 "A transcript variant with a complex INDEL- Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:33:03Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "complex change in transcript"^^xsd:string, "complex transcript variant"^^xsd:string, "complex_indel"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Seattleseq:codingComplex"^^xsd:string, "Seattleseq:codingComplex-near-splice"^^xsd:string ; oboInOwl:id "SO:0001577"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Complex InDel - Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border."^^xsd:string ; rdfs:label "complex_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001578 obo:IAO_0000115 "A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T03:46:42Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:stoploss"^^xsd:string, "Jannovar:stop_lost"^^xsd:string, "Seattleseq:stop-lost"^^xsd:string, "VAAST:stop_lost"^^xsd:string, "VAT:removedStop"^^xsd:string, "VEP:stop_lost"^^xsd:string, "snpEff:STOP_LOST"^^xsd:string, "stop codon lost"^^xsd:string, "stop lost"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Seattleseq:stop-lost-near-splice"^^xsd:string ; oboInOwl:id "SO:0001578"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Stop lost - In coding sequence, resulting in the loss of a stop codon."^^xsd:string ; rdfs:label "stop_lost"^^xsd:string ; rdfs:subClassOf obo:SO_0001590, obo:SO_0001907, obo:SO_0001992 . obo:SO_0001579 oboInOwl:hasExactSynonym "transcript sequence variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001579"^^xsd:string ; a owl:Class ; rdfs:label "transcript_sequence_variant"^^xsd:string ; owl:deprecated true . obo:SO_0001580 obo:IAO_0000115 "A sequence variant that changes the coding sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:34:36Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001581"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string, "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:coding_sequence_variant"^^xsd:string, "Seattleseq:coding"^^xsd:string, "VAAST:coding_sequence_variant"^^xsd:string, "VEP:coding_sequence_variant"^^xsd:string, "coding sequence variant"^^xsd:string, "coding variant"^^xsd:string, "codon variant"^^xsd:string, "codon_variant"^^xsd:string, "snpEff:CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "snpEff:CODON_CHANGE"^^xsd:string ; oboInOwl:id "SO:0001580"^^xsd:string ; a owl:Class ; rdfs:label "coding_sequence_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001791, obo:SO_0001968 . obo:SO_0001581 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001580 ; a owl:Class ; owl:deprecated true . obo:SO_0001582 obo:IAO_0000115 "A codon variant that changes at least one base of the first codon of a transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:35:18Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "loinc:LA6695-6"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:initiator_codon_variant"^^xsd:string, "VAT:startOverlap"^^xsd:string, "initiatior codon variant"^^xsd:string, "initiator codon change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "snpEff:NON_SYNONYMOUS_START"^^xsd:string ; oboInOwl:id "SO:0001582"^^xsd:string ; a owl:Class ; rdfs:comment "This is being used to annotate changes to the first codon of a transcript, when the first annotated codon is not to methionine. A variant is predicted to change the first amino acid of a translation irrespective of the fact that the underlying codon is an AUG. As such for transcripts with an incomplete CDS (sequence does not start with an AUG), it is still called."^^xsd:string ; rdfs:label "initiator_codon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001580 . obo:SO_0001583 obo:IAO_0000115 "A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preserved."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:35:49Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001584"^^xsd:string, "SO:0001783"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string, "http://en.wikipedia.org/wiki/Missense_mutation"^^xsd:string, "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string, "loinc:LA6698-0"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:missense_variant"^^xsd:string, "Seattleseq:missense"^^xsd:string, "VAAST:missense_variant"^^xsd:string, "VAT:nonsynonymous"^^xsd:string, "VEP:missense_variant"^^xsd:string, "missense"^^xsd:string, "missense codon"^^xsd:string, "snpEff:NON_SYNONYMOUS_CODING"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:nonsynonymous SNV"^^xsd:string, "Seattleseq:missense-near-splice"^^xsd:string, "VAAST:non_synonymous_codon"^^xsd:string ; oboInOwl:id "SO:0001583"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Non-synonymous SNPs. SNPs that are located in the coding sequence and result in an amino acid change in the encoded peptide sequence. A change that causes a non_synonymous_codon can be more than 3 bases - for example 4 base substitution."^^xsd:string ; rdfs:label "missense_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001992 . obo:SO_0001584 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001583 ; a owl:Class ; owl:deprecated true . obo:SO_0001585 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for a different but similar amino acid. These variants may or may not be deleterious."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:36:40Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "conservative missense codon"^^xsd:string, "conservative missense variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "neutral missense codon"^^xsd:string, "quiet missense codon"^^xsd:string ; oboInOwl:id "SO:0001585"^^xsd:string ; a owl:Class ; rdfs:label "conservative_missense_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001583 . obo:SO_0001586 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for an amino acid with different biochemical properties."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:37:16Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "non conservative missense codon"^^xsd:string, "non conservative missense variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001586"^^xsd:string ; a owl:Class ; rdfs:label "non_conservative_missense_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001583 . obo:SO_0001587 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:37:52Z"^^xsd:string ; oboInOwl:hasDbXref "http://ensembl.org/info/genome/variation/prediction/predicted_data.html"^^xsd:string, "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "loinc:LA6699-8"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:stopgain"^^xsd:string, "Jannovar:stop_gained"^^xsd:string, "Seattleseq:stop-gained"^^xsd:string, "VAAST:stop_gained"^^xsd:string, "VAT:prematureStop"^^xsd:string, "VEP:stop_gained"^^xsd:string, "nonsense"^^xsd:string, "nonsense codon"^^xsd:string, "snpEff:STOP_GAINED"^^xsd:string, "stop gained"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Seattleseq:stop-gained-near-splice"^^xsd:string, "stop codon gained"^^xsd:string ; oboInOwl:id "SO:0001587"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Stop gained - In coding sequence, resulting in the gain of a stop codon (i.e. leading to a shortened peptide sequence)."^^xsd:string ; rdfs:label "stop_gained"^^xsd:string ; rdfs:subClassOf obo:SO_0001906, obo:SO_0001992 . obo:SO_0001588 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001819 ; a owl:Class ; owl:deprecated true . obo:SO_0001589 obo:IAO_0000115 "A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:40:19Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string, "loinc:LA6694-9"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:frameshift_variant"^^xsd:string, "Seattleseq:frameshift"^^xsd:string, "VAAST:frameshift_variant"^^xsd:string, "VEP:frameshift_variant"^^xsd:string, "frameshift variant"^^xsd:string, "frameshift_"^^xsd:string, "frameshift_coding"^^xsd:string, "snpEff:FRAME_SHIFT"^^xsd:string ; oboInOwl:hasNarrowSynonym "VAT:deletionFS"^^xsd:string, "VAT:insertionFS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:frameshift block substitution"^^xsd:string, "ANNOVAR:frameshift substitution"^^xsd:string, "Seattleseq:frameshift-near-splice"^^xsd:string ; oboInOwl:id "SO:0001589"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term:Frameshift variations - In coding sequence, resulting in a frameshift."^^xsd:string ; rdfs:label "frameshift_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001818 . obo:SO_0001590 obo:IAO_0000115 "A sequence variant whereby at least one of the bases in the terminator codon is changed."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:40:37Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001625"^^xsd:string ; oboInOwl:hasDbXref "http://vat.gersteinlab.org/formats.php"^^xsd:string, "loinc:LA6700-2"^^xsd:string ; oboInOwl:hasExactSynonym "VAT:endOverlap"^^xsd:string, "terminal codon variant"^^xsd:string, "terminal_codon_variant"^^xsd:string, "terminator codon variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001590"^^xsd:string ; a owl:Class ; rdfs:comment "The terminal codon may be the terminator, or in an incomplete transcript the last available codon."^^xsd:string ; rdfs:label "terminator_codon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001580 . obo:SO_0001591 obo:IAO_0000115 "A sequence variant that reverts the sequence of a previous frameshift mutation back to the initial frame."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:41:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "frame restoring variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001591"^^xsd:string ; a owl:Class ; rdfs:label "frame_restoring_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001589 . obo:SO_0001592 obo:IAO_0000115 "A sequence variant which causes a disruption of the translational reading frame, by shifting one base ahead."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:41:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "-1 frameshift variant"^^xsd:string, "minus 1 frameshift variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001592"^^xsd:string ; a owl:Class ; rdfs:label "minus_1_frameshift_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001589 . obo:SO_0001593 obo:IAO_0000115 "A sequence variant which causes a disruption of the translational reading frame, by shifting two bases forward."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:41:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "-2 frameshift variant"^^xsd:string, "minus 2 frameshift variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001593"^^xsd:string ; a owl:Class ; rdfs:label "minus_2_frameshift_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001589 . obo:SO_0001594 obo:IAO_0000115 "A sequence variant which causes a disruption of the translational reading frame, by shifting one base backward."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:42:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "+1 frameshift variant"^^xsd:string, "plus 1 frameshift variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001594"^^xsd:string ; a owl:Class ; rdfs:label "plus_1_frameshift_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001589 . obo:SO_0001595 obo:IAO_0000115 "A sequence variant which causes a disruption of the translational reading frame, by shifting two bases backward."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:42:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "+2 frameshift variant"^^xsd:string, "plus 2 frameshift variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001595"^^xsd:string ; a owl:Class ; rdfs:label "plus_2_frameshift_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001589 . obo:SO_0001596 obo:IAO_0000115 "A sequence variant within a transcript that changes the secondary structure of the RNA product."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:43:18Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript secondary structure variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001596"^^xsd:string ; a owl:Class ; rdfs:label "transcript_secondary_structure_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001597 obo:IAO_0000115 "A secondary structure variant that compensate for the change made by a previous variant."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:43:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "compensatory transcript secondary structure variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001597"^^xsd:string ; a owl:Class ; rdfs:label "compensatory_transcript_secondary_structure_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001596 . obo:SO_0001598 obo:IAO_0000115 "A sequence variant within the transcript that changes the structure of the translational product."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:44:17Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "translational product structure variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001598"^^xsd:string ; a owl:Class ; rdfs:label "translational_product_structure_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001564 . obo:SO_0001599 obo:IAO_0000115 "A sequence variant that changes the resulting polypeptide structure."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:44:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "3D polypeptide structure variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001599"^^xsd:string ; a owl:Class ; rdfs:label "3D_polypeptide_structure_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001539 . obo:SO_0001600 obo:IAO_0000115 "A sequence variant that changes the resulting polypeptide structure."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:45:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "complex 3D structural variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001600"^^xsd:string ; a owl:Class ; rdfs:label "complex_3D_structural_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001599 . obo:SO_0001601 obo:IAO_0000115 "A sequence variant in the CDS region that causes a conformational change in the resulting polypeptide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:45:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "conformational change variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001601"^^xsd:string ; a owl:Class ; rdfs:label "conformational_change_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001599 . obo:SO_0001602 obo:IAO_0000115 "A variant that changes the translational product with respect to the reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:46:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "complex change of translational product variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001602"^^xsd:string ; a owl:Class ; rdfs:label "complex_change_of_translational_product_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001539 . obo:SO_0001603 obo:IAO_0000115 "A sequence variant with in the CDS that causes a change in the resulting polypeptide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:47:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide sequence variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001603"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_sequence_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001598 . obo:SO_0001604 obo:IAO_0000115 "A sequence variant within a CDS resulting in the loss of an amino acid from the resulting polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:47:36Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "amino acid deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001604"^^xsd:string ; a owl:Class ; rdfs:label "amino_acid_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0001603 . obo:SO_0001605 obo:IAO_0000115 "A sequence variant within a CDS resulting in the gain of an amino acid to the resulting polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:47:56Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "amino acid insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001605"^^xsd:string ; a owl:Class ; rdfs:label "amino_acid_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001603 . obo:SO_0001606 obo:IAO_0000115 "A sequence variant of a codon resulting in the substitution of one amino acid for another in the resulting polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:48:17Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "VAAST:amino_acid_substitution"^^xsd:string, "amino acid substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001606"^^xsd:string ; a owl:Class ; rdfs:label "amino_acid_substitution"^^xsd:string ; rdfs:subClassOf obo:SO_0001603 . obo:SO_0001607 obo:IAO_0000115 "A sequence variant of a codon causing the substitution of a similar amino acid for another in the resulting polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:48:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "conservative amino acid substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001607"^^xsd:string ; a owl:Class ; rdfs:label "conservative_amino_acid_substitution"^^xsd:string ; rdfs:subClassOf obo:SO_0001606 . obo:SO_0001608 obo:IAO_0000115 "A sequence variant of a codon causing the substitution of a non conservative amino acid for another in the resulting polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:49:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "non conservative amino acid substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001608"^^xsd:string ; a owl:Class ; rdfs:label "non_conservative_amino_acid_substitution"^^xsd:string ; rdfs:subClassOf obo:SO_0001606 . obo:SO_0001609 obo:IAO_0000115 "An elongation of a polypeptide sequence deriving from a sequence variant extending the CDS."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:49:52Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "elongated polypeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001609"^^xsd:string ; a owl:Class ; rdfs:label "elongated_polypeptide"^^xsd:string ; rdfs:subClassOf obo:SO_0001603 . obo:SO_0001610 obo:IAO_0000115 "An elongation of a polypeptide sequence at the C terminus deriving from a sequence variant extending the CDS."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:50:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "elongated polypeptide C terminal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001610"^^xsd:string ; a owl:Class ; rdfs:label "elongated_polypeptide_C_terminal"^^xsd:string ; rdfs:subClassOf obo:SO_0001609, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002229 ] . obo:SO_0001611 obo:IAO_0000115 "An elongation of a polypeptide sequence at the N terminus deriving from a sequence variant extending the CDS."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:50:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "elongated polypeptide N terminal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001611"^^xsd:string ; a owl:Class ; rdfs:label "elongated_polypeptide_N_terminal"^^xsd:string ; rdfs:subClassOf obo:SO_0001609, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002228 ] . obo:SO_0001612 obo:IAO_0000115 "A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the C terminus."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:51:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "elongated in frame polypeptide C terminal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001612"^^xsd:string ; a owl:Class ; rdfs:label "elongated_in_frame_polypeptide_C_terminal"^^xsd:string ; rdfs:subClassOf obo:SO_0001610 . obo:SO_0001613 obo:IAO_0000115 "A sequence variant with in the CDS that causes out of frame elongation of the resulting polypeptide sequence at the C terminus."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:51:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "elongated polypeptide out of frame C terminal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001613"^^xsd:string ; a owl:Class ; rdfs:label "elongated_out_of_frame_polypeptide_C_terminal"^^xsd:string ; rdfs:subClassOf obo:SO_0001610 . obo:SO_0001614 obo:IAO_0000115 "A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the N terminus."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:51:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "elongated in frame polypeptide N terminal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001614"^^xsd:string ; a owl:Class ; rdfs:label "elongated_in_frame_polypeptide_N_terminal_elongation"^^xsd:string ; rdfs:subClassOf obo:SO_0001611 . obo:SO_0001615 obo:IAO_0000115 "A sequence variant with in the CDS that causes out of frame elongation of the resulting polypeptide sequence at the N terminus."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:52:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "elongated out of frame N terminal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001615"^^xsd:string ; a owl:Class ; rdfs:label "elongated_out_of_frame_polypeptide_N_terminal"^^xsd:string ; rdfs:subClassOf obo:SO_0001611 . obo:SO_0001616 obo:IAO_0000115 "A sequence variant that causes a fusion of two polypeptide sequences."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:52:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001616"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001603 . obo:SO_0001617 obo:IAO_0000115 "A sequence variant of the CD that causes a truncation of the resulting polypeptide."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T02:53:07Z"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide truncation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001617"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_truncation"^^xsd:string ; rdfs:subClassOf obo:SO_0001603 . obo:SO_0001618 obo:IAO_0000115 "A sequence variant that causes the inactivation of a catalytic site with respect to a reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-22T03:06:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "inactive catalytic site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001618"^^xsd:string ; a owl:Class ; rdfs:label "inactive_catalytic_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001560 . obo:SO_0001619 obo:IAO_0000115 "A transcript variant of a non coding RNA gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T11:16:23Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:non_coding_transcript_variant"^^xsd:string, "VEP:non_coding_transcript_variant"^^xsd:string, "nc transcript variant"^^xsd:string, "non coding transcript variant"^^xsd:string, "within_non_coding_gene"^^xsd:string ; oboInOwl:hasNarrowSynonym "ANNOVAR:ncRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001619"^^xsd:string ; a owl:Class ; rdfs:comment "Within non-coding gene - Located within a gene that does not code for a protein."^^xsd:string ; rdfs:label "non_coding_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001620 obo:IAO_0000115 "A transcript variant located with the sequence of the mature miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T11:16:58Z"^^xsd:string ; oboInOwl:hasDbXref "XX:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:mature_miRNA_variant"^^xsd:string, "mature miRNA variant"^^xsd:string, "snpEff:MICRO_RNA"^^xsd:string, "within_mature_miRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001620"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Within mature miRNA - Located within a microRNA."^^xsd:string ; rdfs:label "mature_miRNA_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001619 . obo:SO_0001621 obo:IAO_0000115 "A variant in a transcript that is the target of nonsense-mediated mRNA decay."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T11:20:40Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "NMD transcript variant"^^xsd:string, "NMD_transcript"^^xsd:string, "Nonsense mediated decay transcript variant"^^xsd:string, "VEP:NMD_transcript_variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001621"^^xsd:string ; a owl:Class ; rdfs:label "NMD_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001622 obo:IAO_0000115 "A transcript variant that is located within the UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T11:22:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "UTR variant"^^xsd:string, "UTR_"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001622"^^xsd:string ; a owl:Class ; rdfs:label "UTR_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001791, obo:SO_0001968 . obo:SO_0001623 obo:IAO_0000115 "A UTR variant of the 5' UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T11:23:29Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "5'UTR variant"^^xsd:string, "5PRIME_UTR"^^xsd:string, "Jannovar:5_prime_utr_variant"^^xsd:string, "Seattleseq:5-prime-UTR"^^xsd:string, "VAAST:5_prime_UTR_variant"^^xsd:string, "VAAST:five_prime_UTR_variant"^^xsd:string, "VEP:5_prime_UTR_variant"^^xsd:string, "five prime UTR variant"^^xsd:string, "snpEff:UTR_5_PRIME"^^xsd:string, "untranslated-5"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:UTR5"^^xsd:string ; oboInOwl:id "SO:0001623"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: 5prime UTR variations - In 5prime UTR (untranslated region)."^^xsd:string ; rdfs:label "5_prime_UTR_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001622 . obo:SO_0001624 obo:IAO_0000115 "A UTR variant of the 3' UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T11:23:54Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "3'UTR variant"^^xsd:string, "3PRIME_UTR"^^xsd:string, "Jannovar:3_prime_utr_variant"^^xsd:string, "Seattleseq:3-prime-UTR"^^xsd:string, "VAAST:3_prime_UTR_variant"^^xsd:string, "VAAST:three_prime_UTR_variant"^^xsd:string, "VEP:3_prime_UTR_variant"^^xsd:string, "snpEff:UTR_3_PRIME"^^xsd:string, "three prime UTR variant"^^xsd:string, "untranslated-3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:UTR3"^^xsd:string ; oboInOwl:id "SO:0001624"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term 3prime UTR variations - In 3prime UTR."^^xsd:string ; rdfs:label "3_prime_UTR_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001622 . obo:SO_0001625 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001590 ; a owl:Class ; owl:deprecated true . obo:SO_0001626 obo:IAO_0000115 "A sequence variant where at least one base of the final codon of an incompletely annotated transcript is changed."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T03:51:15Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:incomplete_terminal_codon_variant"^^xsd:string, "incomplete terminal codon variant"^^xsd:string, "partial_codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001626"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Partial codon - Located within the final, incomplete codon of a transcript with a shortened coding sequence where the end is unknown."^^xsd:string ; rdfs:label "incomplete_terminal_codon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001590, obo:SO_0001650 . obo:SO_0001627 obo:IAO_0000115 "A transcript variant occurring within an intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T03:52:38Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:intron_variant"^^xsd:string, "Seattleseq:intron"^^xsd:string, "VAAST:intron_variant"^^xsd:string, "VEP:intron_variant"^^xsd:string, "intron variant"^^xsd:string, "intron_"^^xsd:string, "intronic"^^xsd:string, "snpEff:INTRON"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:intronic"^^xsd:string, "Seattleseq:intron-near-splice"^^xsd:string ; oboInOwl:id "SO:0001627"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: Intronic variations - In intron."^^xsd:string ; rdfs:label "intron_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001628 obo:IAO_0000115 "A sequence variant located in the intergenic region, between genes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-23T05:07:37Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:intergenic_variant"^^xsd:string, "Seattleseq:intergenic"^^xsd:string, "VEP:intergenic_variant"^^xsd:string, "intergenic"^^xsd:string, "intergenic variant"^^xsd:string, "snpEff:INTERGENIC"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:intergenic"^^xsd:string ; oboInOwl:id "SO:0001628"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term Intergenic variations - More than 5 kb either upstream or downstream of a transcript."^^xsd:string ; rdfs:label "intergenic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001878 . obo:SO_0001629 obo:IAO_0000115 "A sequence variant that changes the first two or last two bases of an intron, or the 5th base from the start of the intron in the orientation of the transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:42:00Z"^^xsd:string ; oboInOwl:hasDbXref "http://vat.gersteinlab.org/formats.php"^^xsd:string ; oboInOwl:hasExactSynonym "VAT:spliceOverlap"^^xsd:string, "essential_splice_site"^^xsd:string, "splice site variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001629"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term - essential splice site - In the first 2 or the last 2 base pairs of an intron. The 5th base is on the donor (5') side of the intron. Updated to b in line with Cancer Genome Project at the Sanger."^^xsd:string ; rdfs:label "splice_site_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568, obo:SO_0001627 . obo:SO_0001630 obo:IAO_0000115 "A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:46:02Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:splice_region_variant"^^xsd:string, "VAAST:splice_region_variant"^^xsd:string, "VEP:splice_region_variant"^^xsd:string, "snpEff:SPLICE_SITE_REGION"^^xsd:string, "splice region variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:splicing"^^xsd:string, "snpEff:SPLICE_SITE_BRANCH"^^xsd:string, "snpEff:SPLICE_SITE_BRANCH_U12"^^xsd:string ; oboInOwl:id "SO:0001630"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term: splice site - 1-3 bps into an exon or 3-8 bps into an intron."^^xsd:string ; rdfs:label "splice_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568 . obo:SO_0001631 obo:IAO_0000115 "A sequence variant located 5' of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:49:13Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:upstream_gene_variant"^^xsd:string, "VEP:upstream_gene_variant"^^xsd:string, "snpEff:UPSTREAM"^^xsd:string, "upstream gene variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:upstream"^^xsd:string ; oboInOwl:id "SO:0001631"^^xsd:string ; a owl:Class ; rdfs:comment "Different groups annotate up and downstream to different lengths. The subtypes are specific and are backed up with cross references."^^xsd:string ; rdfs:label "upstream_gene_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001628 . obo:SO_0001632 obo:IAO_0000115 "A sequence variant located 3' of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:49:38Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:downstream_gene_variant"^^xsd:string, "VEP:downstream_gene_variant"^^xsd:string, "downstream gene variant"^^xsd:string, "snpEff:DOWNSTREAM"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:downstream"^^xsd:string ; oboInOwl:id "SO:0001632"^^xsd:string ; a owl:Class ; rdfs:comment "Different groups annotate up and downstream to different lengths. The subtypes are specific and are backed up with cross references."^^xsd:string ; rdfs:label "downstream_gene_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001628 . obo:SO_0001633 obo:IAO_0000115 "A sequence variant located within 5 KB of the end of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:50:16Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "5KB downstream variant"^^xsd:string, "Seattleseq:downstream-gene"^^xsd:string, "downstream"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "within 5KB downstream"^^xsd:string ; oboInOwl:id "SO:0001633"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term Downstream variations - Within 5 kb downstream of the 3prime end of a transcript."^^xsd:string ; rdfs:label "5KB_downstream_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001632 . obo:SO_0001634 obo:IAO_0000115 "A sequence variant located within a half KB of the end of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:50:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "500B downstream variant"^^xsd:string, "near-gene-3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001634"^^xsd:string ; a owl:Class ; rdfs:label "500B_downstream_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001632 . obo:SO_0001635 obo:IAO_0000115 "A sequence variant located within 5KB 5' of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:51:06Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "5kb upstream variant"^^xsd:string, "Seattleseq:upstream-gene"^^xsd:string, "upstream"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001635"^^xsd:string ; a owl:Class ; rdfs:comment "EBI term Upstream variations - Within 5 kb upstream of the 5prime end of a transcript."^^xsd:string ; rdfs:label "5KB_upstream_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001631 . obo:SO_0001636 obo:IAO_0000115 "A sequence variant located within 2KB 5' of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-24T09:51:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "2KB upstream variant"^^xsd:string, "near-gene-5"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001636"^^xsd:string ; a owl:Class ; rdfs:label "2KB_upstream_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001631 . obo:SO_0001637 obo:IAO_0000115 "A gene that encodes for ribosomal RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-21T10:10:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "rDNA"^^xsd:string, "rRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001637"^^xsd:string ; a owl:Class ; rdfs:label "rRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0001638 obo:IAO_0000115 "A gene that encodes for an piwi associated RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-21T10:11:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "piRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001638"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from ncRNA_gene to sncRNA_gene 27 April 2021 to be more consistent with the organization of the ncRNA branch of SO. Requested by FlyBase, moved by Dave Sant. See GitHub Issue #514."^^xsd:string ; rdfs:label "piRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002342 . obo:SO_0001639 obo:IAO_0000115 "A gene that encodes an RNase P RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-21T10:13:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "RNase P RNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001639"^^xsd:string ; a owl:Class ; rdfs:label "RNase_P_RNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0001640 obo:IAO_0000115 "A gene that encodes a RNase_MRP_RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-21T10:13:58Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "RNase MRP RNA gene"^^xsd:string ; oboInOwl:id "SO:0001640"^^xsd:string ; a owl:Class ; rdfs:label "RNase_MRP_RNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0001641 obo:IAO_0000115 "A gene that encodes a long, intervening non-coding RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-21T10:14:24Z"^^xsd:string ; oboInOwl:hasExactSynonym "lincRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001641"^^xsd:string ; a owl:Class ; rdfs:label "lincRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002127 . obo:SO_0001642 obo:IAO_0000115 "A mathematically defined repeat (MDR) is a experimental feature that is determined by querying overlapping oligomers of length k against a database of shotgun sequence data and identifying regions in the query sequence that exceed a statistically determined threshold of repetitiveness."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-05-03T11:50:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "mathematically defined repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001642"^^xsd:string ; a owl:Class ; rdfs:comment "Mathematically defined repeat regions are determined without regard to the biological origin of the repetitive region. The repeat units of a MDR are the overlapping oligomers of size k that were used to for the query. Tools that can annotate mathematically defined repeats include Tallymer (Kurtz et al 2008, BMC Genomics: 517) and RePS (Wang et al, Genome Res 12(5): 824-831.)."^^xsd:string ; rdfs:label "mathematically_defined_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0001643 obo:IAO_0000115 "A telomerase RNA gene is a non coding RNA gene the RNA product of which is a component of telomerase."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-05-18T05:26:38Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://en.wikipedia.org/wiki/Telomerase_RNA_component"^^xsd:string ; oboInOwl:hasExactSynonym "TERC"^^xsd:string, "Telomerase RNA component"^^xsd:string, "telomerase RNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001643"^^xsd:string ; a owl:Class ; rdfs:label "telomerase_RNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0001644 obo:IAO_0000115 "An engineered vector that is able to take part in homologous recombination in a host with the intent of introducing site specific genomic modifications."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-05-28T02:05:25Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "targeting vector"^^xsd:string ; oboInOwl:id "SO:0001644"^^xsd:string ; a owl:Class ; rdfs:label "targeting_vector"^^xsd:string ; rdfs:subClassOf obo:SO_0000440, obo:SO_0000804, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000853 ], [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000440 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000853 ] [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000783 ] ) ] . obo:SO_0001645 obo:IAO_0000115 "A measurable sequence feature that varies within a population."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-05-28T02:33:07Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "genetic marker"^^xsd:string ; oboInOwl:id "SO:0001645"^^xsd:string ; a owl:Class ; rdfs:label "genetic_marker"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001646 obo:IAO_0000115 "A genetic marker, discovered using Diversity Arrays Technology (DArT) technology."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-05-28T02:34:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "DArT marker"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001646"^^xsd:string ; a owl:Class ; rdfs:label "DArT_marker"^^xsd:string ; rdfs:subClassOf obo:SO_0001645 . obo:SO_0001647 obo:IAO_0000115 "A kind of ribosome entry site, specific to Eukaryotic organisms that overlaps part of both 5' UTR and CDS sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-06-07T03:12:20Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Kozak_consensus_sequence"^^xsd:string ; oboInOwl:hasExactSynonym "kozak consensus"^^xsd:string, "kozak consensus sequence"^^xsd:string, "kozak sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001647"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "kozak_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000139 . obo:SO_0001648 obo:IAO_0000115 "A transposon that is disrupted by the insertion of another element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-06-23T03:22:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "nested transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001648"^^xsd:string ; a owl:Class ; rdfs:label "nested_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000101 . obo:SO_0001649 obo:IAO_0000115 "A repeat that is disrupted by the insertion of another element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-06-23T03:24:55Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:nested"^^xsd:string, "nested repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001649"^^xsd:string ; a owl:Class ; rdfs:label "nested_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0001650 obo:IAO_0000115 "A sequence variant which does not cause a disruption of the translational reading frame."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-07-19T01:24:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "VAAST:inframe_variant"^^xsd:string, "cds-indel"^^xsd:string, "inframe variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:nonframeshift block substitution"^^xsd:string, "ANNOVAR:nonframeshift substitution"^^xsd:string ; oboInOwl:id "SO:0001650"^^xsd:string ; a owl:Class ; rdfs:label "inframe_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001818 . obo:SO_0001651 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001821 ; a owl:Class ; owl:deprecated true . obo:SO_0001652 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001822 ; a owl:Class ; owl:deprecated true . obo:SO_0001653 obo:IAO_0000115 "A transcription factor binding site of variable direct repeats of the sequence PuGGTCA spaced by five nucleotides (DR5) found in the promoters of retinoic acid-responsive genes, to which retinoic acid receptors bind."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-08-03T10:46:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "RARE"^^xsd:string, "retinoic acid responsive element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001653"^^xsd:string ; a owl:Class ; rdfs:label "retinoic_acid_responsive_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000235 . obo:SO_0001654 obo:IAO_0000115 "A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-08-03T12:26:05Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "nucleotide to protein binding site"^^xsd:string ; oboInOwl:id "SO:0001654"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "nucleotide_to_protein_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000410 . obo:SO_0001655 obo:IAO_0000115 "A binding site that, in the molecule, interacts selectively and non-covalently with nucleotide residues."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-08-03T12:30:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "np_bind"^^xsd:string, "nucleotide binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001655"^^xsd:string ; a owl:Class ; rdfs:comment "See GO:0000166 : nucleotide binding."^^xsd:string ; rdfs:label "nucleotide_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000409 . obo:SO_0001656 obo:IAO_0000115 "A binding site that, in the molecule, interacts selectively and non-covalently with metal ions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-08-03T12:31:42Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "metal binding site"^^xsd:string ; oboInOwl:id "SO:0001656"^^xsd:string ; a owl:Class ; rdfs:comment "See GO:0046872 : metal ion binding."^^xsd:string ; rdfs:label "metal_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000409 . obo:SO_0001657 obo:IAO_0000115 "A binding site that, in the molecule, interacts selectively and non-covalently with a small molecule such as a drug, or hormone."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-08-03T12:32:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "ligand binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001657"^^xsd:string ; a owl:Class ; rdfs:label "ligand_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000409 . obo:SO_0001658 obo:IAO_0000115 "An NTR is a nested repeat of two distinct tandem motifs interspersed with each other."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-08-26T09:36:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "NTR"^^xsd:string, "nested tandem repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001658"^^xsd:string ; a owl:Class ; rdfs:comment "Tracker ID: 3052459."^^xsd:string ; rdfs:label "nested_tandem_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0001649 . obo:SO_0001659 obo:IAO_0000115 "An element that can exist within the promoter region of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T11:48:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "promoter element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001659"^^xsd:string ; a owl:Class ; rdfs:comment "Mmoved from is_a: SO:0001055 transcriptional_cis_regulatory_region as per request from GREEKC initiative in August 2020."^^xsd:string ; rdfs:label "promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:overlaps ; owl:someValuesFrom obo:SO_0000235 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000167 ] . obo:SO_0001660 obo:IAO_0000115 "An element that only exists within the promoter region of a eukaryotic gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T11:49:03Z"^^xsd:string ; oboInOwl:hasExactSynonym "core eukaryotic promoter element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "general transcription factor binding site"^^xsd:string ; oboInOwl:id "SO:0001660"^^xsd:string ; a owl:Class ; rdfs:label "core_eukaryotic_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0002309, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0002221 ] . obo:SO_0001661 obo:IAO_0000115 "A TATA box core promoter of a gene transcribed by RNA polymerase II."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T02:42:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "RNA polymerase II TATA box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001661"^^xsd:string ; a owl:Class ; rdfs:label "RNA_polymerase_II_TATA_box"^^xsd:string ; rdfs:subClassOf obo:SO_0000174, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0001662 obo:IAO_0000115 "A TATA box core promoter of a gene transcribed by RNA polymerase III."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T02:43:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "RNA polymerase III TATA box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001662"^^xsd:string ; a owl:Class ; rdfs:label "RNA_polymerase_III_TATA_box"^^xsd:string ; rdfs:subClassOf obo:SO_0000174, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000171 ] . obo:SO_0001663 obo:IAO_0000115 "A core RNA polymerase II promoter element with consensus (G/A)T(T/G/A)(T/A)(G/T)(T/G)(T/G)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T02:49:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "BREd"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "BREd motif"^^xsd:string ; oboInOwl:id "SO:0001663"^^xsd:string ; a owl:Class ; rdfs:label "BREd_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0001664 obo:IAO_0000115 "A discontinuous core element of RNA polymerase II transcribed genes, situated downstream of the TSS. It is composed of three sub elements: SI, SII and SIII."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T02:56:41Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "downstream core element"^^xsd:string ; oboInOwl:id "SO:0001664"^^xsd:string ; a owl:Class ; rdfs:label "DCE"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001669 ] . obo:SO_0001665 obo:IAO_0000115 "A sub element of the DCE core promoter element, with consensus sequence CTTC."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T03:00:10Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "DCE SI"^^xsd:string ; oboInOwl:id "SO:0001665"^^xsd:string ; a owl:Class ; rdfs:label "DCE_SI"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001664 ] . obo:SO_0001666 obo:IAO_0000115 "A sub element of the DCE core promoter element with consensus sequence CTGT."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T03:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DCE SII"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001666"^^xsd:string ; a owl:Class ; rdfs:label "DCE_SII"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001664 ] . obo:SO_0001667 obo:IAO_0000115 "A sub element of the DCE core promoter element with consensus sequence AGC."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T03:00:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "DCE SIII"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001667"^^xsd:string ; a owl:Class ; rdfs:label "DCE_SIII"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001664 ] . obo:SO_0001668 obo:IAO_0000115 "DNA segment that ranges from about -250 to -40 relative to +1 of RNA transcription start site, where sequence specific DNA-binding transcription factors binds, such as Sp1, CTF (CCAAT-binding transcription factor), and CBF (CCAAT-box binding factor)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T03:10:23Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "proximal promoter element"^^xsd:string, "specific transcription factor binding site"^^xsd:string ; oboInOwl:id "SO:0001668"^^xsd:string ; a owl:Class ; rdfs:label "proximal_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001678 . obo:SO_0001669 obo:IAO_0000115 "The minimal portion of the promoter required to properly initiate transcription in RNA polymerase II transcribed genes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T03:13:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "RNApol II core promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001669"^^xsd:string ; a owl:Class ; rdfs:label "RNApol_II_core_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000170 . obo:SO_0001670 obo:IAO_0000115 "A regulatory promoter element that is distal from the TSS."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-01T03:21:08Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "distal promoter element"^^xsd:string ; oboInOwl:id "SO:0001670"^^xsd:string ; a owl:Class ; rdfs:label "distal_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001678 . obo:SO_0001671 obo:IAO_0000115 "A DNA sequence to which bacterial RNA polymerase sigma 70 binds, to begin transcription."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T01:41:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "bacterial RNA polymerase promoter sigma 70"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001671"^^xsd:string ; a owl:Class ; rdfs:label "bacterial_RNApol_promoter_sigma_70_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000613 . obo:SO_0001672 obo:IAO_0000115 "A DNA sequence to which bacterial RNA polymerase sigma 54 binds, to begin transcription."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T01:42:37Z"^^xsd:string ; oboInOwl:hasExactSynonym "bacterial RNA polymerase promoter sigma54"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym ""^^xsd:string ; oboInOwl:id "SO:0001672"^^xsd:string ; a owl:Class ; rdfs:label "bacterial_RNApol_promoter_sigma54_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000613 . obo:SO_0001673 obo:IAO_0000115 "A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T01:44:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "minus 12 signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001673"^^xsd:string ; a owl:Class ; rdfs:label "minus_12_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001672 ] . obo:SO_0001674 obo:IAO_0000115 "A conserved region about 24-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T01:45:24Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "minus 24 signal"^^xsd:string ; oboInOwl:id "SO:0001674"^^xsd:string ; a owl:Class ; rdfs:label "minus_24_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001672 ] . obo:SO_0001675 obo:IAO_0000115 "An A box within an RNA polymerase III type 1 promoter."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T05:43:43Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "A box type 1"^^xsd:string ; oboInOwl:id "SO:0001675"^^xsd:string ; a owl:Class ; rdfs:comment "The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true."^^xsd:string ; rdfs:label "A_box_type_1"^^xsd:string ; rdfs:subClassOf obo:SO_0000619, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000617 ] . obo:SO_0001676 obo:IAO_0000115 "An A box within an RNA polymerase III type 2 promoter."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T05:44:18Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "A box type 2"^^xsd:string ; oboInOwl:id "SO:0001676"^^xsd:string ; a owl:Class ; rdfs:comment "The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true."^^xsd:string ; rdfs:label "A_box_type_2"^^xsd:string ; rdfs:subClassOf obo:SO_0000619, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000618 ] . obo:SO_0001677 obo:IAO_0000115 "A core promoter region of RNA polymerase III type 1 promoters."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-06T05:52:03Z"^^xsd:string ; oboInOwl:hasExactSynonym "IE"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "intermediate element"^^xsd:string ; oboInOwl:id "SO:0001677"^^xsd:string ; a owl:Class ; rdfs:label "intermediate_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001660, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000617 ] . obo:SO_0001678 obo:IAO_0000115 "A promoter element that is not part of the core promoter, but provides the promoter with a specific regulatory region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-07T04:39:48Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "regulatory promoter element"^^xsd:string ; oboInOwl:id "SO:0001678"^^xsd:string ; a owl:Class ; rdfs:label "regulatory_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001679 obo:IAO_0000115 "A regulatory region that is involved in the control of the process of transcription."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-12T03:49:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcription regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001679"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Obsoleted by David Sant on 11 Feb 2021 when it was merged with transcriptional_cis_regulatory_region (SO:0001055) to reduce redundancy and be consistent with Gene Ontology. See GitHub Issue #527."^^xsd:string ; rdfs:label "transcription_regulatory_region"^^xsd:string ; owl:deprecated true . obo:SO_0001680 obo:IAO_0000115 "A regulatory region that is involved in the control of the process of translation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-12T03:52:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "translation regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001680"^^xsd:string ; a owl:Class ; rdfs:label "translation_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0005836 . obo:SO_0001681 obo:IAO_0000115 "A regulatory region that is involved in the control of the process of recombination."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-12T03:53:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "recombination regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001681"^^xsd:string ; a owl:Class ; rdfs:label "recombination_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0005836 . obo:SO_0001682 obo:IAO_0000115 "A regulatory region that is involved in the control of the process of nucleotide replication."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-12T03:54:09Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:replication_regulatory_region"^^xsd:string, "replication regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001682"^^xsd:string ; a owl:Class ; rdfs:label "replication_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0005836 . obo:SO_0001683 obo:IAO_0000115 "A sequence motif is a nucleotide or amino-acid sequence pattern that may have biological significance."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T04:13:22Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Sequence_motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sequence motif"^^xsd:string ; oboInOwl:id "SO:0001683"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "sequence_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001684 obo:IAO_0000115 "An attribute of an experimentally derived feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-28T02:22:23Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "experimental feature attribute"^^xsd:string ; oboInOwl:id "SO:0001684"^^xsd:string ; a owl:Class ; rdfs:label "experimental_feature_attribute"^^xsd:string ; rdfs:subClassOf obo:SO_0000733 . obo:SO_0001685 obo:IAO_0000115 "The score of an experimentally derived feature such as a p-value."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-28T02:23:16Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001685"^^xsd:string ; a owl:Class ; rdfs:label "score"^^xsd:string ; rdfs:subClassOf obo:SO_0001684 . obo:SO_0001686 obo:IAO_0000115 "An experimental feature attribute that defines the quality of the feature in a quantitative way, such as a phred quality score."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-28T02:24:11Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "quality value"^^xsd:string ; oboInOwl:id "SO:0001686"^^xsd:string ; a owl:Class ; rdfs:label "quality_value"^^xsd:string ; rdfs:subClassOf obo:SO_0001684 . obo:SO_0001687 obo:IAO_0000115 "The nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:29:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "restriction endonuclease recognition site"^^xsd:string, "restriction enzyme recognition site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001687"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_recognition_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001954 . obo:SO_0001688 obo:IAO_0000115 "The boundary at which a restriction enzyme breaks the nucleotide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:35:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "restriction enzyme cleavage junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001688"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_cleavage_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0002204 . obo:SO_0001689 obo:IAO_0000115 "The restriction enzyme cleavage junction on the 5' strand of the nucleotide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:36:24Z"^^xsd:string ; oboInOwl:hasExactSynonym "5' restriction enzyme junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001689"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_restriction_enzyme_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0001694, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001692 ] . obo:SO_0001690 obo:IAO_0000115 "The restriction enzyme cleavage junction on the 3' strand of the nucleotide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:37:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "3' restriction enzyme junction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001690"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_restriction_enzyme_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0001694, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001692 ] . obo:SO_0001691 obo:IAO_0000115 "A restriction enzyme recognition site that, when cleaved, results in no overhangs."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:39:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "blunt end restriction enzyme cleavage site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001691"^^xsd:string ; a owl:Class ; rdfs:label "blunt_end_restriction_enzyme_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001687 . obo:SO_0001692 obo:IAO_0000115 "A site where restriction enzymes can cleave that will produce an overhang or 'sticky end'."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:40:50Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sticky end restriction enzyme cleavage site"^^xsd:string ; oboInOwl:id "SO:0001692"^^xsd:string ; a owl:Class ; rdfs:label "sticky_end_restriction_enzyme_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001687 . obo:SO_0001693 obo:IAO_0000115 "A restriction enzyme cleavage site where both strands are cut at the same position."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:43:14Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "blunt end restriction enzyme cleavage site"^^xsd:string ; oboInOwl:id "SO:0001693"^^xsd:string ; a owl:Class ; rdfs:label "blunt_end_restriction_enzyme_cleavage_junction"^^xsd:string ; rdfs:subClassOf obo:SO_0001688, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001691 ] . obo:SO_0001694 obo:IAO_0000115 "A restriction enzyme cleavage site whereby only one strand is cut."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:44:48Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "single strand restriction enzyme cleavage site"^^xsd:string ; oboInOwl:id "SO:0001694"^^xsd:string ; a owl:Class ; rdfs:label "single_strand_restriction_enzyme_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001688 . obo:SO_0001695 obo:IAO_0000115 "A terminal region of DNA sequence where the end of the region is not blunt ended."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-29T12:48:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "single strand overhang"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sticky end"^^xsd:string ; oboInOwl:id "SO:0001695"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_single_strand_overhang"^^xsd:string ; rdfs:subClassOf obo:SO_0001954, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001692 ] . obo:SO_0001696 obo:IAO_0000115 "A region that has been implicated in binding although the exact coordinates of binding may be unknown."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-11-02T11:39:59Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "experimentally defined binding region"^^xsd:string ; oboInOwl:id "SO:0001696"^^xsd:string ; a owl:Class ; rdfs:label "experimentally_defined_binding_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0001697 obo:IAO_0000115 "A region of sequence identified by CHiP seq technology to contain a protein binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-11-02T11:43:07Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ChIP seq region"^^xsd:string ; oboInOwl:id "SO:0001697"^^xsd:string ; a owl:Class ; rdfs:label "ChIP_seq_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001696, [ a owl:Restriction ; owl:onProperty so:contains ; owl:someValuesFrom obo:SO_0000410 ] . obo:SO_0001698 obo:IAO_0000115 "\"A primer containing an SNV at the 3' end for accurate genotyping."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-11-11T03:25:21Z"^^xsd:string ; oboInOwl:hasExactSynonym "ASPE primer"^^xsd:string, "allele specific primer extension primer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001698"^^xsd:string ; a owl:Class ; rdfs:label "ASPE_primer"^^xsd:string ; rdfs:subClassOf obo:SO_0000112 . obo:SO_0001699 obo:IAO_0000115 "A primer with one or more mismatches to the DNA template corresponding to a position within a restriction enzyme recognition site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-11-11T03:27:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "dCAPS primer"^^xsd:string, "derived cleaved amplified polymorphic primer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001699"^^xsd:string ; a owl:Class ; rdfs:label "dCAPS_primer"^^xsd:string ; rdfs:subClassOf obo:SO_0000112 . obo:SO_0001700 obo:IAO_0000115 "Histone modification is a post translationally modified region whereby residues of the histone protein are modified by methylation, acetylation, phosphorylation, ubiquitination, sumoylation, citrullination, or ADP-ribosylation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:22:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "histone modification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "histone modification site"^^xsd:string ; oboInOwl:id "SO:0001700"^^xsd:string ; a owl:Class ; rdfs:label "histone_modification"^^xsd:string ; rdfs:subClassOf obo:SO_0001089, obo:SO_0001720, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001089 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] ) ] . obo:SO_0001701 obo:IAO_0000115 "A histone modification site where the modification is the methylation of the residue."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:23:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "histone methylation"^^xsd:string, "histone methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001701"^^xsd:string ; a owl:Class ; rdfs:label "histone_methylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001700 . obo:SO_0001702 obo:IAO_0000115 "A histone modification where the modification is the acylation of the residue."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:23:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "histone acetylation"^^xsd:string, "histone acetylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001702"^^xsd:string ; a owl:Class ; rdfs:label "histone_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001700 . obo:SO_0001703 obo:IAO_0000115 "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:25:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K9 acetylation site"^^xsd:string, "H3K9ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001703"^^xsd:string ; a owl:Class ; rdfs:label "H3K9_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001704 obo:IAO_0000115 "A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:25:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K14 acetylation site"^^xsd:string, "H3K14ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001704"^^xsd:string ; a owl:Class ; rdfs:label "H3K14_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001705 obo:IAO_0000115 "A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is mono-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:28:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K4 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K4me1"^^xsd:string ; oboInOwl:id "SO:0001705"^^xsd:string ; a owl:Class ; rdfs:label "H3K4_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001734 . obo:SO_0001706 obo:IAO_0000115 "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:29:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K4 tri-methylation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K4me3"^^xsd:string ; oboInOwl:id "SO:0001706"^^xsd:string ; a owl:Class ; rdfs:label "H3K4_trimethylation"^^xsd:string ; rdfs:subClassOf obo:SO_0001734 . obo:SO_0001707 obo:IAO_0000115 "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:30:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K9 tri-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K9Me3"^^xsd:string ; oboInOwl:id "SO:0001707"^^xsd:string ; a owl:Class ; rdfs:label "H3K9_trimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001736 . obo:SO_0001708 obo:IAO_0000115 "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is mono-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:31:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2K27 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H2K27Me1"^^xsd:string ; oboInOwl:id "SO:0001708"^^xsd:string ; a owl:Class ; rdfs:label "H3K27_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001732 . obo:SO_0001709 obo:IAO_0000115 "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:32:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K27 tri-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K27Me3"^^xsd:string ; oboInOwl:id "SO:0001709"^^xsd:string ; a owl:Class ; rdfs:label "H3K27_trimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001732 . obo:SO_0001710 obo:IAO_0000115 "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is mono- methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:33:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K79 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K79me1"^^xsd:string ; oboInOwl:id "SO:0001710"^^xsd:string ; a owl:Class ; rdfs:label "H3K79_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001735 . obo:SO_0001711 obo:IAO_0000115 "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is di-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:34:39Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K79 di-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K79Me2"^^xsd:string ; oboInOwl:id "SO:0001711"^^xsd:string ; a owl:Class ; rdfs:label "H3K79_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001735 . obo:SO_0001712 obo:IAO_0000115 "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:35:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K79 tri-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K79Me3"^^xsd:string ; oboInOwl:id "SO:0001712"^^xsd:string ; a owl:Class ; rdfs:label "H3K79_trimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001735 . obo:SO_0001713 obo:IAO_0000115 "A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H4histone protein is mono-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:36:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K20 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H4K20Me1"^^xsd:string ; oboInOwl:id "SO:0001713"^^xsd:string ; a owl:Class ; rdfs:label "H4K20_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001714 obo:IAO_0000115 "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B protein is methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-31T10:38:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2BK5 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001714"^^xsd:string ; a owl:Class ; rdfs:label "H2BK5_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001715 obo:IAO_0000115 "An ISRE is a transcriptional cis regulatory region, containing the consensus region: YAGTTTC(A/T)YTTTYCC, responsible for increased transcription via interferon binding."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-05T11:15:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "interferon stimulated response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001715"^^xsd:string ; a owl:Class ; rdfs:comment "Term requested via tracker (2981725) by Alan Ruttenberg, April 2010. It has been described as both an enhancer and a promoter, so the parent is the more general term. Moved from is_a SO:0001055 transcriptional_cis_regulatory_region to SO:0000235 TF_binding_site after Colin Logie pointed out that this is a consensus sequence where transcription factors bind, GREEKC Jan 21, 2021."^^xsd:string ; rdfs:label "ISRE"^^xsd:string ; rdfs:subClassOf obo:SO_0000235 . obo:SO_0001716 obo:IAO_0000115 "A histone modification site where ubiquitin may be added."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:12:18Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "histone ubiquitination site"^^xsd:string ; oboInOwl:id "SO:0001716"^^xsd:string ; a owl:Class ; rdfs:label "histone_ubiqitination_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001700 . obo:SO_0001717 obo:IAO_0000115 "A histone modification site on H2B where ubiquitin may be added."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:13:28Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H2BUbiq"^^xsd:string ; oboInOwl:id "SO:0001717"^^xsd:string ; a owl:Class ; rdfs:label "H2B_ubiquitination_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001716 . obo:SO_0001718 obo:IAO_0000115 "A kind of histone modification site, whereby the 18th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:39:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K18 acetylation site"^^xsd:string, "H3K18ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001718"^^xsd:string ; a owl:Class ; rdfs:label "H3K18_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001719 obo:IAO_0000115 "A kind of histone modification, whereby the 23rd residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:42:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K23 acetylation site"^^xsd:string, "H3K23ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001719"^^xsd:string ; a owl:Class ; rdfs:label "H3K23_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001720 obo:IAO_0000115 "A biological DNA region implicated in epigenomic changes caused by mechanisms other than changes in the underlying DNA sequence. This includes, nucleosomal histone post-translational modifications, nucleosome depletion to render DNA accessible and post-replicational base modifications such as cytosine modification."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-03-27T12:02:29Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "epigenetically modified region"^^xsd:string ; oboInOwl:id "SO:0001720"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Moved from is_a biological_region (SO:0001411) to is_a regulatory_region (SO:0005836) on 11 Feb 2021. GREEKC members pointed out that this would be a more appropriate location. See GitHub Issue #530. 11 Feb 2021 updated definition along with addition of epigenomically_modified_region (SO:0002332). Epigenetically modified region is now not inherited while epigenomically modified region is not annotated as inherited. See GitHub Issue #532 and issue #534."^^xsd:string ; rdfs:label "epigenetically_modified_region"^^xsd:string ; rdfs:subClassOf obo:SO_0005836, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0001411 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] ) ] . obo:SO_0001721 obo:IAO_0000115 "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:44:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K27 acylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K27Ac"^^xsd:string ; oboInOwl:id "SO:0001721"^^xsd:string ; a owl:Class ; rdfs:label "H3K27_acylation_site"^^xsd:string ; owl:deprecated true . obo:SO_0001722 obo:IAO_0000115 "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is mono-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:46:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K36 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K36Me1"^^xsd:string ; oboInOwl:id "SO:0001722"^^xsd:string ; a owl:Class ; rdfs:label "H3K36_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001733 . obo:SO_0001723 obo:IAO_0000115 "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is dimethylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T10:59:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K36 di-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K36Me2"^^xsd:string ; oboInOwl:id "SO:0001723"^^xsd:string ; a owl:Class ; rdfs:label "H3K36_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001733 . obo:SO_0001724 obo:IAO_0000115 "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:01:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K36 tri-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K36Me3"^^xsd:string ; oboInOwl:id "SO:0001724"^^xsd:string ; a owl:Class ; rdfs:label "H3K36_trimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001733 . obo:SO_0001725 obo:IAO_0000115 "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is di-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:03:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K4 di-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K4Me2"^^xsd:string ; oboInOwl:id "SO:0001725"^^xsd:string ; a owl:Class ; rdfs:label "H3K4_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001734 . obo:SO_0001726 obo:IAO_0000115 "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is di-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T01:45:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K27 di-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K27Me2"^^xsd:string ; oboInOwl:id "SO:0001726"^^xsd:string ; a owl:Class ; rdfs:label "H3K27_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001732 . obo:SO_0001727 obo:IAO_0000115 "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is mono-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:06:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K9 mono-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K9Me1"^^xsd:string ; oboInOwl:id "SO:0001727"^^xsd:string ; a owl:Class ; rdfs:label "H3K9_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001736 . obo:SO_0001728 obo:IAO_0000115 "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein may be dimethylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:08:19Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K9 di-methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H3K9Me2"^^xsd:string ; oboInOwl:id "SO:0001728"^^xsd:string ; a owl:Class ; rdfs:label "H3K9_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001736 . obo:SO_0001729 obo:IAO_0000115 "A kind of histone modification site, whereby the 16th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:09:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K16 acetylation site"^^xsd:string, "H4K16ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001729"^^xsd:string ; a owl:Class ; rdfs:label "H4K16_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001972 . obo:SO_0001730 obo:IAO_0000115 "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:13:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K5 acetylation site"^^xsd:string, "H4K5ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001730"^^xsd:string ; a owl:Class ; rdfs:label "H4K5_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001972 . obo:SO_0001731 obo:IAO_0000115 "A kind of histone modification site, whereby the 8th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:14:24Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K8 acetylation site"^^xsd:string, "H4K8ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001731"^^xsd:string ; a owl:Class ; rdfs:label "H4K8_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001972 . obo:SO_0001732 obo:IAO_0000115 "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:26:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K27 methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001732"^^xsd:string ; a owl:Class ; rdfs:label "H3K27_methylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001733 obo:IAO_0000115 "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:27:28Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K36 methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001733"^^xsd:string ; a owl:Class ; rdfs:label "H3K36_methylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001734 obo:IAO_0000115 "A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:28:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K4 methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001734"^^xsd:string ; a owl:Class ; rdfs:label "H3K4_methylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001735 obo:IAO_0000115 "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:29:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K79 methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001735"^^xsd:string ; a owl:Class ; rdfs:label "H3K79_methylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001736 obo:IAO_0000115 "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T11:31:37Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K9 methylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001736"^^xsd:string ; a owl:Class ; rdfs:label "H3K9_methylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001737 obo:IAO_0000115 "A histone modification, whereby the histone protein is acylated at multiple sites in a region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T01:58:21Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "histone acylation region"^^xsd:string ; oboInOwl:id "SO:0001737"^^xsd:string ; a owl:Class ; rdfs:label "histone_acylation_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001700 . obo:SO_0001738 obo:IAO_0000115 "A region of the H4 histone whereby multiple lysines are acylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-04-13T02:00:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K acylation region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H4KAc"^^xsd:string ; oboInOwl:id "SO:0001738"^^xsd:string ; a owl:Class ; rdfs:label "H4K_acylation_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001737 . obo:SO_0001739 obo:IAO_0000115 "A gene with a start codon other than AUG."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-01-10T01:30:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "gene with non canonical start codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001739"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by flybase, Dec 2010."^^xsd:string ; rdfs:label "gene_with_non_canonical_start_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000704, [ a owl:Restriction ; owl:onProperty so:contains ; owl:someValuesFrom obo:SO_0000680 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000704 [ a owl:Restriction ; owl:onProperty so:contains ; owl:someValuesFrom obo:SO_0000680 ] ) ] . obo:SO_0001740 obo:IAO_0000115 "A gene with a translational start codon of CUG."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-01-10T01:32:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "gene with start codon CUG"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001740"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by flybase, Dec 2010."^^xsd:string ; rdfs:label "gene_with_start_codon_CUG"^^xsd:string ; rdfs:subClassOf obo:SO_0001739 . obo:SO_0001741 obo:IAO_0000115 "A gene segment which when incorporated by somatic recombination in the final gene transcript results in a nonfunctional product."^^xsd:string ; oboInOwl:created_by "batchelorc"^^xsd:string ; oboInOwl:creation_date "2011-02-15T05:07:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "pseudogenic gene segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001741"^^xsd:string ; a owl:Class ; rdfs:label "pseudogenic_gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_3000000 . obo:SO_0001742 obo:IAO_0000115 "A sequence alteration whereby the copy number of a given regions is greater than the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T01:54:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "copy number gain"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "gain"^^xsd:string ; oboInOwl:id "SO:0001742"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "copy_number_gain"^^xsd:string ; rdfs:subClassOf obo:SO_0001019 . obo:SO_0001743 obo:IAO_0000115 "A sequence alteration whereby the copy number of a given region is less than the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T01:55:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "copy number loss"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "loss"^^xsd:string ; oboInOwl:id "SO:0001743"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "copy_number_loss"^^xsd:string ; rdfs:subClassOf obo:SO_0001019 . obo:SO_0001744 obo:IAO_0000115 "Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from one parent and no copies of the same chromosome or region from the other parent."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T02:01:05Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://en.wikipedia.org/wiki/Uniparental_disomy"^^xsd:string ; oboInOwl:hasExactSynonym "UPD"^^xsd:string, "uniparental disomy"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001744"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "UPD"^^xsd:string ; rdfs:subClassOf obo:SO_0001059 . obo:SO_0001745 obo:IAO_0000115 "Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from the mother and no copies of the same chromosome or region from the father."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T02:03:01Z"^^xsd:string ; oboInOwl:hasExactSynonym "maternal uniparental disomy"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001745"^^xsd:string ; a owl:Class ; rdfs:label "maternal_uniparental_disomy"^^xsd:string ; rdfs:subClassOf obo:SO_0001744 . obo:SO_0001746 obo:IAO_0000115 "Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from the father and no copies of the same chromosome or region from the mother."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T02:03:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "paternal uniparental disomy"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001746"^^xsd:string ; a owl:Class ; rdfs:label "paternal_uniparental_disomy"^^xsd:string ; rdfs:subClassOf obo:SO_0001744 . obo:SO_0001747 obo:IAO_0000115 "A DNA sequence that in the normal state of the chromosome corresponds to an unfolded, un-complexed stretch of double-stranded DNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T02:21:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "open chromatin region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001747"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by John Calley 3125900."^^xsd:string ; rdfs:label "open_chromatin_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001748 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL3 RNA leader sequence to the 5' end of an mRNA. SL3 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T02:58:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL3 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001748"^^xsd:string ; a owl:Class ; rdfs:label "SL3_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001749 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL4 RNA leader sequence to the 5' end of an mRNA. SL4 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:08:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL4 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001749"^^xsd:string ; a owl:Class ; rdfs:label "SL4_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001750 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL5 RNA leader sequence to the 5' end of an mRNA. SL5 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:09:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL5 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001750"^^xsd:string ; a owl:Class ; rdfs:label "SL5_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001751 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL6 RNA leader sequence to the 5' end of an mRNA. SL6 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:10:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL6 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001751"^^xsd:string ; a owl:Class ; rdfs:label "SL6_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001752 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL7 RNA leader sequence to the 5' end of an mRNA. SL7 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:13:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL37 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001752"^^xsd:string ; a owl:Class ; rdfs:label "SL7_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001753 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL8 RNA leader sequence to the 5' end of an mRNA. SL8 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:15:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL8 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001753"^^xsd:string ; a owl:Class ; rdfs:label "SL8_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001754 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL9 RNA leader sequence to the 5' end of an mRNA. SL9 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:15:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL9 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001754"^^xsd:string ; a owl:Class ; rdfs:label "SL9_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001755 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL10 RNA leader sequence to the 5' end of an mRNA. SL10 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:16:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL10 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001755"^^xsd:string ; a owl:Class ; rdfs:label "SL10_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001756 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL11 RNA leader sequence to the 5' end of an mRNA. SL11 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:16:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL11 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001756"^^xsd:string ; a owl:Class ; rdfs:label "SL11_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001757 obo:IAO_0000115 "A SL2_acceptor_site which appends the SL12 RNA leader sequence to the 5' end of an mRNA. SL12 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-02-28T03:17:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "SL12 acceptor site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001757"^^xsd:string ; a owl:Class ; rdfs:label "SL12_acceptor_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000709 . obo:SO_0001758 obo:IAO_0000115 "A pseudogene that arose via gene duplication. Generally duplicated pseudogenes have the same structure as the original gene, including intron-exon structure and some regulatory sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-09T09:58:04Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "duplicated pseudogene"^^xsd:string ; oboInOwl:id "SO:0001758"^^xsd:string ; a owl:Class ; rdfs:label "duplicated_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0001759 obo:IAO_0000115 "A pseudogene, deactivated from original state by mutation, fixed in a population,where the ortholog in a reference species such as mouse remains functional."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-09T10:04:04Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:gene"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:unitary"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "disabled gene"^^xsd:string, "unitary pseudogene"^^xsd:string ; oboInOwl:id "SO:0001759"^^xsd:string ; a owl:Class ; rdfs:comment "This is different from a non processed pseudogene because the gene was not duplicated. An example is the L-gulono-lactone oxidase pseudogene in primates."^^xsd:string ; rdfs:label "unitary_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0001760 obo:IAO_0000115 "A pseudogene that arose from a means other than retrotransposition. A pseudogene created via genomic duplication of a functional protein-coding parent gene followed by accumulation of deleterious mutations."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-09T10:54:47Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:gene"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:unprocessed"^^xsd:string, "unprocessed pseudogene"^^xsd:string, "unprocessed_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "non processed pseudogene"^^xsd:string ; oboInOwl:id "SO:0001760"^^xsd:string ; a owl:Class ; rdfs:label "non_processed_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000336 . obo:SO_0001761 obo:IAO_0000115 "A dependent entity that inheres in a bearer, a sequence variant."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:40:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "variant quality"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001761"^^xsd:string ; a owl:Class ; rdfs:label "variant_quality"^^xsd:string ; rdfs:subClassOf obo:SO_0000400 . obo:SO_0001762 obo:IAO_0000115 "A quality inhering in a variant by virtue of its origin."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:42:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "variant origin"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001762"^^xsd:string ; a owl:Class ; rdfs:label "variant_origin"^^xsd:string ; rdfs:subClassOf obo:SO_0001761 . obo:SO_0001763 obo:IAO_0000115 "A physical quality which inheres to the variant by virtue of the number instances of the variant within a population."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:44:39Z"^^xsd:string ; oboInOwl:hasExactSynonym "variant frequency"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001763"^^xsd:string ; a owl:Class ; rdfs:label "variant_frequency"^^xsd:string ; rdfs:subClassOf obo:SO_0001761 . obo:SO_0001764 obo:IAO_0000115 "A physical quality which inheres to the variant by virtue of the number instances of the variant within a population."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:47:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "unique variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001764"^^xsd:string ; a owl:Class ; rdfs:label "unique_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001763 . obo:SO_0001765 obo:IAO_0000115 "When a variant from the genomic sequence is rarely found in the general population. The threshold for 'rare' varies between studies."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:48:29Z"^^xsd:string ; oboInOwl:hasExactSynonym "rare variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001765"^^xsd:string ; a owl:Class ; rdfs:label "rare_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001763 . obo:SO_0001766 obo:IAO_0000115 "A variant that affects one of several possible alleles at that location, such as the major histocompatibility complex (MHC) genes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:48:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "polymorphic variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001766"^^xsd:string ; a owl:Class ; rdfs:label "polymorphic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001763 . obo:SO_0001767 obo:IAO_0000115 "When a variant from the genomic sequence is commonly found in the general population."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:50:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "common variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001767"^^xsd:string ; a owl:Class ; rdfs:label "common_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001763 . obo:SO_0001768 obo:IAO_0000115 "When a variant has become fixed in the population so that it is now the only variant."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:50:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "fixed variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001768"^^xsd:string ; a owl:Class ; rdfs:label "fixed_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001763 . obo:SO_0001769 obo:IAO_0000115 "A quality inhering in a variant by virtue of its phenotype."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:53:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "variant phenotype"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001769"^^xsd:string ; a owl:Class ; rdfs:label "variant_phenotype"^^xsd:string ; rdfs:subClassOf obo:SO_0001761 . obo:SO_0001770 obo:IAO_0000115 "A variant that does not affect the function of the gene or cause disease."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T03:55:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "benign variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001770"^^xsd:string ; a owl:Class ; rdfs:label "benign_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001769 . obo:SO_0001771 obo:IAO_0000115 "A variant that has been found to be associated with disease."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:05:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "disease associated variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001771"^^xsd:string ; a owl:Class ; rdfs:label "disease_associated_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001769 . obo:SO_0001772 obo:IAO_0000115 "A variant that has been found to cause disease."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:05:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "disease causing variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001772"^^xsd:string ; a owl:Class ; rdfs:label "disease_causing_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001769 . obo:SO_0001773 obo:IAO_0000115 "A sequence variant where the mutated gene product does not allow for one or more basic functions necessary for survival."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:06:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "lethal variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001773"^^xsd:string ; a owl:Class ; rdfs:label "lethal_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0001774 obo:IAO_0000115 "A variant within a gene that contributes to a quantitative trait such as height or weight."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:28:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "quantitative variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001774"^^xsd:string ; a owl:Class ; rdfs:label "quantitative_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001769 . obo:SO_0001775 obo:IAO_0000115 "A variant in the genetic material inherited from the mother."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:30:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "maternal variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001775"^^xsd:string ; a owl:Class ; rdfs:label "maternal_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001776 obo:IAO_0000115 "A variant in the genetic material inherited from the father."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:30:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "paternal variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001776"^^xsd:string ; a owl:Class ; rdfs:label "paternal_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001777 obo:IAO_0000115 "A variant that has arisen after splitting of the embryo, resulting in the variant being found in only some of the tissues or cells of the body."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:31:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "somatic variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001777"^^xsd:string ; a owl:Class ; rdfs:label "somatic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001778 obo:IAO_0000115 "A variant present in the embryo that is carried by every cell in the body."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:31:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "germline variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001778"^^xsd:string ; a owl:Class ; rdfs:label "germline_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001779 obo:IAO_0000115 "A variant that is found only by individuals that belong to the same pedigree."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:32:18Z"^^xsd:string ; oboInOwl:hasExactSynonym "pedigree specific variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001779"^^xsd:string ; a owl:Class ; rdfs:label "pedigree_specific_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001780 obo:IAO_0000115 "A variant found within only speficic populations."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:33:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "population specific variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001780"^^xsd:string ; a owl:Class ; rdfs:label "population_specific_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001781 obo:IAO_0000115 "A variant arising in the offspring that is not found in either of the parents."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-15T04:33:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "de novo variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001781"^^xsd:string ; a owl:Class ; rdfs:label "de_novo_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001762 . obo:SO_0001782 obo:IAO_0000115 "A sequence variant located within a transcription factor binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-17T10:59:20Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:tf_binding_site_variant"^^xsd:string, "TF binding site variant"^^xsd:string, "VEP:TF_binding_site_variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001782"^^xsd:string ; a owl:Class ; rdfs:label "TF_binding_site_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001566 . obo:SO_0001783 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001583 ; a owl:Class ; owl:deprecated true . obo:SO_0001784 obo:IAO_0000115 "A structural sequence alteration or rearrangement encompassing one or more genome fragments, with 4 or more breakpoints."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-23T03:21:19Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000146"^^xsd:string ; oboInOwl:hasExactSynonym "complex chromosomal mutation"^^xsd:string, "complex_chromosomal_mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "complex"^^xsd:string ; oboInOwl:id "SO:0001784"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "complex_structural_alteration"^^xsd:string ; rdfs:subClassOf obo:SO_0001785, obo:SO_1000183 . obo:SO_0001785 obo:IAO_0000115 "An alteration of the genome that leads to a change in the structure of one or more chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-25T02:27:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "structural alteration"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001785"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "structural_alteration"^^xsd:string ; rdfs:subClassOf obo:SO_0001059 . obo:SO_0001786 obo:IAO_0000115 "A functional variant whereby the sequence alteration causes a loss of function of one allele of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-03-25T02:32:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "LOH"^^xsd:string, "loss of heterozygosity"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001786"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "loss_of_heterozygosity"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0001787 obo:IAO_0000115 "A sequence variant that causes a change at the 5th base pair after the start of the intron in the orientation of the transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-04-05T04:16:28Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice donor 5th base variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001787"^^xsd:string ; a owl:Class ; rdfs:label "splice_donor_5th_base_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001629 . obo:SO_0001788 obo:IAO_0000115 "An U-box is a conserved T-rich region upstream of a retroviral polypurine tract that is involved in PPT primer creation during reverse transcription."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-04-08T10:39:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "U-box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001788"^^xsd:string ; a owl:Class ; rdfs:label "U_box"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000186 ] . obo:SO_0001789 obo:IAO_0000115 "A specialized region in the genomes of some yeast and fungi, the genes of which regulate mating type."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-04-08T11:14:07Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Mating-type_region"^^xsd:string ; oboInOwl:hasExactSynonym "mating type region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001789"^^xsd:string ; a owl:Class ; rdfs:label "mating_type_region"^^xsd:string ; rdfs:subClassOf obo:SO_0005855 . obo:SO_0001790 obo:IAO_0000115 "An assembly region that has been sequenced from both ends resulting in a read_pair (mate_pair)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-04-14T01:48:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "paired end fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001790"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "paired_end_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000143 . obo:SO_0001791 obo:IAO_0000115 "A sequence variant that changes exon sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-06T01:51:17Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:exonic"^^xsd:string, "Jannovar:exon_variant"^^xsd:string, "VAAST:exon_variant"^^xsd:string, "exon variant"^^xsd:string, "snpEff:EXON"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001791"^^xsd:string ; a owl:Class ; rdfs:label "exon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001792 obo:IAO_0000115 "A sequence variant that changes non-coding exon sequence in a non-coding transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-06T01:51:59Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "Seattleseq:non-coding-exon"^^xsd:string, "VEP:non_coding_transcript_exon_variant"^^xsd:string, "non coding transcript exon variant"^^xsd:string, "non_coding_transcript_exon_variant"^^xsd:string, "snpEff:non_coding_exon_variant"^^xsd:string ; oboInOwl:hasNarrowSynonym "ANNOVAR:ncRNA_exonic"^^xsd:string, "Jannovar:non_coding_transcript_exon_variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Seattleseq:non-coding-exon-near-splice"^^xsd:string ; oboInOwl:id "SO:0001792"^^xsd:string ; a owl:Class ; rdfs:label "non_coding_transcript_exon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001619, obo:SO_0001791 . obo:SO_0001793 obo:IAO_0000115 "A read from an end of the clone sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-13T11:32:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "clone end"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001793"^^xsd:string ; a owl:Class ; rdfs:label "clone_end"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000151 ] . obo:SO_0001794 obo:IAO_0000115 "A point centromere is a relatively small centromere (about 125 bp DNA) in discrete sequence, found in some yeast including S. cerevisiae."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T12:42:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "point centromere"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001794"^^xsd:string ; a owl:Class ; rdfs:label "point_centromere"^^xsd:string ; rdfs:subClassOf obo:SO_0000577 . obo:SO_0001795 obo:IAO_0000115 "A regional centromere is a large modular centromere found in fission yeast and higher eukaryotes. It consist of a central core region flanked by inverted inner and outer repeat regions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T12:43:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "regional centromere"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001795"^^xsd:string ; a owl:Class ; rdfs:label "regional_centromere"^^xsd:string ; rdfs:subClassOf obo:SO_0000577 . obo:SO_0001796 obo:IAO_0000115 "A conserved region within the central region of a modular centromere, where the kinetochore is formed."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T12:56:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "regional centromere central core"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001796"^^xsd:string ; a owl:Class ; rdfs:label "regional_centromere_central_core"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001795 ] . obo:SO_0001797 obo:IAO_0000115 "A repeat region found within the modular centromere."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T12:59:27Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:centromeric_repeat"^^xsd:string, "centromeric repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001797"^^xsd:string ; a owl:Class ; rdfs:label "centromeric_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0001798 obo:IAO_0000115 "The inner inverted repeat region of a modular centromere and part of the central core surrounding a non-conserved central region. This region is adjacent to the central core, on each chromosome arm."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T01:01:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "lmr repeat"^^xsd:string, "lmr1L"^^xsd:string, "lmr1R"^^xsd:string, "regional centromere inner repeat region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001798"^^xsd:string ; a owl:Class ; rdfs:label "regional_centromere_inner_repeat_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001797, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001795 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001796 ] . obo:SO_0001799 obo:IAO_0000115 "The heterochromatic outer repeat region of a modular centromere. These repeats exist in tandem arrays on both chromosome arms."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T01:03:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "regional centromere outer repeat region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001799"^^xsd:string ; a owl:Class ; rdfs:label "regional_centromere_outer_repeat_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001797, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001795 ] . obo:SO_0001800 obo:IAO_0000115 "The sequence of a 21 nucleotide double stranded, polyadenylated non coding RNA, transcribed from the TAS gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T03:24:06Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "trans acting small interfering RNA"^^xsd:string ; oboInOwl:id "SO:0001800"^^xsd:string ; a owl:Class ; rdfs:label "tasiRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001801 ] . obo:SO_0001801 obo:IAO_0000115 "A primary transcript encoding a tasiRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-05-31T03:27:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "tasiRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001801"^^xsd:string ; a owl:Class ; rdfs:label "tasiRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0001802 obo:IAO_0000115 "A transcript processing variant whereby polyadenylation of the encoded transcript is increased with respect to the reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-01T10:53:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "increased polyadenylation variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001802"^^xsd:string ; a owl:Class ; rdfs:comment "Term requested by M. Dumontier, June 1 2011."^^xsd:string ; rdfs:label "increased_polyadenylation_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001545 . obo:SO_0001803 obo:IAO_0000115 "A transcript processing variant whereby polyadenylation of the encoded transcript is decreased with respect to the reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-01T10:53:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "decreased polyadenylation variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001803"^^xsd:string ; a owl:Class ; rdfs:comment "Term requested by M. Dumontier, June 1 2011."^^xsd:string ; rdfs:label "decreased_polyadenylation_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001545 . obo:SO_0001804 obo:IAO_0000115 "A conserved polypeptide motif that mediates protein-protein interaction and defines adaptor proteins for DDB1/cullin 4 ubiquitin ligases."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:10:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "DDB box"^^xsd:string, "DDB-box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001804"^^xsd:string ; a owl:Class ; rdfs:comment "Note: PMID:18794354 describes the DDB box, and has lots of alignments, but doesn't actually come out with a consensus sequence."^^xsd:string ; rdfs:label "DDB_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001093 . obo:SO_0001805 obo:IAO_0000115 "A conserved polypeptide motif that can be recognized by both Fizzy/Cdc20- and FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is RXXLXXXXN."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:16:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "D-box"^^xsd:string, "destruction box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001805"^^xsd:string ; a owl:Class ; rdfs:label "destruction_box"^^xsd:string ; rdfs:subClassOf obo:SO_0100017 . obo:SO_0001806 obo:IAO_0000115 "A C-terminal tetrapeptide motif that mediates retention of a protein in (or retrieval to) the endoplasmic reticulum. In mammals the sequence is KDEL, and in fungi HDEL or DDEL."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:19:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "ER retention signal"^^xsd:string, "endoplasmic reticulum retention signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001806"^^xsd:string ; a owl:Class ; rdfs:label "ER_retention_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001807 obo:IAO_0000115 "A conserved polypeptide motif that can be recognized by FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is KENXXXN."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:24:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "KEN box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001807"^^xsd:string ; a owl:Class ; rdfs:label "KEN_box"^^xsd:string ; rdfs:subClassOf obo:SO_0100017 . obo:SO_0001808 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to the mitochondrion."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:26:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "MTS"^^xsd:string, "mitochondrial signal sequence"^^xsd:string, "mitochondrial targeting signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001808"^^xsd:string ; a owl:Class ; rdfs:label "mitochondrial_targeting_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001809 obo:IAO_0000115 "A signal sequence that is not cleaved from the polypeptide. Anchors a Type II membrane protein to the membrane."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:28:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "signal anchor"^^xsd:string, "uncleaved signal peptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001809"^^xsd:string ; a owl:Class ; rdfs:label "signal_anchor"^^xsd:string ; rdfs:subClassOf obo:SO_0000418 . obo:SO_0001810 obo:IAO_0000115 "A polypeptide region that mediates binding to PCNA. The consensus sequence is QXX(hh)XX(aa), where (h) denotes residues with moderately hydrophobic side chains and (a) denotes residues with highly hydrophobic aromatic side chains."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:33:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "PIP box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001810"^^xsd:string ; a owl:Class ; rdfs:label "PIP_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001093 . obo:SO_0001811 obo:IAO_0000115 "A post-translationally modified region in which residues of the protein are modified by phosphorylation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:36:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "phosphorylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001811"^^xsd:string ; a owl:Class ; rdfs:label "phosphorylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001089 . obo:SO_0001812 obo:IAO_0000115 "A region that traverses the lipid bilayer and adopts a helical secondary structure."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:39:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "transmembrane helix"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001812"^^xsd:string ; a owl:Class ; rdfs:label "transmembrane_helix"^^xsd:string ; rdfs:subClassOf obo:SO_0001114, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001077 ] . obo:SO_0001813 obo:IAO_0000115 "A polypeptide region that targets a polypeptide to the vacuole."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-17T12:42:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "vacuolar sorting signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001813"^^xsd:string ; a owl:Class ; rdfs:label "vacuolar_sorting_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0001527 . obo:SO_0001814 obo:IAO_0000115 "An attribute of a coding genomic variant."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-24T03:32:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "coding variant quality"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001814"^^xsd:string ; a owl:Class ; rdfs:label "coding_variant_quality"^^xsd:string ; rdfs:subClassOf obo:SO_0001761 . obo:SO_0001815 obo:IAO_0000115 "A variant that does not lead to any change in the amino acid sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-24T03:33:16Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001815"^^xsd:string ; a owl:Class ; rdfs:label "synonymous"^^xsd:string ; rdfs:subClassOf obo:SO_0001814 . obo:SO_0001816 obo:IAO_0000115 "A variant that leads to the change of an amino acid within the protein."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-24T03:33:36Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "non synonymous"^^xsd:string ; oboInOwl:id "SO:0001816"^^xsd:string ; a owl:Class ; rdfs:label "non_synonymous"^^xsd:string ; rdfs:subClassOf obo:SO_0001814 . obo:SO_0001817 obo:IAO_0000115 "An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is divisible by 3."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-24T03:34:03Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001817"^^xsd:string ; a owl:Class ; rdfs:label "inframe"^^xsd:string ; rdfs:subClassOf obo:SO_0000863 . obo:SO_0001818 obo:IAO_0000115 "A sequence_variant which is predicted to change the protein encoded in the coding sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-24T03:38:02Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:protein_altering_variant"^^xsd:string, "protein altering variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001818"^^xsd:string ; a owl:Class ; rdfs:label "protein_altering_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001580 . obo:SO_0001819 obo:IAO_0000115 "A sequence variant where there is no resulting change to the encoded amino acid."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-24T03:38:30Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001588"^^xsd:string ; oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string, "http://en.wikipedia.org/wiki/Silent_mutation"^^xsd:string, "http://en.wikipedia.org/wiki/Synonymous_mutation"^^xsd:string, "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string, "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:synonymous_variant"^^xsd:string, "Seattleseq:synonymous"^^xsd:string, "VAAST:synonymous_codon"^^xsd:string, "VAAST:synonymous_variant"^^xsd:string, "VAT:synonymous"^^xsd:string, "VEP:synonymous_variant"^^xsd:string, "coding-synon"^^xsd:string, "snpEff:SYNONYMOUS_CODING"^^xsd:string, "synonymous codon"^^xsd:string, "synonymous_coding"^^xsd:string, "synonymous_codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "ANNOVAR:synonymous SNV"^^xsd:string, "Seattleseq:synonymous-near-splice"^^xsd:string, "silent mutation"^^xsd:string, "silent substitution"^^xsd:string, "silent_mutation"^^xsd:string ; oboInOwl:id "SO:0001819"^^xsd:string ; a owl:Class ; rdfs:comment """EBI term: Synonymous SNPs - In coding sequence, not resulting in an amino acid change (i.e. silent mutation). This term is sometimes used synonomously with the more general term 'silent mutation', although a silent mutation may occur in non coding sequence. The best practice is to annotate to the most specific term."""^^xsd:string ; rdfs:label "synonymous_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001580 . obo:SO_0001820 obo:IAO_0000115 "A coding sequence variant where the change does not alter the frame of the transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:25:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "inframe change in CDS length"^^xsd:string, "inframe indel"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001820"^^xsd:string ; a owl:Class ; rdfs:label "inframe_indel"^^xsd:string ; rdfs:subClassOf obo:SO_0001650 . obo:SO_0001821 obo:IAO_0000115 "An inframe non synonymous variant that inserts bases into in the coding sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:26:22Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001651"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:nonframeshift insertion"^^xsd:string, "Jannovar:inframe_insertion"^^xsd:string, "VAT:insertionNFS"^^xsd:string, "VEP:inframe_insertion"^^xsd:string, "inframe increase in CDS length"^^xsd:string, "inframe insertion"^^xsd:string, "inframe_codon_gain"^^xsd:string, "snpEFF:CODON_INSERTION"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "inframe codon gain"^^xsd:string ; oboInOwl:id "SO:0001821"^^xsd:string ; a owl:Class ; rdfs:label "inframe_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001820, obo:SO_0001908 . obo:SO_0001822 obo:IAO_0000115 "An inframe non synonymous variant that deletes bases from the coding sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:27:10Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001652"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http://vat.gersteinlab.org/formats.php"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:nonframeshift deletion"^^xsd:string, "Jannovar:inframe_deletion"^^xsd:string, "VAT:deletionNFS"^^xsd:string, "VEP:inframe_deletion"^^xsd:string, "inframe decrease in CDS length"^^xsd:string, "inframe_codon_loss"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "inframe codon loss"^^xsd:string, "inframe deletion"^^xsd:string, "snpEff:CODON_DELETION"^^xsd:string ; oboInOwl:id "SO:0001822"^^xsd:string ; a owl:Class ; rdfs:label "inframe_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0001820, obo:SO_0001906 . obo:SO_0001823 obo:IAO_0000115 "An inframe increase in cds length that inserts one or more codons into the coding sequence between existing codons."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:28:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "conservative increase in CDS length"^^xsd:string, "conservative inframe insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001823"^^xsd:string ; a owl:Class ; rdfs:label "conservative_inframe_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001821 . obo:SO_0001824 obo:IAO_0000115 "An inframe increase in cds length that inserts one or more codons into the coding sequence within an existing codon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:28:37Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:disruptive_inframe_insertion"^^xsd:string, "disruptive increase in CDS length"^^xsd:string, "disruptive inframe insertion"^^xsd:string, "snpEff:CODON_CHANGE_PLUS_CODON_INSERTION"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001824"^^xsd:string ; a owl:Class ; rdfs:label "disruptive_inframe_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001821 . obo:SO_0001825 obo:IAO_0000115 "An inframe decrease in cds length that deletes one or more entire codons from the coding sequence but does not change any remaining codons."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:30:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "conservative inframe deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "conservative decrease in CDS length"^^xsd:string ; oboInOwl:id "SO:0001825"^^xsd:string ; a owl:Class ; rdfs:label "conservative_inframe_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0001822 . obo:SO_0001826 obo:IAO_0000115 "An inframe decrease in cds length that deletes bases from the coding sequence starting within an existing codon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-27T11:31:31Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:disruptive_inframe_deletion"^^xsd:string, "disruptive decrease in CDS length"^^xsd:string, "disruptive inframe deletion"^^xsd:string, "snpEff:CODON_CHANGE_PLUS_CODON_DELETION"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001826"^^xsd:string ; a owl:Class ; rdfs:label "disruptive_inframe_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0001822 . obo:SO_0001827 obo:IAO_0000115 "A sequencer read of an mRNA substrate."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-28T04:04:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "mRNA read"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001827"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience June, 2011."^^xsd:string ; rdfs:label "mRNA_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0001828 obo:IAO_0000115 "A sequencer read of a genomic DNA substrate."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-28T04:06:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "gDNA read"^^xsd:string, "gDNA_read"^^xsd:string, "genomic DNA read"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001828"^^xsd:string ; a owl:Class ; rdfs:label "genomic_DNA_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150 . obo:SO_0001829 obo:IAO_0000115 "A contig composed of mRNA_reads."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-28T04:07:09Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mRNA contig"^^xsd:string ; oboInOwl:id "SO:0001829"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience June, 2011."^^xsd:string ; rdfs:label "mRNA_contig"^^xsd:string ; rdfs:subClassOf obo:SO_0000149 . obo:SO_0001830 obo:IAO_0000115 "A PCR product obtained by applying the AFLP technique, based on a restriction enzyme digestion of genomic DNA and an amplification of the resulting fragments."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-07-14T12:12:35Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Amplified_fragment_length_polymorphism"^^xsd:string ; oboInOwl:hasExactSynonym "AFLP"^^xsd:string, "AFLP fragment"^^xsd:string, "AFLP-PCR"^^xsd:string, "amplified fragment length polymorphism"^^xsd:string, "amplified fragment length polymorphism PCR"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001830"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience June, 2011."^^xsd:string ; rdfs:label "AFLP_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000006 . obo:SO_0001831 obo:IAO_0000115 "A match to a protein HMM such as pfam."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-08-11T03:20:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "protein hmm match"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001831"^^xsd:string ; a owl:Class ; rdfs:label "protein_hmm_match"^^xsd:string ; rdfs:subClassOf obo:SO_0000349 . obo:SO_0001832 obo:IAO_0000115 "A region of immunoglobulin sequence, either constant or variable."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-09-01T03:27:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "immunoglobulin region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001832"^^xsd:string ; a owl:Class ; rdfs:label "immunoglobulin_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001833 obo:IAO_0000115 "The variable region of an immunoglobulin polypeptide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-09-01T03:28:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:V_region"^^xsd:string, "V region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001833"^^xsd:string ; a owl:Class ; rdfs:label "V_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001832 . obo:SO_0001834 obo:IAO_0000115 "The constant region of an immunoglobulin polypeptide sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-09-01T03:29:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "C region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001834"^^xsd:string ; a owl:Class ; rdfs:label "C_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001832 . obo:SO_0001835 obo:IAO_0000115 "Extra nucleotides inserted between rearranged immunoglobulin segments."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-09-01T03:50:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:N_region"^^xsd:string, "N-region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001835"^^xsd:string ; a owl:Class ; rdfs:label "N_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0001836 obo:IAO_0000115 "The switch region of immunoglobulin heavy chains; it is involved in the rearrangement of heavy chain DNA leading to the expression of a different immunoglobulin classes from the same B-cell."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-09-01T03:52:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:S_region"^^xsd:string, "S region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001836"^^xsd:string ; a owl:Class ; rdfs:label "S_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000301 . obo:SO_0001837 obo:IAO_0000115 "A kind of insertion where the inserted sequence is a mobile element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-04T12:36:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "mobile element insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001837"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by the EBI."^^xsd:string ; rdfs:label "mobile_element_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0000667, [ a owl:Restriction ; owl:onProperty so:contains ; owl:someValuesFrom obo:SO_0001037 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000667 [ a owl:Restriction ; owl:onProperty so:contains ; owl:someValuesFrom obo:SO_0001037 ] ) ] . obo:SO_0001838 obo:IAO_0000115 "An insertion the sequence of which cannot be mapped to the reference genome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-04T01:14:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "novel sequence insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001838"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by the NCBI."^^xsd:string ; rdfs:label "novel_sequence_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0000667 . obo:SO_0001839 obo:IAO_0000115 "A promoter element with consensus sequence GTGRGAA, bound by CSL (CBF1/RBP-JK/Suppressor of Hairless/LAG-1) transcription factors."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T03:37:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "CSL response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001839"^^xsd:string ; a owl:Class ; rdfs:label "CSL_response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001840 obo:IAO_0000115 "A GATA transcription factor element containing the consensus sequence WGATAR (in which W indicates A/T and R indicates A/G)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T03:42:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "GATA box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "GATA element"^^xsd:string ; oboInOwl:id "SO:0001840"^^xsd:string ; a owl:Class ; rdfs:comment "Changed to is_a SO:0001055 transcriptional_cis_regulatory_region from core_eukaryotic_promoter_element SO:0001660 after Ruth Lovering from GREEKC initiative pointed out that GATA boxes are frequently in enhancer regions, Dave Sant Aug 2020. Moved from is_a SO:0001055 transcriptional_cis_regulatory_region to SO:0000235 TF_binding_site after Colin Logie pointed out that this is a consensus sequence where transcription factors bind, GREEKC Jan 21, 2021."^^xsd:string ; rdfs:label "GATA_box"^^xsd:string ; rdfs:subClassOf obo:SO_0000235 . obo:SO_0001841 obo:IAO_0000115 "A pseudogene in the reference genome, though known to be intact in the genomes of other individuals of the same species. The annotation process has confirmed that the pseudogenisation event is not a genomic sequencing error."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T03:46:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "polymorphic psuedogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001841"^^xsd:string ; a owl:Class ; rdfs:comment "This terms is used by Ensembl and Vega. Pseudogene owing to a SNP/DIP but in other individuals/haplotypes/strains the gene is translated."^^xsd:string ; rdfs:label "polymorphic_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000336 . obo:SO_0001842 obo:IAO_0000115 "A promoter element with consensus sequence TGACTCA, bound by AP-1 and related transcription factors."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T03:54:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "AP-1 binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001842"^^xsd:string ; a owl:Class ; rdfs:label "AP_1_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001843 obo:IAO_0000115 """MERGED DEFINITION: TARGET DEFINITION: A promoter element with consensus sequence TGACGTCA; bound by the ATF/CREB family of transcription factors. -------------------- SOURCE DEFINITION: A promoter element that contains a core sequence TGACGT, bound by a protein complex that regulates transcription of genes encoding PKA pathway components."""^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T03:58:48Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001900"^^xsd:string ; oboInOwl:hasExactSynonym "ATF/CRE site"^^xsd:string, "Atf1/Pcr1 recognition motif"^^xsd:string, "M26 binding site"^^xsd:string, "M26_binding_site"^^xsd:string, "cyclic AMP response element"^^xsd:string, "m26 site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001843"^^xsd:string ; a owl:Class ; rdfs:comment "New synonym Atf1/Pcr1 recognition motif added in response to Antonia Lock GitHub Issue Request #437, PMID:15716492"^^xsd:string ; rdfs:label "CRE"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001844 obo:IAO_0000115 "A promoter element bound by copper ion-sensing transcription factors such as S. cerevisiae Mac1p or S. pombe Cuf1; the consensus sequence is HTHNNGCTGD (more specifically TTTGCKCR in budding yeast)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:02:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "copper-response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001844"^^xsd:string ; a owl:Class ; rdfs:label "CuRE"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001845 obo:IAO_0000115 "A promoter element with consensus sequence CGWGGWNGMM, bound by transcription factors related to RecA and found in promoters of genes expressed following several types of DNA damage or inhibition of DNA synthesis."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:17:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "DNA damage response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001845"^^xsd:string ; a owl:Class ; rdfs:label "DRE"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001846 obo:IAO_0000115 "A promoter element that has consensus sequence GTAAACAAACAAAM and contains a heptameric core GTAAACA, bound by transcription factors with a forkhead DNA-binding domain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:20:01Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "FLEX element"^^xsd:string ; oboInOwl:id "SO:0001846"^^xsd:string ; a owl:Class ; rdfs:label "FLEX_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001847 obo:IAO_0000115 "A promoter element with consensus sequence TTTRTTTACA, bound by transcription factors with a forkhead DNA-binding domain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:22:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "forkhead motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001847"^^xsd:string ; a owl:Class ; rdfs:label "forkhead_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001848 obo:IAO_0000115 "A core promoter element that has the consensus sequence CAGTCACA (or its inverted form TGTGACTG), and plays the role of a TATA box in promoters that do not contain a canonical TATA sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:24:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "homoID"^^xsd:string, "homol D box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001848"^^xsd:string ; a owl:Class ; rdfs:label "homol_D_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001660 . obo:SO_0001849 obo:IAO_0000115 "A core promoter element that has the consensus sequence ACCCTACCCT (or its inverted form AGGGTAGGGT), and is found near the homol D box in some promoters that use a homol D box instead of a canonical TATA sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:26:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "homol E box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001849"^^xsd:string ; a owl:Class ; rdfs:label "homol_E_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001850 obo:IAO_0000115 "A promoter element that consists of at least three copies of the pentanucleotide NGAAN, bound by the heat shock transcription factor HSF."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:29:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "heat shock element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001850"^^xsd:string ; a owl:Class ; rdfs:label "HSE"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001851 obo:IAO_0000115 "A GATA promoter element with consensus sequence WGATAA, found in promoters of genes repressed in the presence of iron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:32:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "IDP (GATA)"^^xsd:string, "iron repressed GATA element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001851"^^xsd:string ; a owl:Class ; rdfs:comment "The synonym IDP (GATA) is found in an annotation but un-traced as far as literature goes."^^xsd:string ; rdfs:label "iron_repressed_GATA_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001840 . obo:SO_0001852 obo:IAO_0000115 "A promoter element with consensus sequence ACAAT, found in promoters of mating type M-specific genes in fission yeast and bound by the transcription factor Mat1-Mc."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-07T04:39:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "mating type M-box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001852"^^xsd:string ; a owl:Class ; rdfs:comment "Note that this should not be confused with the M-box that has consensus sequence CATGTG and is bound by bHLH transcription factors such as MITF."^^xsd:string ; rdfs:label "mating_type_M_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001853 obo:IAO_0000115 "A non-palindromic sequence found in the promoters of genes whose expression is regulated in response to androgen."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-10T04:52:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "ARE"^^xsd:string, "androgen response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001853"^^xsd:string ; a owl:Class ; rdfs:label "androgen_response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0001854 obo:IAO_0000115 "A smFISH is a probe that binds RNA in a single molecule in situ hybridization experiment."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-10T05:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "single molecule fish probe"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "smFISH probe"^^xsd:string ; oboInOwl:id "SO:0001854"^^xsd:string ; a owl:Class ; rdfs:label "smFISH_probe"^^xsd:string ; rdfs:subClassOf obo:SO_0000051 . obo:SO_0001855 obo:IAO_0000115 "A promoter element with consensus sequence ACGCGT, bound by the transcription factor complex MBF (MCB-binding factor) and found in promoters of genes expressed during the G1/S transition of the cell cycle."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-10T05:09:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "MluI cell cycle box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001855"^^xsd:string ; a owl:Class ; rdfs:label "MCB"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001856 obo:IAO_0000115 "A promoter element with consensus sequence CCAAT, bound by a protein complex that represses transcription in response to low iron levels."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-10T05:13:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "CCAAT motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001856"^^xsd:string ; a owl:Class ; rdfs:label "CCAAT_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001857 obo:IAO_0000115 "A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-10T05:19:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "Ace2 upstream activating sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001857"^^xsd:string ; a owl:Class ; rdfs:label "Ace2_UAS"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001858 obo:IAO_0000115 "A promoter element with consensus sequence TTCTTTGTTY, bound an HMG-box transcription factor such as S. pombe Ste11, and found in promoters of genes up-regulated early in meiosis."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-10T05:22:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "TR box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001858"^^xsd:string ; a owl:Class ; rdfs:label "TR_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001859 obo:IAO_0000115 "A promoter element with consensus sequence CCCCTC, bound by the PKA-responsive zinc finger transcription factor Rst2."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-14T10:25:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "stress-starvation response element of Schizosaccharomyces pombe"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "STREP motif"^^xsd:string ; oboInOwl:id "SO:0001859"^^xsd:string ; a owl:Class ; rdfs:label "STREP_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001860 obo:IAO_0000115 "A DNA motif that contains a core consensus sequence AGGTAAGGGTAATGCAC, is found in the intergenic regions of rDNA repeats, and is bound by an RNA polymerase I transcription termination factor (e.g. S. pombe Reb1). The S. pombe telomeric repeat consensus is TTAC(0-1)A(0-1)G(1-8)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-19T11:23:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "rDIS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001860"^^xsd:string ; a owl:Class ; rdfs:comment "Page 208 of ISBN:978-0199638901"^^xsd:string ; rdfs:label "rDNA_intergenic_spacer_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0001861 obo:IAO_0000115 "A 10-bp promoter element bound by sterol regulatory element binding proteins (SREBPs), found in promoters of genes involved in sterol metabolism. Many variants of the sequence ATCACCCCAC function as SREs."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-19T03:02:05Z"^^xsd:string ; oboInOwl:hasBroadSynonym "SRE"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001861"^^xsd:string ; a owl:Class ; rdfs:label "sterol_regulatory_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001862 obo:IAO_0000115 "A dinucleotide repeat region composed of GT repeating elements."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-19T03:54:37Z"^^xsd:string ; oboInOwl:hasExactSynonym "d(GT)n"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001862"^^xsd:string ; a owl:Class ; rdfs:comment "paper:PMID:16043634."^^xsd:string ; rdfs:label "GT_dinucleotide_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000290 . obo:SO_0001863 obo:IAO_0000115 "A trinucleotide repeat region composed of GTT repeating elements."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-19T03:56:54Z"^^xsd:string ; oboInOwl:hasExactSynonym "d(GTT)"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001863"^^xsd:string ; a owl:Class ; rdfs:label "GTT_trinucleotide_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000291 . obo:SO_0001864 obo:IAO_0000115 "A DNA motif to which the S. pombe Sap1 protein binds. The consensus sequence is 5'-TARGCAGNTNYAACGMG-3'; it is found at the mating type locus, where it is important for mating type switching, and at replication fork barriers in rDNA repeats."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-19T04:24:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "Sap1 recognitions site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001864"^^xsd:string ; a owl:Class ; rdfs:label "Sap1_recognition_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0001865 obo:IAO_0000115 "An RNA polymerase II promoter element found in the promoters of genes regulated by calcineurin. The consensus sequence is GNGGCKCA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-10-20T10:12:19Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDRE motif"^^xsd:string, "calcineurin-dependent response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001865"^^xsd:string ; a owl:Class ; rdfs:label "CDRE_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001866 obo:IAO_0000115 "A contig of BAC reads."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-01-17T02:45:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "BAC read contig"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001866"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience December, 2011."^^xsd:string ; rdfs:label "BAC_read_contig"^^xsd:string ; rdfs:subClassOf obo:SO_0000149, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000153 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000153 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000149 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000153 ] ) ] . obo:SO_0001867 obo:IAO_0000115 "A gene suspected of being involved in the expression of a trait."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-01-17T02:53:03Z"^^xsd:string ; oboInOwl:hasExactSynonym "candidate gene"^^xsd:string, "target gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001867"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience December, 2011."^^xsd:string ; rdfs:label "candidate_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704 . obo:SO_0001868 obo:IAO_0000115 "A candidate gene whose association with a trait is based on the gene's location on a chromosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-01-17T02:54:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "positional candidate gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "positional target gene"^^xsd:string ; oboInOwl:id "SO:0001868"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience December, 2011."^^xsd:string ; rdfs:label "positional_candidate_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001867 . obo:SO_0001869 obo:IAO_0000115 "A candidate gene whose function has something in common biologically with the trait under investigation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-01-17T02:57:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "functional candidate gene"^^xsd:string, "functional target gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001869"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience December, 2011."^^xsd:string ; rdfs:label "functional_candidate_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001867 . obo:SO_0001870 obo:IAO_0000115 "A short ncRNA that is transcribed from an enhancer. May have a regulatory function."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-01-17T03:09:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "eRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001870"^^xsd:string ; a owl:Class ; rdfs:label "enhancerRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:transcribed_from ; owl:someValuesFrom obo:SO_0000165 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000655 [ a owl:Restriction ; owl:onProperty so:transcribed_from ; owl:someValuesFrom obo:SO_0000165 ] ) ] . obo:SO_0001871 obo:IAO_0000115 "A promoter element with consensus sequence GNAACR, bound by the transcription factor complex PBF (PCB-binding factor) and found in promoters of genes expressed during the M/G1 transition of the cell cycle."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-01-17T03:14:02Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001871"^^xsd:string ; a owl:Class ; rdfs:label "PCB"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001872 obo:IAO_0000115 "A region of a chromosome, where the chromosome has undergone a large structural rearrangement that altered the genome organization. There is no longer synteny to the reference genome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-02-03T04:38:35Z"^^xsd:string ; oboInOwl:hasExactSynonym "rearrangement region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001872"^^xsd:string ; a owl:Class ; rdfs:comment "NCBI definition: An orphan rearrangement between chromosomal location observed in isolation."^^xsd:string ; rdfs:label "rearrangement_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, obo:SO_0001785 . obo:SO_0001873 obo:IAO_0000115 "A rearrangement breakpoint between two different chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-02-03T04:43:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "interchromosomal breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001873"^^xsd:string ; a owl:Class ; rdfs:label "interchromosomal_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0001874 obo:IAO_0000115 "A rearrangement breakpoint within the same chromosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-02-03T04:44:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "intrachromosomal breakpoint"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001874"^^xsd:string ; a owl:Class ; rdfs:label "intrachromosomal_breakpoint"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0001875 obo:IAO_0000115 "A supercontig that is not been assigned to any ultracontig during a genome assembly project."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-02-14T05:02:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "unassigned supercontig"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "unassigned scaffold"^^xsd:string ; oboInOwl:id "SO:0001875"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience January, 2012."^^xsd:string ; rdfs:label "unassigned_supercontig"^^xsd:string ; rdfs:subClassOf obo:SO_0000148 . obo:SO_0001876 obo:IAO_0000115 "A partial DNA sequence assembly of a chromosome or full genome, which contains gaps that are filled with N's."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-02-14T05:05:32Z"^^xsd:string ; oboInOwl:hasBroadSynonym "pseudomolecule"^^xsd:string ; oboInOwl:hasExactSynonym "partial genomic sequence assembly"^^xsd:string, "sequence assembly with N-gaps"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001876"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience January, 2012."^^xsd:string ; rdfs:label "partial_genomic_sequence_assembly"^^xsd:string ; rdfs:subClassOf obo:SO_0000353 . obo:SO_0001877 obo:IAO_0000115 "A non-coding RNA over 200nucleotides in length."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-02-14T05:18:01Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:ncRNA"^^xsd:string ; oboInOwl:hasDbXref "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:lncRNA"^^xsd:string, "lncRNA_transcript"^^xsd:string, "long non-coding RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001877"^^xsd:string ; a owl:Class ; rdfs:label "lncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0001878 obo:IAO_0000115 "A sequence variant that falls entirely or partially within a genomic feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T11:27:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "feature alteration"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001878"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "feature_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001537 . obo:SO_0001879 obo:IAO_0000115 "A sequence variant, caused by an alteration of the genomic sequence, where the deletion, is greater than the extent of the underlying genomic features."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T11:36:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "feature ablation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001879"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "feature_ablation"^^xsd:string ; rdfs:subClassOf obo:SO_0001537 . obo:SO_0001880 obo:IAO_0000115 "A sequence variant, caused by an alteration of the genomic sequence, where the structural change, an amplification of sequence, is greater than the extent of the underlying genomic features."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T11:37:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "feature amplification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001880"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "feature_amplification"^^xsd:string ; rdfs:subClassOf obo:SO_0001537 . obo:SO_0001881 obo:IAO_0000115 "A sequence variant, caused by an alteration of the genomic sequence, where the structural change, a translocation, is greater than the extent of the underlying genomic features."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T11:38:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "feature translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001881"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "feature_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0001537 . obo:SO_0001882 obo:IAO_0000115 "A sequence variant, caused by an alteration of the genomic sequence, where a deletion fuses genomic features."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T11:39:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "feature fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001882"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "feature_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001537 . obo:SO_0001883 obo:IAO_0000115 "A feature translocation where the region contains a transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:29:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001883"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "transcript_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0001881 . obo:SO_0001884 obo:IAO_0000115 "A feature translocation where the region contains a regulatory region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:31:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "regulatory region translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001884"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "regulatory_region_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0001881 . obo:SO_0001885 obo:IAO_0000115 "A feature translocation where the region contains a transcription factor binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:31:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "TFBS binding site translocation"^^xsd:string, "transcription factor binding site translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001885"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "TFBS_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0001884 . obo:SO_0001886 obo:IAO_0000115 "A feature fusion where the deletion brings together transcript regions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:34:56Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001886"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "transcript_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001882 . obo:SO_0001887 obo:IAO_0000115 "A feature fusion where the deletion brings together regulatory regions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:35:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "regulatory region fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001887"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "regulatory_region_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001882 . obo:SO_0001888 obo:IAO_0000115 "A fusion where the deletion brings together transcription factor binding sites."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:36:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "TFBS fusion "^^xsd:string, "transcription factor binding site fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001888"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "TFBS_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001887 . obo:SO_0001889 obo:IAO_0000115 "A feature amplification of a region containing a transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:39:23Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:transcript_amplification"^^xsd:string, "transcript amplification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001889"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "transcript_amplification"^^xsd:string ; rdfs:subClassOf obo:SO_0001880 . obo:SO_0001890 obo:IAO_0000115 "A feature fusion where the deletion brings together a regulatory region and a transcript region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:40:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcript regulatory region fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001890"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "transcript_regulatory_region_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001882 . obo:SO_0001891 obo:IAO_0000115 "A feature amplification of a region containing a regulatory region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:41:28Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:regulatory_region_amplification"^^xsd:string, "regulatory region amplification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001891"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "regulatory_region_amplification"^^xsd:string ; rdfs:subClassOf obo:SO_0001880 . obo:SO_0001892 obo:IAO_0000115 "A feature amplification of a region containing a transcription factor binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:42:48Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "TFBS amplification "^^xsd:string, "VEP:TFBS_amplification"^^xsd:string, "transcription factor binding site amplification"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001892"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "TFBS_amplification"^^xsd:string ; rdfs:subClassOf obo:SO_0001891 . obo:SO_0001893 obo:IAO_0000115 "A feature ablation whereby the deleted region includes a transcript feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:44:19Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:transcript_ablation"^^xsd:string, "VEP:transcript_ablation"^^xsd:string, "transcript ablation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001893"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "transcript_ablation"^^xsd:string ; rdfs:subClassOf obo:SO_0001879 . obo:SO_0001894 obo:IAO_0000115 "A feature ablation whereby the deleted region includes a regulatory region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:45:13Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:regulatory_region_ablation"^^xsd:string, "regulatory region ablation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001894"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "regulatory_region_ablation"^^xsd:string ; rdfs:subClassOf obo:SO_0001879 . obo:SO_0001895 obo:IAO_0000115 "A feature ablation whereby the deleted region includes a transcription factor binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-03T12:45:56Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "TFBS ablation"^^xsd:string, "VEP:TFBS_ablation"^^xsd:string, "transcription factor binding site ablation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001895"^^xsd:string ; a owl:Class ; rdfs:comment "Created in conjunction with the EBI."^^xsd:string ; rdfs:label "TFBS_ablation"^^xsd:string ; rdfs:subClassOf obo:SO_0001894 . obo:SO_0001896 obo:IAO_0000115 "A CDS that is part of a transposable element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-05T01:57:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "transposable element CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001896"^^xsd:string ; a owl:Class ; rdfs:label "transposable_element_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000316, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000101 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000316 [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000101 ] ) ] . obo:SO_0001897 obo:IAO_0000115 "A pseudogene contained within a transposable element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-05T04:09:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "transposable element pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001897"^^xsd:string ; a owl:Class ; rdfs:label "transposable_element_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000336, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000101 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000336 [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000101 ] ) ] . obo:SO_0001898 obo:IAO_0000115 "A repeat region which is part of the regional centromere outer repeat region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-06T11:48:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "dg repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001898"^^xsd:string ; a owl:Class ; rdfs:comment "For the S. pombe project - requested by Val Wood."^^xsd:string ; rdfs:label "dg_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0001797, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001799 ] . obo:SO_0001899 obo:IAO_0000115 "A repeat region which is part of the regional centromere outer repeat region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-06T11:50:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "dh repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001899"^^xsd:string ; a owl:Class ; rdfs:comment "For the S. pombe project - requested by Val Wood."^^xsd:string ; rdfs:label "dh_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0001797, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001799 ] . obo:SO_0001900 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001843 ; a owl:Class ; owl:deprecated true . obo:SO_0001901 obo:IAO_0000115 "A conserved 17-bp sequence (5'-ATCA(C/A)AACCCTAACCCT-3') commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-06T12:05:24Z"^^xsd:string ; oboInOwl:hasExactSynonym "AACCCT box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001901"^^xsd:string ; a owl:Class ; rdfs:label "AACCCT_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001660 . obo:SO_0001902 obo:IAO_0000115 "A region surrounding a cis_splice site, either within 1-3 bases of the exon or 3-8 bases of the intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-06T12:23:32Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "splice region"^^xsd:string ; oboInOwl:id "SO:0001902"^^xsd:string ; a owl:Class ; rdfs:label "splice_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000835, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000185 ] . obo:SO_0001903 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0002131 ; a owl:Class ; owl:deprecated true . obo:SO_0001904 obo:IAO_0000115 "Non-coding RNA transcribed from the opposite DNA strand compared with other transcripts and overlap in part with sense RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-06T04:36:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "natural antisense transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "antisense lncRNA"^^xsd:string ; oboInOwl:id "SO:0001904"^^xsd:string ; a owl:Class ; rdfs:comment "Relationship is_a SO:0000644 antisense_RNA added 23 April 2021. See GitHub Issue #443"^^xsd:string ; rdfs:label "antisense_lncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000644, obo:SO_0001877 . obo:SO_0001905 obo:IAO_0000115 "A transcript that is transcribed from the outer repeat region of a regional centromere."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-11T04:54:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "centromere outer repeat transcript"^^xsd:string, "regional centromere outer repeat region transcript"^^xsd:string, "regional_centromere_outer_repeat_region_transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001905"^^xsd:string ; a owl:Class ; rdfs:label "regional_centromere_outer_repeat_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000185, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001799 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000185 [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001799 ] ) ] . obo:SO_0001906 obo:IAO_0000115 "A sequence variant that causes the reduction of a genomic feature, with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-12T05:05:28Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:feature_truncation"^^xsd:string, "VEP:feature_truncation"^^xsd:string, "feature truncation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001906"^^xsd:string ; a owl:Class ; rdfs:label "feature_truncation"^^xsd:string ; rdfs:subClassOf obo:SO_0001878 . obo:SO_0001907 obo:IAO_0000115 "A sequence variant that causes the extension of a genomic feature, with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-12T05:05:56Z"^^xsd:string ; oboInOwl:hasDbXref "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "VEP:feature_elongation"^^xsd:string, "feature elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001907"^^xsd:string ; a owl:Class ; rdfs:label "feature_elongation"^^xsd:string ; rdfs:subClassOf obo:SO_0001878 . obo:SO_0001908 obo:IAO_0000115 "A sequence variant that causes the extension of a genomic feature from within the feature rather than from the terminus of the feature, with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-12T05:06:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:internal_feature_elongation"^^xsd:string, "internal feature elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001908"^^xsd:string ; a owl:Class ; rdfs:label "internal_feature_elongation"^^xsd:string ; rdfs:subClassOf obo:SO_0001907 . obo:SO_0001909 obo:IAO_0000115 "A frameshift variant that causes the translational reading frame to be extended relative to the reference feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-12T05:10:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:frameshift insertion"^^xsd:string, "Jannovar:frameshift_elongation"^^xsd:string, "frameshift elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001909"^^xsd:string ; a owl:Class ; rdfs:label "frameshift_elongation"^^xsd:string ; rdfs:subClassOf obo:SO_0001589, obo:SO_0001908 . obo:SO_0001910 obo:IAO_0000115 "A frameshift variant that causes the translational reading frame to be shortened relative to the reference feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-12T05:10:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:frameshift deletion"^^xsd:string, "Jannovar:frameshift_truncation"^^xsd:string, "frameshift truncation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001910"^^xsd:string ; a owl:Class ; rdfs:label "frameshift_truncation"^^xsd:string ; rdfs:subClassOf obo:SO_0001589, obo:SO_0001906 . obo:SO_0001911 obo:IAO_0000115 "A sequence variant where copies of a feature are increased relative to the reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-13T11:26:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "copy number increase"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001911"^^xsd:string ; a owl:Class ; rdfs:label "copy_number_increase"^^xsd:string ; rdfs:subClassOf obo:SO_0001563 . obo:SO_0001912 obo:IAO_0000115 "A sequence variant where copies of a feature are decreased relative to the reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-04-13T11:27:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "copy number decrease"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001912"^^xsd:string ; a owl:Class ; rdfs:label "copy_number_decrease"^^xsd:string ; rdfs:subClassOf obo:SO_0001563 . obo:SO_0001913 obo:IAO_0000115 "A bacterial promoter with sigma ecf factor binding dependency. This is a type of bacterial promoters that requires a sigma ECF factor to bind to identified -10 and -35 sequence regions in order to mediate binding of the RNA polymerase to the promoter region as part of transcription initiation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-06-11T02:41:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "bacterial RNApol promoter sigma ecf "^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001913"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Kevin Clancy - invitrogen -May 2012."^^xsd:string ; rdfs:label "bacterial_RNApol_promoter_sigma_ecf_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000613 . obo:SO_0001914 obo:IAO_0000115 "A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-06-11T02:55:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "DNA spacer replication fork barrier"^^xsd:string, "RFB"^^xsd:string, "RTS1 barrier"^^xsd:string, "RTS1 element"^^xsd:string, "rDNA replication fork barrier"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001914"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Midori - June 2012."^^xsd:string ; rdfs:label "rDNA_replication_fork_barrier"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0001915 obo:IAO_0000115 "A region defined by a cluster of experimentally determined transcription starting sites."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-17T12:09:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "TSC"^^xsd:string, "TSS cluster"^^xsd:string, "transcriptional initiation cluster"^^xsd:string, "transcriptional start site cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001915"^^xsd:string ; a owl:Class ; rdfs:label "transcription_start_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0001916 obo:IAO_0000115 "A CAGE tag is a sequence tag hat corresponds to 5' ends of mRNA at cap sites, produced by cap analysis gene expression and used to identify transcriptional start sites."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-17T12:36:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "CAGE tag"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001916"^^xsd:string ; a owl:Class ; rdfs:label "CAGE_tag"^^xsd:string ; rdfs:subClassOf obo:SO_0000324 . obo:SO_0001917 obo:IAO_0000115 "A kind of transcription_initiation_cluster defined by the clustering of CAGE tags on a sequence region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-17T12:42:03Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "CAGE cluster"^^xsd:string, "CAGE peak"^^xsd:string, "CAGE_peak"^^xsd:string, "INSDC_note:CAGE_cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001917"^^xsd:string ; a owl:Class ; rdfs:label "CAGE_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0001915 . obo:SO_0001918 obo:IAO_0000115 "A cytosine methylated at the 5 carbon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-17T12:46:10Z"^^xsd:string ; oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html#7.4.2"^^xsd:string, "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "5 methylcytosine"^^xsd:string, "5-mC"^^xsd:string, "m-5C"^^xsd:string, "m5c"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001918"^^xsd:string ; a owl:Class ; rdfs:label "5_methylcytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000114 . obo:SO_0001919 obo:IAO_0000115 "A cytosine methylated at the 4 nitrogen."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-17T12:50:40Z"^^xsd:string ; oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html#7.4.2"^^xsd:string, "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "4-mC"^^xsd:string, "4-methylcytosine"^^xsd:string, "N4 methylcytosine"^^xsd:string, "N4-methylcytosine"^^xsd:string, "N4_methylcytosine"^^xsd:string, "m-4C"^^xsd:string, "m4c"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001919"^^xsd:string ; a owl:Class ; rdfs:label "4_methylcytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000114 . obo:SO_0001920 obo:IAO_0000115 "An adenine methylated at the 6 nitrogen."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-17T12:54:23Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "6-mA"^^xsd:string, "6-methyladenine"^^xsd:string, "6mA"^^xsd:string, "N6-methyladenine"^^xsd:string, "m-6A"^^xsd:string, "m6a"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001920"^^xsd:string ; a owl:Class ; rdfs:label "N6_methyladenine"^^xsd:string ; rdfs:subClassOf obo:SO_0000161 . obo:SO_0001921 obo:IAO_0000115 "A contig of mitochondria derived sequences."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T12:34:38Z"^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial contig"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001921"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience, October, 2012."^^xsd:string ; rdfs:label "mitochondrial_contig"^^xsd:string ; rdfs:subClassOf obo:SO_0000149, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000149 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] ) ] . obo:SO_0001922 obo:IAO_0000115 "A scaffold composed of mitochondrial contigs."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T12:42:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial scaffold"^^xsd:string, "mitochondrial supercontig"^^xsd:string, "mitochondrial_scaffold"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001922"^^xsd:string ; a owl:Class ; rdfs:label "mitochondrial_supercontig"^^xsd:string ; rdfs:subClassOf obo:SO_0000148 . obo:SO_0001923 obo:IAO_0000115 "A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts contain G rich telomeric RNA repeats and RNA tracts corresponding to adjacent subtelomeric sequences. They are 100-9000 bases long."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T01:06:40Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "telomeric repeat containing RNA"^^xsd:string ; oboInOwl:id "SO:0001923"^^xsd:string ; a owl:Class ; rdfs:comment "Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012."^^xsd:string ; rdfs:label "TERRA"^^xsd:string ; rdfs:subClassOf obo:SO_0001927 . obo:SO_0001924 obo:IAO_0000115 "A non coding RNA transcript, complementary to subtelomeric tract of TERRA transcript but devoid of the repeats."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T01:11:49Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001924"^^xsd:string ; a owl:Class ; rdfs:comment "Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012."^^xsd:string ; rdfs:label "ARRET"^^xsd:string ; rdfs:subClassOf obo:SO_0001927 . obo:SO_0001925 obo:IAO_0000115 "A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts consist of C rich repeats."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T01:24:37Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001925"^^xsd:string ; a owl:Class ; rdfs:comment "Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012."^^xsd:string ; rdfs:label "ARIA"^^xsd:string ; rdfs:subClassOf obo:SO_0001927 . obo:SO_0001926 obo:IAO_0000115 "A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts are antisense of ARRET transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T01:40:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "anti-ARRET"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001926"^^xsd:string ; a owl:Class ; rdfs:comment "Telomeric transcription has been documented in mammals, birds, fish, plants and yeast. Requested by Antonia Lock, October 2012."^^xsd:string ; rdfs:label "anti_ARRET"^^xsd:string ; rdfs:subClassOf obo:SO_0001927 . obo:SO_0001927 obo:IAO_0000115 "A non-coding transcript derived from the transcript of the telomere."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T01:42:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "telomeric transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001927"^^xsd:string ; a owl:Class ; rdfs:label "telomeric_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0001928 obo:IAO_0000115 "A duplication of the distal region of a chromosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-10-31T01:56:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "distal duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001928"^^xsd:string ; a owl:Class ; rdfs:comment "This term is used by Complete Genomics in the structural variant analysis files."^^xsd:string ; rdfs:label "distal_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000035 . obo:SO_0001929 obo:IAO_0000115 "A sequencer read of a mitochondrial DNA sample."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-11-14T04:39:56Z"^^xsd:string ; oboInOwl:hasExactSynonym "mitochondrial DNA read"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001929"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience, October, 2012."^^xsd:string ; rdfs:label "mitochondrial_DNA_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0001032 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000150 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0001032 ] ) ] . obo:SO_0001930 obo:IAO_0000115 "A sequencer read of a chloroplast DNA sample."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-11-14T04:43:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "chloroplast DNA read"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001930"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience, October, 2012."^^xsd:string ; rdfs:label "chloroplast_DNA_read"^^xsd:string ; rdfs:subClassOf obo:SO_0000150, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0001033 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000150 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0001033 ] ) ] . obo:SO_0001931 obo:IAO_0000115 "Genomic DNA sequence produced from some base calling or alignment algorithm which uses aligned or assembled multiple gDNA sequences as input."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2012-11-28T12:53:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "consensus gDNA"^^xsd:string, "consensus genomic DNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001931"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience November, 2012."^^xsd:string ; rdfs:label "consensus_gDNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000994 . obo:SO_0001932 obo:IAO_0000115 "A terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 5' end."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T09:50:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "restriction enzyme five prime single strand overhang"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001932"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_five_prime_single_strand_overhang"^^xsd:string ; rdfs:subClassOf obo:SO_0001695 . obo:SO_0001933 obo:IAO_0000115 "A terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 3' end."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T09:52:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "restriction enzyme three prime single strand overhang"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001933"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_three_prime_single_strand_overhang"^^xsd:string ; rdfs:subClassOf obo:SO_0001695 . obo:SO_0001934 obo:IAO_0000115 "A repeat_region containing repeat_units of 1 bp that is repeated multiple times in tandem."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T09:59:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "monomeric repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001934"^^xsd:string ; a owl:Class ; rdfs:label "monomeric_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000705 . obo:SO_0001935 obo:IAO_0000115 "A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H3 protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:13:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K20 trimethylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001935"^^xsd:string ; a owl:Class ; rdfs:label "H3K20_trimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001936 obo:IAO_0000115 "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:16:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K36 acetylation site"^^xsd:string, "H3K36ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001936"^^xsd:string ; a owl:Class ; rdfs:label "H3K36_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001937 obo:IAO_0000115 "A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H2B protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:19:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2BK12 acetylation site"^^xsd:string, "H2BK12ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001937"^^xsd:string ; a owl:Class ; rdfs:label "H2BK12_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002143 . obo:SO_0001938 obo:IAO_0000115 "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2A histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:20:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2AK5 acetylation site"^^xsd:string, "H2AK5ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001938"^^xsd:string ; a owl:Class ; rdfs:label "H2AK5_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002142 . obo:SO_0001939 obo:IAO_0000115 "A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:26:15Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K12 acetylation site"^^xsd:string, "H4K12ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001939"^^xsd:string ; a owl:Class ; rdfs:label "H4K12_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001972 . obo:SO_0001940 obo:IAO_0000115 "A kind of histone modification site, whereby the 120th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:28:38Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2BK120 acetylation site"^^xsd:string, "H2BK120ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001940"^^xsd:string ; a owl:Class ; rdfs:label "H2BK120_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002143 . obo:SO_0001941 obo:IAO_0000115 "A kind of histone modification site, whereby the 91st residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:41:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4K91 acetylation site"^^xsd:string, "H4K91ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001941"^^xsd:string ; a owl:Class ; rdfs:label "H4K91_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001972 . obo:SO_0001942 obo:IAO_0000115 "A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:44:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2BK20 acetylation site"^^xsd:string, "H2BK20ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001942"^^xsd:string ; a owl:Class ; rdfs:label "H2BK20_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002143 . obo:SO_0001943 obo:IAO_0000115 "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:46:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K4 acetylation site"^^xsd:string, "H3K4ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001943"^^xsd:string ; a owl:Class ; rdfs:label "H3K4_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001944 obo:IAO_0000115 "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H2A histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:48:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2AK9 acetylation site"^^xsd:string, "H2AK9ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001944"^^xsd:string ; a owl:Class ; rdfs:label "H2AK9_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002142 . obo:SO_0001945 obo:IAO_0000115 "A kind of histone modification site, whereby the 56th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:51:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K56 acetylation site"^^xsd:string, "H3K56ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001945"^^xsd:string ; a owl:Class ; rdfs:label "H3K56_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0001946 obo:IAO_0000115 "A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:53:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2BK15 acetylation site"^^xsd:string, "H2BK15ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001946"^^xsd:string ; a owl:Class ; rdfs:label "H2BK15_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002143 . obo:SO_0001947 obo:IAO_0000115 "A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is mono-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:57:13Z"^^xsd:string ; oboInOwl:hasExactSynonym " H3R2me1"^^xsd:string, "H3R2 monomethylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001947"^^xsd:string ; a owl:Class ; rdfs:label "H3R2_monomethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001948 obo:IAO_0000115 "A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is di-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T10:59:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3R2 dimethylation site"^^xsd:string, "H3R2me2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001948"^^xsd:string ; a owl:Class ; rdfs:label "H3R2_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001949 obo:IAO_0000115 "A kind of histone modification site, whereby the 3nd residue (an arginine), from the start of the H4 protein is di-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T11:01:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4R3 dimethylation site"^^xsd:string, "H4R3me2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001949"^^xsd:string ; a owl:Class ; rdfs:label "H4R3_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001950 obo:IAO_0000115 "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H4 protein is tri-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T11:03:29Z"^^xsd:string ; oboInOwl:hasExactSynonym " H4K4me3"^^xsd:string, "H4K4 trimethylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001950"^^xsd:string ; a owl:Class ; rdfs:label "H4K4_trimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001951 obo:IAO_0000115 "A kind of histone modification site, whereby the 23rd residue (a lysine), from the start of the H3 protein is di-methylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T11:05:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K23 dimethylation site"^^xsd:string, "H3K23me2"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001951"^^xsd:string ; a owl:Class ; rdfs:label "H3K23_dimethylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001701 . obo:SO_0001952 obo:IAO_0000115 "A region immediately adjacent to a promoter which may or may not contain transcription factor binding sites."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T11:36:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "promoter flanking region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001952"^^xsd:string ; a owl:Class ; rdfs:label "promoter_flanking_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0001953 obo:IAO_0000115 "A region of DNA sequence formed from the ligation of two sticky ends where the palindrome is broken and no longer comprises the recognition site and thus cannot be re-cut by the restriction enzymes used to create the sticky ends."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T03:18:11Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001953"^^xsd:string ; a owl:Class ; rdfs:label "restriction_enzyme_assembly_scar"^^xsd:string ; rdfs:subClassOf obo:SO_0001954 . obo:SO_0001954 obo:IAO_0000115 "A region related to restriction enzyme function."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T03:23:34Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "restriction enzyme region"^^xsd:string ; oboInOwl:id "SO:0001954"^^xsd:string ; a owl:Class ; rdfs:comment "Not a great term for annotation, but used to classify the various regions related to restriction enzymes."^^xsd:string ; rdfs:label "restriction_enzyme_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001955 obo:IAO_0000115 "A polypeptide region that proves structure in a protein that affects the stability of the protein."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T03:32:47Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "protein stability element"^^xsd:string ; oboInOwl:id "SO:0001955"^^xsd:string ; a owl:Class ; rdfs:label "protein_stability_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001956 obo:IAO_0000115 "A polypeptide_region that codes for a protease cleavage site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T03:36:28Z"^^xsd:string ; oboInOwl:hasExactSynonym "protease site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001956"^^xsd:string ; a owl:Class ; rdfs:label "protease_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0001957 obo:IAO_0000115 "RNA secondary structure that affects the stability of an RNA molecule."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-06T03:38:35Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "rna stability element"^^xsd:string ; oboInOwl:id "SO:0001957"^^xsd:string ; a owl:Class ; rdfs:label "RNA_stability_element"^^xsd:string ; owl:deprecated true . obo:SO_0001958 obo:IAO_0000115 "A kind of intron whereby the excision is driven by lariat formation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-03-07T10:58:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "lariat intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001958"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by PomBase 3604508."^^xsd:string ; rdfs:label "lariat_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000188 . obo:SO_0001959 obo:IAO_0000115 "A cis-regulatory element, conserved sequence YYC+1TTTYY, and spans -2 to +6 relative to +1 TSS. It is present in most ribosomal protein genes in Drosophila and mammals but not in the yeast Saccharomyces cerevisiae. Resembles the initiator (TCAKTY in Drosophila) but functionally distinct from initiator."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-17T04:38:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "TCT element"^^xsd:string, "polypyrimidine initiator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001959"^^xsd:string ; a owl:Class ; rdfs:label "TCT_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001660 . obo:SO_0001960 obo:IAO_0000115 "A modified DNA cytosine base feature, modified by a hydroxymethyl group at the 5 carbon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-17T05:05:31Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "5-hmC"^^xsd:string, "5-hydroxymethylcytosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001960"^^xsd:string ; a owl:Class ; rdfs:label "5_hydroxymethylcytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000114 . obo:SO_0001961 obo:IAO_0000115 "A modified DNA cytosine base feature, modified by a formyl group at the 5 carbon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-17T05:06:13Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "5-fC"^^xsd:string, "5-formylcytosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001961"^^xsd:string ; a owl:Class ; rdfs:label "5_formylcytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001963 . obo:SO_0001962 obo:IAO_0000115 "A modified adenine DNA base feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-20T01:22:30Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001962"^^xsd:string ; a owl:Class ; rdfs:label "modified_adenine"^^xsd:string ; rdfs:subClassOf obo:SO_0000305 . obo:SO_0001963 obo:IAO_0000115 "A modified cytosine DNA base feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-20T01:23:47Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001963"^^xsd:string ; a owl:Class ; rdfs:label "modified_cytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0000305 . obo:SO_0001964 obo:IAO_0000115 "A modified guanine DNA base feature."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-20T01:25:31Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001964"^^xsd:string ; a owl:Class ; rdfs:label "modified_guanine"^^xsd:string ; rdfs:subClassOf obo:SO_0000305 . obo:SO_0001965 obo:IAO_0000115 "A modified DNA guanine base,at the 8 carbon, often the product of DNA damage."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-20T01:27:51Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "8-oxoG"^^xsd:string, "8-oxoguanine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001965"^^xsd:string ; a owl:Class ; rdfs:label "8_oxoguanine"^^xsd:string ; rdfs:subClassOf obo:SO_0001964 . obo:SO_0001966 obo:IAO_0000115 "A modified DNA cytosine base feature, modified by a carboxy group at the 5 carbon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-20T01:30:01Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "5-caC"^^xsd:string, "5-carboxycytosine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001966"^^xsd:string ; a owl:Class ; rdfs:label "5_carboxylcytosine"^^xsd:string ; rdfs:subClassOf obo:SO_0001963 . obo:SO_0001967 obo:IAO_0000115 "A modified DNA adenine base,at the 8 carbon, often the product of DNA damage."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-20T01:31:05Z"^^xsd:string ; oboInOwl:hasDbXref "http:http://www.pacificbiosciences.com/pdf/WP_Detecting_DNA_Base_Modifications_Using_SMRT_Sequencing.pdf"^^xsd:string ; oboInOwl:hasExactSynonym "8-oxoA"^^xsd:string, "8-oxoadenine"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001967"^^xsd:string ; a owl:Class ; rdfs:label "8_oxoadenine"^^xsd:string ; rdfs:subClassOf obo:SO_0001962 . obo:SO_0001968 obo:IAO_0000115 "A transcript variant of a protein coding gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-22T04:34:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:coding_transcript_variant"^^xsd:string, "coding transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001968"^^xsd:string ; a owl:Class ; rdfs:label "coding_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0001969 obo:IAO_0000115 "A transcript variant occurring within an intron of a coding transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-23T10:54:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:coding_transcript_intron_variant"^^xsd:string, "coding sequence intron variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001969"^^xsd:string ; a owl:Class ; rdfs:label "coding_transcript_intron_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001627, obo:SO_0001968 . obo:SO_0001970 obo:IAO_0000115 "A transcript variant occurring within an intron of a non coding transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-05-23T10:55:03Z"^^xsd:string ; oboInOwl:hasExactSynonym "non coding transcript intron variant"^^xsd:string ; oboInOwl:hasNarrowSynonym "ANNOVAR:ncRNA_intronic"^^xsd:string, "Jannovar:non_coding_transcript_intron_variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001970"^^xsd:string ; a owl:Class ; rdfs:label "non_coding_transcript_intron_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001619, obo:SO_0001627 . obo:SO_0001971 obo:IAO_0000115 "A binding site to which a polypeptide will bind with a zinc finger motif, which is characterized by requiring one or more Zinc 2+ ions for stabilized folding."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-29T04:41:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "zinc finger binding site"^^xsd:string, "zinc_fing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001971"^^xsd:string ; a owl:Class ; rdfs:label "zinc_finger_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001429 . obo:SO_0001972 obo:IAO_0000115 "A histone 4 modification where the modification is the acetylation of the residue."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T10:43:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "H4ac"^^xsd:string, "histone 4 acetylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001972"^^xsd:string ; a owl:Class ; rdfs:label "histone_4_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001702 . obo:SO_0001973 obo:IAO_0000115 "A histone 3 modification where the modification is the acetylation of the residue."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T10:46:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3ac"^^xsd:string, "histone 3 acetylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001973"^^xsd:string ; a owl:Class ; rdfs:label "histone_3_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001702 . obo:SO_0001974 obo:IAO_0000115 "A transcription factor binding site with consensus sequence CCGCGNGGNGGCAG, bound by CCCTF-binding factor."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T10:59:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "CCCTF binding site"^^xsd:string, "CTCF binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001974"^^xsd:string ; a owl:Class ; rdfs:label "CTCF_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0001975 obo:IAO_0000115 "A restriction enzyme recognition site that, when cleaved, results in 5 prime overhangs."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T11:32:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "five prime sticky end restriction enzyme cleavage site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001975"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Jackie Quinn. The sticky restriction sites are different from junctions because they include the sequence that is cut, inclusive of the five prime junction and the three prime junction."^^xsd:string ; rdfs:label "five_prime_sticky_end_restriction_enzyme_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001692 . obo:SO_0001976 obo:IAO_0000115 "A restriction enzyme recognition site that, when cleaved, results in 3 prime overhangs."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T11:37:19Z"^^xsd:string ; oboInOwl:hasExactSynonym "three prime sticky end restriction enzyme cleavage site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001976"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Jackie Quinn. The sticky restriction sites are different from junctions because they include the sequence that is cut, inclusive of the five prime junction and the three prime junction."^^xsd:string ; rdfs:label "three_prime_sticky_end_restriction_enzyme_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001692 . obo:SO_0001977 obo:IAO_0000115 "A region of a transcript encoding the cleavage site for a ribonuclease enzyme."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T11:41:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "ribonuclease site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001977"^^xsd:string ; a owl:Class ; rdfs:label "ribonuclease_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000833 . obo:SO_0001978 obo:IAO_0000115 "A region of sequence where developer information is encoded."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T11:49:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "DNA signature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001978"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Jackie Quinn for use in synthetic biology."^^xsd:string ; rdfs:label "signature"^^xsd:string ; rdfs:subClassOf obo:SO_0000804 . obo:SO_0001979 obo:IAO_0000115 "A motif that affects the stability of RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T03:33:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "RNA stability element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001979"^^xsd:string ; a owl:Class ; rdfs:label "RNA_stability_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000715 . obo:SO_0001980 obo:IAO_0000115 "A regulatory promoter element identified in mutation experiments, with consensus sequence: CACGTG. Present in promoters, intergenic regions, coding regions, and introns. They are involved in gene expression responses to light and interact with G-box binding factor and I-box binding factor 1a."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T04:00:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "G-box"^^xsd:string, "GBF binding sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001980"^^xsd:string ; a owl:Class ; rdfs:comment "A plant specific region."^^xsd:string ; rdfs:label "G_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001678 . obo:SO_0001981 obo:IAO_0000115 "An orientation dependent regulatory promoter element, with consensus sequence of TTGCACAN4TTGCACA, found in plants."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T04:12:19Z"^^xsd:string ; oboInOwl:hasExactSynonym "L-box"^^xsd:string, "L-box promoter element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001981"^^xsd:string ; a owl:Class ; rdfs:label "L_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001678 . obo:SO_0001982 obo:IAO_0000115 "A plant regulatory promoter motif, composed of a highly conserved hexamer GATAAG (I-box core)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T04:17:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "I-box promoter motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001982"^^xsd:string ; a owl:Class ; rdfs:label "I-box"^^xsd:string ; rdfs:subClassOf obo:SO_0001678 . obo:SO_0001983 obo:IAO_0000115 "A 5' UTR variant where a premature start codon is introduced, moved or lost."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-30T04:36:25Z"^^xsd:string ; oboInOwl:hasExactSynonym "5' UTR premature start codon variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001983"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Andy Menzies at the Sanger. This isn't necessarily a protein coding change. A premature start codon can effect the production of a mature protein product by providing a competing translation start point. Some genes balance their expression this way, eg THPO requires the presence of a premature start to limit expression, its loss leads to Familial thrombocythemia."^^xsd:string ; rdfs:label "5_prime_UTR_premature_start_codon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001623 . obo:SO_0001984 obo:IAO_0000115 "A gene cassette array that corresponds to a silenced version of a mating type region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T02:40:38Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "silent mating-type cassette"^^xsd:string ; oboInOwl:id "SO:0001984"^^xsd:string ; a owl:Class ; rdfs:label "silent_mating_type_cassette_array"^^xsd:string ; rdfs:subClassOf obo:SO_0005854 . obo:SO_0001985 obo:IAO_0000115 "Any of the DNA segments produced by discontinuous synthesis of the lagging strand during DNA replication."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T02:57:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "Okazaki fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001985"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Midori Harris, 2013."^^xsd:string ; rdfs:label "Okazaki_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0001986 obo:IAO_0000115 "A feature variant, where the alteration occurs upstream of the transcript TSS."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T03:46:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "upstream transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001986"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Graham Ritchie, EBI/Sanger."^^xsd:string ; rdfs:label "upstream_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001628 . obo:SO_0001987 obo:IAO_0000115 "A feature variant, where the alteration occurs downstream of the transcript termination site."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T03:47:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "downstream transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001987"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Graham Ritchie, EBI/Sanger."^^xsd:string ; rdfs:label "downstream_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001628 . obo:SO_0001988 obo:IAO_0000115 "A 5' UTR variant where a premature start codon is gained."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T03:53:06Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "5 prime UTR premature start codon gain variant"^^xsd:string, "Jannovar:5_prime_UTR_premature_start_codon_gain_variant"^^xsd:string, "snpEff:START_GAINED"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001988"^^xsd:string ; a owl:Class ; rdfs:label "5_prime_UTR_premature_start_codon_gain_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001983 . obo:SO_0001989 obo:IAO_0000115 "A 5' UTR variant where a premature start codon is lost."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T03:56:48Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001989"^^xsd:string ; a owl:Class ; rdfs:label "5_prime_UTR_premature_start_codon_loss_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001983 . obo:SO_0001990 obo:IAO_0000115 "A 5' UTR variant where a premature start codon is moved."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-07-31T03:57:47Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001990"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_UTR_premature_start_codon_location_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001983 . obo:SO_0001991 obo:IAO_0000115 "A consensus AFLP fragment is an AFLP sequence produced from any alignment algorithm which uses assembled multiple AFLP sequences as input."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-09-24T10:43:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "consensus AFLP fragment"^^xsd:string, "consensus amplified fragment length polymorphism fragment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001991"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Cropscience September, 2013."^^xsd:string ; rdfs:label "consensus_AFLP_fragment"^^xsd:string ; rdfs:subClassOf obo:SO_0000994 . obo:SO_0001992 obo:IAO_0000115 "A non-synonymous variant is an inframe, protein altering variant, resulting in a codon change."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2013-10-16T11:47:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "non_synonymous_coding"^^xsd:string, "nonsynonymous variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001992"^^xsd:string ; a owl:Class ; rdfs:label "nonsynonymous_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001650 . obo:SO_0001993 obo:IAO_0000115 "Intronic positions associated with cis-splicing. Contains the first and second positions immediately before the exon and the first, second and fifth positions immediately after."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-04T06:20:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "extended cis splice site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001993"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Andy Menzies (Sanger)."^^xsd:string ; rdfs:label "extended_cis_splice_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001419 . obo:SO_0001994 obo:IAO_0000115 "Fifth intronic position after the intron exon boundary, close to the 5' edge of the intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-04T06:26:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "intron base 5"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001994"^^xsd:string ; a owl:Class ; rdfs:label "intron_base_5"^^xsd:string ; rdfs:subClassOf obo:SO_0001014, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001993 ] . obo:SO_0001995 obo:IAO_0000115 "A sequence variant occurring in the intron, within 10 bases of exon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-04T06:37:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "extended intronic splice region variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001995"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Andy Menzies (Sanger)."^^xsd:string ; rdfs:label "extended_intronic_splice_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568 . obo:SO_0001996 obo:IAO_0000115 "Region of intronic sequence within 10 bases of an exon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-04T06:41:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "extended intronic splice region "^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001996"^^xsd:string ; a owl:Class ; rdfs:label "extended_intronic_splice_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001014 . obo:SO_0001997 obo:IAO_0000115 "A heterochromatic region of the chromosome, adjacent to the telomere (on the centromeric side) that contains repetitive DNA and sometimes genes and it is transcribed."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:02:01Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001997"^^xsd:string ; a owl:Class ; rdfs:label "subtelomere"^^xsd:string ; rdfs:subClassOf obo:SO_0000628 . obo:SO_0001998 obo:IAO_0000115 "A small RNA oligo, typically about 20 bases, that guides the cas nuclease to a target DNA sequence in the CRISPR/cas mutagenesis method."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:25:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "small guide RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "gRNA"^^xsd:string, "guide RNA"^^xsd:string ; oboInOwl:id "SO:0001998"^^xsd:string ; a owl:Class ; rdfs:label "sgRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000696 . obo:SO_0001999 obo:IAO_0000115 "DNA motif that is a component of a mating type region."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:30:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "mating type region motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0001999"^^xsd:string ; a owl:Class ; rdfs:label "mating_type_region_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001789 ] . obo:SO_0002000 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0002024 ; a owl:Class ; owl:deprecated true . obo:SO_0002001 obo:IAO_0000115 "A segment of non-homology between a and alpha mating alleles, found at all three mating loci (HML, MAT, and HMR), has two forms (Ya and Yalpha)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:33:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Y-region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002001"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Janos Demeter, SGD."^^xsd:string ; rdfs:label "Y_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001999 . obo:SO_0002002 obo:IAO_0000115 "A mating type region motif, one of two segments of homology found at all three mating loci (HML, MAT, and HMR)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:34:59Z"^^xsd:string ; oboInOwl:hasExactSynonym "Z1-region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002002"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Janos Demeter, SGD."^^xsd:string ; rdfs:label "Z1_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001999 . obo:SO_0002003 obo:IAO_0000115 "A mating type region motif, the rightmost segment of homology in the HML and MAT mating loci (not present in HMR)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:36:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "Z2-segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002003"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Janos Demeter, SGD."^^xsd:string ; rdfs:label "Z2_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001999 . obo:SO_0002004 obo:IAO_0000115 "The ACS is an 11-bp sequence of the form 5'-WTTTAYRTTTW-3' which is at the core of every yeast ARS, and is necessary but not sufficient for recognition and binding by the origin recognition complex (ORC). Functional ARSs require an ACS, as well as other cis elements in the 5' (C domain) and 3' (B domain) flanking sequences of the ACS."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:47:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "ACS"^^xsd:string, "ARS consensus sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002004"^^xsd:string ; a owl:Class ; rdfs:label "ARS_consensus_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000713, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000436 ] . obo:SO_0002005 obo:IAO_0000115 "The determinant of selective removal (DSR) motif consists of repeats of U(U/C)AAAC. The motif targets meiotic transcripts for removal during mitosis via the exosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T07:51:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "DSR motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002005"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Antonia Locke, (Pombe)."^^xsd:string ; rdfs:label "DSR_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0002006 obo:IAO_0000115 "A promoter element that has the consensus sequence GNMGATC, and is found in promoters of genes repressed in the presence of zinc."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-05T09:23:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "zinc repressed element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002006"^^xsd:string ; a owl:Class ; rdfs:comment "This element is bound by Loz1 in S. pombe. The paper does not name the element. This term was requested by Midoris Harris, for Pombe."^^xsd:string ; rdfs:label "zinc_repressed_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0002007 obo:IAO_0000115 "An MNV is a multiple nucleotide variant (substitution) in which the inserted sequence is the same length as the replaced sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-01-13T03:48:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "multiple nucleotide substitution"^^xsd:string, "multiple nucleotide variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002007"^^xsd:string ; a owl:Class ; rdfs:label "MNV"^^xsd:string ; rdfs:subClassOf obo:SO_1000002 . obo:SO_0002008 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon encoding a rare amino acid is changed, resulting in a different encoded amino acid."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-24T02:24:01Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:rare_amino_acid_variant"^^xsd:string, "rare amino acid variant"^^xsd:string, "snpEff:RARE_AMINO_ACID"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002008"^^xsd:string ; a owl:Class ; rdfs:comment "Request from Uma Devi Paila, UVA. Variants in the sites of rare amino acids e.g. Selenocysteine. These are important impact terms since a loss of such rare amino acids may lead to a loss of function."^^xsd:string ; rdfs:label "rare_amino_acid_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001586 . obo:SO_0002009 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon encoding selenocysteine is changed, resulting in a different encoded amino acid."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-24T02:29:44Z"^^xsd:string ; oboInOwl:hasExactSynonym "selenocysteine loss"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002009"^^xsd:string ; a owl:Class ; rdfs:comment "Request from Uma Devi Paila, UVA. Variants in the sites of rare amino acids e.g. Selenocysteine. These are important impact terms since a loss of such rare amino acids may lead to a loss of function."^^xsd:string ; rdfs:label "selenocysteine_loss"^^xsd:string ; rdfs:subClassOf obo:SO_0002008 . obo:SO_0002010 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon encoding pyrrolysine is changed, resulting in a different encoded amino acid."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-24T02:30:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "pyrrolysine loss"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002010"^^xsd:string ; a owl:Class ; rdfs:comment "Request from Uma Devi Paila, UVA. Variants in the sites of rare amino acids e.g. Selenocysteine. These are important impact terms since a loss of such rare amino acids may lead to a loss of function."^^xsd:string ; rdfs:label "pyrrolysine_loss"^^xsd:string ; rdfs:subClassOf obo:SO_0002008 . obo:SO_0002011 obo:IAO_0000115 "A variant that occurs within a gene but falls outside of all transcript features. This occurs when alternate transcripts of a gene do not share overlapping sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-24T02:33:13Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:intragenic_variant"^^xsd:string, "intragenic variant"^^xsd:string, "snpEff:INTRAGENIC"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002011"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Pablo Cingolani, for use in SnpEff."^^xsd:string ; rdfs:label "intragenic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0002012 obo:IAO_0000115 "A codon variant that changes at least one base of the canonical start codon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-24T02:41:28Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string, "http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:start_lost"^^xsd:string, "VEP:start_lost"^^xsd:string, "snpEff:START_LOST"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002012"^^xsd:string ; a owl:Class ; rdfs:comment "Request from Uma Devi Paila, UVA. This term should not be applied to incomplete transcripts."^^xsd:string ; rdfs:label "start_lost"^^xsd:string ; rdfs:subClassOf obo:SO_0001582, obo:SO_0001992 . obo:SO_0002013 obo:IAO_0000115 "A sequence variant that causes the reduction of a the 5'UTR with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-25T10:46:42Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "5 prime UTR truncation"^^xsd:string, "Jannovar:5_prime_utr_truncation"^^xsd:string, "snpEff:UTR_5_DELETED"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002013"^^xsd:string ; a owl:Class ; rdfs:label "5_prime_UTR_truncation"^^xsd:string ; rdfs:subClassOf obo:SO_0001623 . obo:SO_0002014 obo:IAO_0000115 "A sequence variant that causes the extension of 5' UTR, with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-25T10:48:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "5 prime UTR elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002014"^^xsd:string ; a owl:Class ; rdfs:label "5_prime_UTR_elongation"^^xsd:string ; rdfs:subClassOf obo:SO_0001623 . obo:SO_0002015 obo:IAO_0000115 "A sequence variant that causes the reduction of a the 3' UTR with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-25T10:54:50Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "3 prime UTR truncation"^^xsd:string, "Jannovar:3_prime_utr_truncation"^^xsd:string, "snpEff:UTR_3_DELETED"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002015"^^xsd:string ; a owl:Class ; rdfs:label "3_prime_UTR_truncation"^^xsd:string ; rdfs:subClassOf obo:SO_0001624 . obo:SO_0002016 obo:IAO_0000115 "A sequence variant that causes the extension of 3' UTR, with regard to the reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-25T10:55:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "3 prime UTR elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002016"^^xsd:string ; a owl:Class ; rdfs:label "3_prime_UTR_elongation"^^xsd:string ; rdfs:subClassOf obo:SO_0001624 . obo:SO_0002017 obo:IAO_0000115 "A sequence variant located in a conserved intergenic region, between genes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-25T02:54:39Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:conserved_intergenic_variant"^^xsd:string, "conserved intergenic variant"^^xsd:string, "snpEff:INTERGENIC_CONSERVED"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002017"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Uma Paila (UVA) for snpEff."^^xsd:string ; rdfs:label "conserved_intergenic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001628 . obo:SO_0002018 obo:IAO_0000115 "A transcript variant occurring within a conserved region of an intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-25T02:58:41Z"^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:conserved_intron_variant"^^xsd:string, "conserved intron variant"^^xsd:string, "snpEff:INTRON_CONSERVED"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002018"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Uma Paila (UVA) for snpEff."^^xsd:string ; rdfs:label "conserved_intron_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001627 . obo:SO_0002019 obo:IAO_0000115 "A sequence variant where at least one base in the start codon is changed, but the start remains."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-03-28T10:08:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "snpEff:SYNONYMOUS_START"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002019"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Uma Paila as this term is annotated by snpEff. This would be used for non_AUG start codon annotation."^^xsd:string ; rdfs:label "start_retained_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001582, obo:SO_0001819 . obo:SO_0002020 obo:IAO_0000115 "Boundary elements are DNA motifs that prevent heterochromatin from spreading into neighboring euchromatic regions."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-05-30T14:45:37Z"^^xsd:string ; oboInOwl:hasExactSynonym "boundary element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "insulator"^^xsd:string ; oboInOwl:id "SO:0002020"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Antonia Lock. Insulator is included as a related synonym since this is used to refer to insulator in the literature (NCBI:cf)."^^xsd:string ; rdfs:label "boundary_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000627 . obo:SO_0002021 obo:IAO_0000115 "A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-05-30T14:57:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "mating type region replication fork barrier"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002021"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Midori Harris."^^xsd:string ; rdfs:label "mating_type_region_replication_fork_barrier"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0002022 obo:IAO_0000115 "A small RNA molecule, 22-23 nt in size, that is the product of a longer RNA. The production of priRNAs is independent of dicer and involves binding of RNA by argonaute and trimming by triman. In fission yeast, priRNAs trigger the establishment of heterochromatin. PriRNAs are primarily generated from centromeric transcripts (dg and dh repeats), but may also be produced from degradation products of primary transcripts."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-05-30T15:01:24Z"^^xsd:string ; oboInOwl:hasExactSynonym "primal small RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002022"^^xsd:string ; a owl:Class ; rdfs:label "priRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002023 obo:IAO_0000115 "A nucleic tag which is used in a ligation step of library preparation process to allow pooling of samples while maintaining ability to identify individual source material and creation of a multiplexed library."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-05-30T15:13:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "multiplexing sequence identifier"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002023"^^xsd:string ; a owl:Class ; rdfs:label "multiplexing_sequence_identifier"^^xsd:string ; rdfs:subClassOf obo:SO_0000324 . obo:SO_0002024 obo:IAO_0000115 "The leftmost segment of homology in the HML and MAT mating loci, but not present in HMR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-11T13:20:08Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0002000"^^xsd:string ; oboInOwl:hasExactSynonym "W-region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002024"^^xsd:string ; a owl:Class ; rdfs:comment """MERGED COMMENT: TARGET COMMENT: Requested by Janos Demeter, SGD. -------------------- SOURCE COMMENT: Requested by Janos Demeter, SGD."""^^xsd:string ; rdfs:label "W_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001999 . obo:SO_0002025 obo:IAO_0000115 "A genome region where chromosome pairing occurs preferentially during homologous chromosome pairing during early meiotic prophase of Meiosis I."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-14T11:40:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "cis-acting homologous chromosome pairing region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002025"^^xsd:string ; a owl:Class ; rdfs:comment "Comment: An example of this is the Sme2 locus in fission yeast S. pombe, where is coincident with an ribonuclear complex termed the \"Mei2 dot\". This term was Requested by Val Wood, PomBase."^^xsd:string ; rdfs:label "cis_acting_homologous_chromosome_pairing_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0002026 obo:IAO_0000115 "The nucleotide sequence which encodes the intein portion of the precursor gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-14T11:53:21Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002026"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Janos Demeter 2014."^^xsd:string ; rdfs:label "intein_encoding_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000842 . obo:SO_0002027 obo:IAO_0000115 "A short open reading frame that is found in the 5' untranslated region of an mRNA and plays a role in translational regulation."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-14T11:59:23Z"^^xsd:string ; oboInOwl:hasDbXref "PMID:26684391"^^xsd:string ; oboInOwl:hasExactSynonym "regulatory uORF"^^xsd:string, "upstream ORF"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002027"^^xsd:string ; a owl:Class ; rdfs:label "uORF"^^xsd:string ; rdfs:subClassOf obo:SO_0000236 . obo:SO_0002028 obo:IAO_0000115 "An open reading frame that encodes a peptide of less than 100 amino acids."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-14T12:02:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "smORF"^^xsd:string, "small ORF"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002028"^^xsd:string ; a owl:Class ; rdfs:label "sORF"^^xsd:string ; rdfs:subClassOf obo:SO_0000236 . obo:SO_0002029 obo:IAO_0000115 "A translated ORF encoded entirely within the antisense strand of a known protein coding gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-14T12:04:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "translated nested antisense gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002029"^^xsd:string ; a owl:Class ; rdfs:label "tnaORF"^^xsd:string ; rdfs:subClassOf obo:SO_0000236 . obo:SO_0002030 obo:IAO_0000115 "One of two segments of homology found at all three mating loci (HML, MAT and HMR)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-07-14T18:43:21Z"^^xsd:string ; oboInOwl:hasExactSynonym "x-region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002030"^^xsd:string ; a owl:Class ; rdfs:label "X_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001999 . obo:SO_0002031 obo:IAO_0000115 "A short hairpin RNA (shRNA) is an RNA transcript that makes a tight hairpin turn that can be used to silence target gene expression via RNA interference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2014-10-23T09:16:29Z"^^xsd:string ; oboInOwl:hasDbXref "http:http:en.wikipedia.org/wiki/Small_hairpin_RNA"^^xsd:string ; oboInOwl:hasExactSynonym "short hairpin RNA"^^xsd:string, "small hairpin RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002031"^^xsd:string ; a owl:Class ; rdfs:label "shRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002032 obo:IAO_0000115 "A non-coding transcript encoded by sequences adjacent to the ends of the 5' and 3' miR-encoding sequences that abut the loop in precursor miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T13:57:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "microRNA-offset RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002032"^^xsd:string ; a owl:Class ; rdfs:comment """MoRs are generated from miR hairpins that are longer and can produce two functional miR per strand. They are called moRs because they are not located next to the loop and thus their biogenesis process is a little different, but functionally, they are supposed to act like miRs. It is the same for loRs that are the loop fragments, they are generated differently than miRs or moRs but if loaded into the risc they are supposed to act the same way miRs do. Requested by Thomas Desvignes, Jan 2015."""^^xsd:string ; rdfs:label "moR"^^xsd:string ; rdfs:subClassOf obo:SO_0000370, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002033 obo:IAO_0000115 "A short, non coding transcript of loop-derived sequences encoded in precursor miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T14:02:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "loop-origin miRs"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002033"^^xsd:string ; a owl:Class ; rdfs:comment """MoRs are generated from miR hairpins that are longer and can produce two functional miR per strand. They are called moRs because they are not located next to the loop and thus their biogenesis process is a little different, but functionally, they are supposed to act like miRs. It is the same for loRs that are the loop fragments, they are generated differently than miRs or moRs but if loaded into the risc they are supposed to act the same way miRs do. Requested by Thomas Desvignes, Jan 2015."""^^xsd:string ; rdfs:label "loR"^^xsd:string ; rdfs:subClassOf obo:SO_0000370, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002034 obo:IAO_0000115 "A snoRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:02:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "miR encoding snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002034"^^xsd:string ; a owl:Class ; rdfs:label "miR_encoding_snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000232, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002035 obo:IAO_0000115 "A primary transcript encoding a lncRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:23:03Z"^^xsd:string ; oboInOwl:hasExactSynonym "lncRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002035"^^xsd:string ; a owl:Class ; rdfs:label "lncRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0002036 obo:IAO_0000115 "A lncRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:23:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "miR encoding lncRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002036"^^xsd:string ; a owl:Class ; rdfs:label "miR_encoding_lncRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002035, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002037 obo:IAO_0000115 "A tRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:28:23Z"^^xsd:string ; oboInOwl:hasExactSynonym "miR encoding tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002037"^^xsd:string ; a owl:Class ; rdfs:label "miR_encoding_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002038 obo:IAO_0000115 "A primary transcript encoding an shRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:30:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "shRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002038"^^xsd:string ; a owl:Class ; rdfs:label "shRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0002039 obo:IAO_0000115 "A shRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:32:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "miR encoding shRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002039"^^xsd:string ; a owl:Class ; rdfs:label "miR_encoding_shRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002038, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002040 obo:IAO_0000115 "A primary transcript encoding a vaultRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:33:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "vaultRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002040"^^xsd:string ; a owl:Class ; rdfs:label "vaultRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0002041 obo:IAO_0000115 "A vaultRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:34:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "miR encoding vaultRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002041"^^xsd:string ; a owl:Class ; rdfs:label "miR_encoding_vaultRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002040, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002042 obo:IAO_0000115 "A primary transcript encoding a Y-RNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:36:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "Y-RNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002042"^^xsd:string ; a owl:Class ; rdfs:label "Y_RNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000483 . obo:SO_0002043 obo:IAO_0000115 "A Y-RNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-01-09T15:37:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "miR encoding Y-RNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002043"^^xsd:string ; a owl:Class ; rdfs:label "miR_encoding_Y_RNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002042, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001244 ] . obo:SO_0002044 obo:IAO_0000115 "A TCS element is a (yeast) transcription factor binding site, bound by the TEA DNA binding domain (DBD) of transcription factors. The consensus site is CATTCC or CATTCT."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-02-09T15:02:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "TCS element"^^xsd:string, "TEA Consensus Sequence "^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002044"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Rama - SGD."^^xsd:string ; rdfs:label "TCS_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0002045 obo:IAO_0000115 "A PRE is a (yeast) TFBS with consensus site [TGAAAC(A/G)]."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-02-09T15:05:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "PRE"^^xsd:string, "pheromone response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002045"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Rama, SGD."^^xsd:string ; rdfs:label "pheromone_response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000235, obo:SO_0001659 . obo:SO_0002046 obo:IAO_0000115 "A FRE is an enhancer element necessary and sufficient to confer filamentation associated expression in S. cerevisiae."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-02-09T15:09:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "filamentation and invasion response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002046"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Rama, SGD."^^xsd:string ; rdfs:label "FRE"^^xsd:string ; rdfs:subClassOf obo:SO_0001461 . obo:SO_0002047 obo:IAO_0000115 "Transcription pause sites are regions of a gene where RNA polymerase may pause during transcription. The functional role of pausing may be to facilitate factor recruitment, RNA folding, and synchronization with translation. Consensus transcription pause site have been observed in E. coli."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-02-09T15:32:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcription pause site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002047"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "transcription_pause_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0002048 obo:IAO_0000115 "A reading frame that could encode a full-length protein but which contains obvious mid-sequence disablements (frameshifts or premature stop codons)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-02-09T16:15:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "dORF"^^xsd:string, "disabled ORF"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "disabled_reading frame"^^xsd:string ; oboInOwl:id "SO:0002048"^^xsd:string ; a owl:Class ; rdfs:label "disabled_reading_frame"^^xsd:string ; rdfs:subClassOf obo:SO_0000717 . obo:SO_0002049 obo:IAO_0000115 "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T10:17:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "H3K27 acetylation site"^^xsd:string, "H3K27ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002049"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by: Sagar Jain, Richard Scheuermann."^^xsd:string ; rdfs:label "H3K27_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001973 . obo:SO_0002050 obo:IAO_0000115 "A promoter that allows for continual transcription of gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T10:39:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "constitutive promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002050"^^xsd:string ; a owl:Class ; rdfs:label "constitutive_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167 . obo:SO_0002051 obo:IAO_0000115 "A promoter whereby activity is induced by the presence or absence of biotic or abiotic factors."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T10:39:56Z"^^xsd:string ; oboInOwl:hasExactSynonym "inducible promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002051"^^xsd:string ; a owl:Class ; rdfs:label "inducible_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167 . obo:SO_0002052 obo:IAO_0000115 "A variant where the mutated gene product adversely affects the other (wild type) gene product."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T11:16:28Z"^^xsd:string ; oboInOwl:hasExactSynonym "dominant negative"^^xsd:string, "dominant negative variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002052"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Deanna Church."^^xsd:string ; rdfs:label "dominant_negative_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0002053 obo:IAO_0000115 "A sequence variant whereby new or enhanced function is conferred on the gene product."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T11:20:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "gain of function variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002053"^^xsd:string ; a owl:Class ; rdfs:label "gain_of_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0002054 obo:IAO_0000115 "A sequence variant whereby the gene product has diminished or abolished function."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T11:21:29Z"^^xsd:string ; oboInOwl:hasExactSynonym "loss of function variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002054"^^xsd:string ; a owl:Class ; rdfs:label "loss_of_function_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0002055 obo:IAO_0000115 "A variant whereby the gene product is not functional or the gene product is not produced."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T11:21:57Z"^^xsd:string ; oboInOwl:hasExactSynonym "null mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002055"^^xsd:string ; a owl:Class ; rdfs:label "null_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0002056 obo:IAO_0000115 "An intronic splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T12:24:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "ISS"^^xsd:string, "intronic splicing silencer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002056"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Javier Diez Perez."^^xsd:string ; rdfs:label "intronic_splicing_silencer"^^xsd:string ; rdfs:subClassOf obo:SO_0000625, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000188 ] . obo:SO_0002057 oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T12:28:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "ISE"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002057"^^xsd:string ; a owl:Class ; rdfs:label "intronic_splicing_enhancer"^^xsd:string ; owl:deprecated true . obo:SO_0002058 obo:IAO_0000115 "An exonic splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T12:42:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "ESS"^^xsd:string, "exonic splicing silencer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002058"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Javier Diez Perez."^^xsd:string ; rdfs:label "exonic_splicing_silencer"^^xsd:string ; rdfs:subClassOf obo:SO_0000625, obo:SO_0000852 . obo:SO_0002059 obo:IAO_0000115 "A regulatory_region that promotes or induces the process of recombination."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-05-14T13:08:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "recombination enhancer"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002059"^^xsd:string ; a owl:Class ; rdfs:label "recombination_enhancer"^^xsd:string ; rdfs:subClassOf obo:SO_0001681 . obo:SO_0002060 obo:IAO_0000115 "A translocation where the regions involved are from different chromosomes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-06-18T11:10:30Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002060"^^xsd:string ; a owl:Class ; rdfs:label "interchromosomal_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_1000044 . obo:SO_0002061 obo:IAO_0000115 "A translocation where the regions involved are from the same chromosome."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-06-18T11:10:51Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002061"^^xsd:string ; a owl:Class ; rdfs:label "intrachromosomal_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_1000044 . obo:SO_0002062 obo:IAO_0000115 "A contiguous cluster of translocations, usually the result of a single catastrophic event such as chromothripsis or chromoanasynthesis."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-06-18T11:24:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "complex chromosomal rearrangement"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002062"^^xsd:string ; a owl:Class ; rdfs:label "complex_chromosomal_rearrangement"^^xsd:string ; rdfs:subClassOf obo:SO_0001784 . obo:SO_0002063 obo:IAO_0000115 "An insertion of sequence from the Alu family of mobile elements."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-06-18T11:30:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "Alu insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002063"^^xsd:string ; a owl:Class ; rdfs:label "Alu_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001837 . obo:SO_0002064 obo:IAO_0000115 "An insertion from the Line1 family of mobile elements."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-06-18T11:34:44Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "line1 insertion"^^xsd:string ; oboInOwl:id "SO:0002064"^^xsd:string ; a owl:Class ; rdfs:label "LINE1_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001837, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002272 ] . obo:SO_0002065 obo:IAO_0000115 "An insertion of sequence from the SVA family of mobile elements."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-06-18T11:36:12Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002065"^^xsd:string ; a owl:Class ; rdfs:label "SVA_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001837 . obo:SO_0002066 obo:IAO_0000115 "A deletion of a mobile element when comparing a reference sequence (has mobile element) to a individual sequence (does not have mobile element)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-09-04T13:40:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "mobile element deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002066"^^xsd:string ; a owl:Class ; rdfs:label "mobile_element_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0000159 . obo:SO_0002067 obo:IAO_0000115 "A deletion of the HERV mobile element with respect to a reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-09-04T13:42:52Z"^^xsd:string ; oboInOwl:hasExactSynonym "HERV deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002067"^^xsd:string ; a owl:Class ; rdfs:label "HERV_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0002066, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002268 ] . obo:SO_0002068 obo:IAO_0000115 "A deletion of an SVA mobile element."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-09-04T13:45:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "SVA deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002068"^^xsd:string ; a owl:Class ; rdfs:label "SVA_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0002066 . obo:SO_0002069 obo:IAO_0000115 "A deletion of a LINE1 mobile element with respect to a reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-09-04T13:46:26Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "LINE1 deletion"^^xsd:string ; oboInOwl:id "SO:0002069"^^xsd:string ; a owl:Class ; rdfs:label "LINE1_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0002066, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002272 ] . obo:SO_0002070 obo:IAO_0000115 "A deletion of an Alu mobile element with respect to a reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-09-04T13:47:16Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002070"^^xsd:string ; a owl:Class ; rdfs:label "Alu_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_0002066 . obo:SO_0002071 obo:IAO_0000115 "A CDS that is supported by proteomics data."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-10-12T13:25:02Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002071"^^xsd:string ; a owl:Class ; rdfs:label "CDS_supported_by_peptide_spectrum_match"^^xsd:string ; rdfs:subClassOf obo:SO_1001251 . obo:SO_0002072 obo:IAO_0000115 "A position or feature where two sequences have been compared."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-23T14:14:32Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:sequence_comparison"^^xsd:string, "sequence comparison"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002072"^^xsd:string ; a owl:Class ; rdfs:label "sequence_comparison"^^xsd:string ; rdfs:subClassOf obo:SO_0000110 . obo:SO_0002073 obo:IAO_0000115 "A position or feature within a sequence that is identical to the comparable position or feature of a specified reference sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-23T14:15:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "no sequence alteration"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002073"^^xsd:string ; a owl:Class ; rdfs:comment "This term is requested by the ClinVar data model group for use in the allele registry and such. A sequence at a defined location that is defined to match the reference assembly."^^xsd:string ; rdfs:label "no_sequence_alteration"^^xsd:string ; rdfs:subClassOf obo:SO_0002072 . obo:SO_0002074 obo:IAO_0000115 "A variant that falls in an intergenic region that is 1 kb or less between 2 genes."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-23T14:24:16Z"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:upstream;downstream"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002074"^^xsd:string ; a owl:Class ; rdfs:comment "This term is added to map to the Annovar annotation 'upstream,downstream' ."^^xsd:string ; rdfs:label "intergenic_1kb_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001628 . obo:SO_0002075 obo:IAO_0000115 "A sequence variant that intersects an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-23T14:43:51Z"^^xsd:string ; oboInOwl:hasDbXref "http://annovar.openbioinformatics.org/en/latest/user-guide/gene/"^^xsd:string ; oboInOwl:hasExactSynonym "incomplete transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002075"^^xsd:string ; a owl:Class ; rdfs:comment """This term is to map to the ANNOVAR term 'ncRNA' http://annovar.openbioinformatics.org/en/latest/user-guide/gene/ . The description in the documentation (11/23/15) 'variant overlaps a transcript without coding annotation in the gene definition'. and this is further clarified in the document: ncRNA above refers to RNA without coding annotation. It does not mean that this is a RNA that will never be translated; it merely means that the user-selected gene annotation system was not able to give a coding sequence annotation. It could still code protein products and may have such annotations in future versions of gene annotation or in another gene annotation system. For example, BC039000 is regarded as ncRNA by ANNOVAR when using UCSC Known Gene annotation, but it is regarded as a protein-coding gene by ANNOVAR when using ENSEMBL annotation. It is further clarified in the comments section as: ncRNA does NOT mean conventional non-coding RNA. It means a RNA without complete coding sequence, and it can be a coding RNA that is annotated incorrectly by RefSeq or other gene definition systems."""^^xsd:string ; rdfs:label "incomplete_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0002076 obo:IAO_0000115 "A sequence variant that intersects the 3' UTR of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-23T14:45:52Z"^^xsd:string ; oboInOwl:hasDbXref "http://annovar.openbioinformatics.org/en/latest/user-guide/gene/"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:ncRNA_UTR3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "incomplete transcript 3UTR variant"^^xsd:string ; oboInOwl:id "SO:0002076"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_3UTR_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002075 . obo:SO_0002077 obo:IAO_0000115 "A sequence variant that intersects the 5' UTR of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T12:39:17Z"^^xsd:string ; oboInOwl:hasDbXref "http://annovar.openbioinformatics.org/en/latest/user-guide/gene/"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:ncRNA_UTR5"^^xsd:string, "incomplete transcript 5UTR variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002077"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_5UTR_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002075 . obo:SO_0002078 obo:IAO_0000115 "A sequence variant that intersects the intron of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T12:51:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "incomplete transcript intronic variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002078"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_intronic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002075 . obo:SO_0002079 obo:IAO_0000115 "A sequence variant that intersects the splice region of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T12:52:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "incomplete transcript splice region variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002079"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_splice_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002075 . obo:SO_0002080 obo:IAO_0000115 "A sequence variant that intersects the exon of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T12:52:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "incomplete transcript exonic variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002080"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_exonic_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002075 . obo:SO_0002081 obo:IAO_0000115 "A sequence variant that intersects the coding regions of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T15:32:27Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "Seattleseq:coding-notMod3"^^xsd:string, "Seattleseq:coding-unknown"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002081"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0002075 . obo:SO_0002082 obo:IAO_0000115 "A sequence variant that intersects the coding sequence near a splice region of an incompletely annotated transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T15:51:06Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "Seattleseq:coding-notMod3-near-splice"^^xsd:string, "Seattleseq:coding-unknown-near-splice"^^xsd:string, "incomplete transcript coding splice variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002082"^^xsd:string ; a owl:Class ; rdfs:label "incomplete_transcript_coding_splice_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002079 . obo:SO_0002083 obo:IAO_0000115 "A sequence variant located within 2KB 3' of a gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-11-24T15:55:49Z"^^xsd:string ; oboInOwl:hasDbXref "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string ; oboInOwl:hasExactSynonym "Seattleseq:near-gene-3"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002083"^^xsd:string ; a owl:Class ; rdfs:label "2KB_downstream_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001632 . obo:SO_0002084 obo:IAO_0000115 "A sequence variant in which a change has occurred within the exonic region of the splice site, 1-2 bases from boundary."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2015-12-01T14:38:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "ANNOVAR:exonic;splicing"^^xsd:string, "exonic splice region variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Seattleseq:coding-near-splice"^^xsd:string ; oboInOwl:id "SO:0002084"^^xsd:string ; a owl:Class ; rdfs:label "exonic_splice_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001630 . obo:SO_0002085 obo:IAO_0000115 "A sequence variant whereby two genes, on the same strand have become joined."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-02-23T12:16:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "unidirectional gene fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002085"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by SNPEFF team. Feb 2016."^^xsd:string ; rdfs:label "unidirectional_gene_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001565 . obo:SO_0002086 obo:IAO_0000115 "A sequence variant whereby two genes, on alternate strands have become joined."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-02-23T12:17:18Z"^^xsd:string ; oboInOwl:hasExactSynonym "bidirectional gene fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002086"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by SNPEFF team. Feb 2016."^^xsd:string ; rdfs:label "bidirectional_gene_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_0001565 . obo:SO_0002087 obo:IAO_0000115 "A non functional descendant of the coding portion of a coding transcript, part of a pseudogene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-02-29T12:58:52Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:CDS"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:pseudo"^^xsd:string, "pseudogenic CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002087"^^xsd:string ; a owl:Class ; rdfs:label "pseudogenic_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000462, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000516 ] . obo:SO_0002088 obo:IAO_0000115 "A transcript variant occurring within the splice region (1-3 bases of the exon or 3-8 bases of the intron) of a non coding transcript."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-03-07T09:40:46Z"^^xsd:string ; oboInOwl:hasNarrowSynonym "ANNOVAR:ncRNA_splicing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002088"^^xsd:string ; a owl:Class ; rdfs:label "non_coding_transcript_splice_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001619, obo:SO_0001630 . obo:SO_0002089 obo:IAO_0000115 "A UTR variant of exonic sequence of the 3' UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-03-07T10:37:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "3 prime UTR exon variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002089"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by visze github tracker ID 346."^^xsd:string ; rdfs:label "3_prime_UTR_exon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001624 . obo:SO_0002090 obo:IAO_0000115 "A UTR variant of intronic sequence of the 3' UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-03-07T10:37:41Z"^^xsd:string ; oboInOwl:hasExactSynonym "3 prime UTR intron variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002090"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by visze github tracker ID 346."^^xsd:string ; rdfs:label "3_prime_UTR_intron_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001624, obo:SO_0001969 . obo:SO_0002091 obo:IAO_0000115 "A UTR variant of intronic sequence of the 5' UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-03-07T10:38:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "5 prime UTR intron variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002091"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by visze github tracker ID 346."^^xsd:string ; rdfs:label "5_prime_UTR_intron_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001623, obo:SO_0001969 . obo:SO_0002092 obo:IAO_0000115 "A UTR variant of exonic sequence of the 5' UTR."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-03-07T10:38:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "5 prime UTR exon variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002092"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by visze github tracker ID 346."^^xsd:string ; rdfs:label "5_prime_UTR_exon_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001623 . obo:SO_0002093 obo:IAO_0000115 "A variant that impacts the internal interactions of the resulting polypeptide structure."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-03-07T11:43:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "structural interaction variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002093"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Pablo Cingolani. The way I calculate this is simply by looking at the PDB entry of one protein and then marking those AA that are within 3 Angstrom of each other (and far away in the AA sequence, e.g. over 20 AA distance). The assumption is that, since they are very close in distance, they must be \"interacting\" and thus important for protein structure."^^xsd:string ; rdfs:label "structural_interaction_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001599 . obo:SO_0002094 obo:IAO_0000115 "A genomic region at a non-allelic position where exchange of genetic material happens as a result of homologous recombination."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-05-17T13:34:12Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_recomb"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:non_allelic_homologous"^^xsd:string, "INSDC_qualifier:non_allelic_homologous_recombination"^^xsd:string, "NAHRR"^^xsd:string, "non allelic homologous recombination region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002094"^^xsd:string ; a owl:Class ; rdfs:label "non_allelic_homologous_recombination_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000339 . obo:SO_0002095 obo:IAO_0000115 "A ncRNA, specific to the Cajal body, that has been demonstrated to function as a guide RNA in the site-specific synthesis of 2'-O-ribose-methylated nucleotides and pseudouridines in the RNA polymerase II-transcribed U1, U2, U4 and U5 spliceosomal small nuclear RNAs (snRNAs)."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-05-19T13:42:45Z"^^xsd:string ; oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/pmc/articles/PMC126017/"^^xsd:string ; oboInOwl:hasExactSynonym "small Cajal body specific RNA"^^xsd:string, "small Cajal body-specific RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002095"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from is_a ncRNA (SO:0000655) to is_a snoRNA (SO:0000275) as per request from FlyBase by Dave Sant 24 April 2021. See GitHub Issue #509."^^xsd:string ; rdfs:label "scaRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000275 . obo:SO_0002096 obo:IAO_0000115 "A variation that expands or contracts a tandem repeat with regard to a reference."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-14T16:04:40Z"^^xsd:string ; oboInOwl:hasExactSynonym "short tandem repeat variation"^^xsd:string, "str variation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002096"^^xsd:string ; a owl:Class ; rdfs:label "short_tandem_repeat_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0000248 . obo:SO_0002097 obo:IAO_0000115 "A pseudogene derived from a vertebrate immune system gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:00:22Z"^^xsd:string ; oboInOwl:hasExactSynonym "vertebrate immune system pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002097"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "vertebrate_immune_system_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000336 . obo:SO_0002098 obo:IAO_0000115 "A pseudogene derived from an immunoglobulin gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:01:47Z"^^xsd:string ; oboInOwl:hasExactSynonym "immunoglobulin pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002098"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "immunoglobulin_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002097 . obo:SO_0002099 obo:IAO_0000115 "A pseudogene derived from a T-cell receptor gene."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:02:18Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002099"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "T_cell_receptor_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002097 . obo:SO_0002100 obo:IAO_0000115 "A pseudogenic constant region of an immunoglobulin gene which closely resembles a known functional Imunoglobulin constant gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:05:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "IG C pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002100"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_C_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002098 . obo:SO_0002101 obo:IAO_0000115 "A pseudogenic joining region which closely resembles a known functional imunoglobulin joining gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:05:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "IG J pseudogene"^^xsd:string, "IG joining pseudogene"^^xsd:string, "IG_joining_pseudogene"^^xsd:string, "Immunoglobulin Joining Pseudogene"^^xsd:string, "Immunoglobulin_Joining_Pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002101"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_J_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002098 . obo:SO_0002102 obo:IAO_0000115 "A pseudogenic variable region which closely resembles a known functional imunoglobulin variable gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the variable region of an immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:05:56Z"^^xsd:string ; oboInOwl:hasExactSynonym "IG V pseudogene"^^xsd:string, "IG variable pseudogene"^^xsd:string, "IG_variable_pseudogene"^^xsd:string, "Immunoglobulin variable pseudogene"^^xsd:string, "Immunoglobulin_variable_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002102"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_V_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002098 . obo:SO_0002103 obo:IAO_0000115 "A pseudogenic variable region which closely resembles a known functional T receptor variable gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the variable region of an immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:06:29Z"^^xsd:string ; oboInOwl:hasExactSynonym "T cell receptor V pseudogene"^^xsd:string, "T cell receptor Variable pseudogene"^^xsd:string, "TR V pseudogene"^^xsd:string, "T_cell_receptor_V_pseudogene"^^xsd:string, "T_cell_receptor_Variable_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002103"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "TR_V_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002099 . obo:SO_0002104 obo:IAO_0000115 "A pseudogenic joining region which closely resembles a known functional T receptor (TR) joining gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-15T16:06:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "T cell receptor J pseudogene"^^xsd:string, "T cell receptor Joining pseudogene"^^xsd:string, "TR J pseudogene"^^xsd:string, "T_cell_receptor_J_pseudogene"^^xsd:string, "T_cell_receptor_Joining_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002104"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "TR_J_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0002099 . obo:SO_0002105 obo:IAO_0000115 "A processed pseudogene where there is evidence, (mass spec data) suggesting that it is also translated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T12:31:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "translated processed pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002105"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "translated_processed_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000043 . obo:SO_0002106 obo:IAO_0000115 "A non-processed pseudogene where there is evidence, (mass spec data) suggesting that it is also translated."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T12:34:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "translated unprocessed pseudogene"^^xsd:string, "translated_nonprocessed_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002106"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "translated_unprocessed_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0002107 obo:IAO_0000115 "A unprocessed pseudogene supported by locus-specific evidence of transcription."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T12:41:53Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcribed unprocessed pseudogene"^^xsd:string, "transcribed_non_processed_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002107"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "transcribed_unprocessed_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001760 . obo:SO_0002108 obo:IAO_0000115 "A species specific unprocessed pseudogene without a parent gene, as it has an active orthologue in another species."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T12:44:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcribed unitary pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002108"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "transcribed_unitary_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001759 . obo:SO_0002109 obo:IAO_0000115 "A processed_pseudogene overlapped by locus-specific evidence of transcription."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T12:45:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcribed processed pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002109"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "transcribed_processed_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000043 . obo:SO_0002110 obo:IAO_0000115 "A polymorphic pseudogene in the reference genome, containing a retained intron, known to be intact in the genomes of other individuals of the same species. The annotation process has confirmed that the pseudogenisation event is not a genomic sequencing error."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T12:47:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "polymorphic pseudogene with retained intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002110"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "polymorphic_pseudogene_with_retained_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0001841 . obo:SO_0002111 obo:IAO_0000115 "A processed_transcript supported by EST and/or mRNA evidence that aligns unambiguously to a pseudogene locus (i.e. alignment to the pseudogene locus clearly better than alignment to parent locus)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:07:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "pseudogene processed transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002111"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "pseudogene_processed_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0001503 . obo:SO_0002112 obo:IAO_0000115 "A protein coding transcript containing a retained intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:09:49Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mRNA with retained intron"^^xsd:string ; oboInOwl:id "SO:0002112"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "coding_transcript_with_retained_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000120 . obo:SO_0002113 obo:IAO_0000115 "A lncRNA transcript containing a retained intron."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:13:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "lncRNA with retained intron"^^xsd:string, "lncRNA_retained_intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002113"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "lncRNA_with_retained_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0002035 . obo:SO_0002114 obo:IAO_0000115 "A protein coding transcript that contains a CDS but has one or more splice junctions >50bp downstream of stop codon, making it susceptible to nonsense mediated decay."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:16:13Z"^^xsd:string ; oboInOwl:hasDbXref "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; oboInOwl:hasExactSynonym "NMD transcript"^^xsd:string, "nonsense mediated decay transcript"^^xsd:string, "protein_coding_NMD"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002114"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "NMD_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000120 . obo:SO_0002115 obo:IAO_0000115 "A transcript supported by EST and/or mRNA evidence that aligns unambiguously to the pseudogene locus; has retained intronic sequence compared to a reference transcript sequence."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:19:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "pseudogene retained intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002115"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes."^^xsd:string ; rdfs:label "pseudogenic_transcript_with_retained_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000185 . obo:SO_0002116 obo:IAO_0000115 "A processed transcript that does not contain a CDS that fullfills annotation criteria and not necessarily functionally non-coding."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:23:59Z"^^xsd:string ; oboInOwl:hasExactSynonym "polymorphic pseudogene processed transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002116"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "polymorphic_pseudogene_processed_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002111 . obo:SO_0002117 oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:27:21Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002117"^^xsd:string ; a owl:Class ; rdfs:label ""^^xsd:string ; owl:deprecated true . obo:SO_0002118 obo:IAO_0000115 "A polymorphic pseudogene transcript that contains a CDS but has one or more splice junctions >50bp downstream of stop codon. Premature stop codon is not introduced, directly or indirectly, as a result of the variation i.e. must be present in both protein_coding and pseudogenic alleles."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-18T14:28:02Z"^^xsd:string ; oboInOwl:hasExactSynonym "NMD polymorphic pseudogene transcript"^^xsd:string, "nonsense_mediated_decay_polymorphic_pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002118"^^xsd:string ; a owl:Class ; rdfs:comment "Term added as part of collaboration with Gencode, adding biotypes used in annotation."^^xsd:string ; rdfs:label "NMD_polymorphic_pseudogene_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002114 . obo:SO_0002119 obo:IAO_0000115 "A physical quality which inheres to the allele by virtue of the number instances of the allele within a population. This is the relative frequency of the allele at a given locus in a population."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2016-07-21T11:58:55Z"^^xsd:string ; oboInOwl:hasDbXref "WIKI:https://en.wikipedia.org/wiki/Allele_frequency"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002119"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by HL7 clinical genomics group."^^xsd:string ; rdfs:label "allelic_frequency"^^xsd:string ; rdfs:subClassOf obo:SO_0001763 . obo:SO_0002120 obo:IAO_0000115 "Transcript where ditag (digital gene expression profiling)and/or published experimental data strongly supports the existence of short non-coding transcripts transcribed from the 3'UTR."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T15:48:21Z"^^xsd:string ; oboInOwl:hasExactSynonym "3'_overlapping_ncrna"^^xsd:string, "3prime_overlapping_ncRNA"^^xsd:string, "three prime overlapping noncoding rna"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002120"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes."^^xsd:string ; rdfs:label "three_prime_overlapping_ncrna"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002121 obo:IAO_0000115 "The configuration of the IG and TR variable (V), diversity (D) and joining (J) germline genes before DNA rearrangements (with or without constant (C) genes in undefined configuration. (germline, non rearranged regions of the IG DNA loci)."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T15:54:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "immune_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002121"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "vertebrate_immune_system_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000704 . obo:SO_0002122 obo:IAO_0000115 "A germline immunoglobulin gene."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T15:56:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "All_IG_genes"^^xsd:string, "IG_genes"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002122"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "immunoglobulin_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002121 . obo:SO_0002123 obo:IAO_0000115 "A constant (C) gene, a gene that codes the constant region of an immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T15:57:29Z"^^xsd:string ; oboInOwl:hasExactSynonym "IGC_gene"^^xsd:string, "Immunoglobulin_Constant_germline_Gene"^^xsd:string, "immunoglobulin_C_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002123"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_C_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002122 . obo:SO_0002124 obo:IAO_0000115 "A gene that rearranges at the DNA level and codes the diversity region of the variable domain of an immunoglobuin (IG) gene."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T15:59:10Z"^^xsd:string ; oboInOwl:hasExactSynonym "IGD_gene"^^xsd:string, "Immunoglobulin_Diversity_ gene"^^xsd:string, "immunoglobulin_D_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002124"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_D_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002122 . obo:SO_0002125 obo:IAO_0000115 "A joining gene that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:00:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "IG_joining_gene"^^xsd:string, "Immunoglobulin_Joining_Gene"^^xsd:string, "immunoglobulin_J_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002125"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_J_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002122 . obo:SO_0002126 obo:IAO_0000115 "A variable gene that rearranges at the DNA level and codes the variable region of the variable domain of an Immunoglobulin chain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:02:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "IGV_gene"^^xsd:string, "IG_variable_gene"^^xsd:string, "Immunoglobulin_variable_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002126"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "IG_V_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002122 . obo:SO_0002127 obo:IAO_0000115 "A gene that encodes a long non-coding RNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:03:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "lnc RNA gene"^^xsd:string, "lnc_RNA_gene"^^xsd:string, "long_non_coding_RNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002127"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes."^^xsd:string ; rdfs:label "lncRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0002128 obo:IAO_0000115 "Mitochondrial rRNA is an RNA component of the small or large subunits of mitochondrial ribosomes."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:08:59Z"^^xsd:string ; oboInOwl:hasExactSynonym "Mt rRNA"^^xsd:string, "Mt_rRNA"^^xsd:string, "mitochondrial rRNA"^^xsd:string, "mitochondrial_rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002128"^^xsd:string ; a owl:Class ; rdfs:comment "Updated definition to be consistent with format of other rRNA definitions on 10 June 2021. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "mt_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000252 . obo:SO_0002129 obo:IAO_0000115 "Mitochondrial transfer RNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:10:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "Mt_tRNA"^^xsd:string, "mitochondrial_tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002129"^^xsd:string ; a owl:Class ; rdfs:label "mt_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253 . obo:SO_0002130 obo:IAO_0000115 "A transcript that contains a CDS but has no stop codon before the polyA site is reached."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:11:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "non_stop_decay_transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002130"^^xsd:string ; a owl:Class ; rdfs:label "NSD_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000234 . obo:SO_0002131 obo:IAO_0000115 "A long non-coding transcript found within an intron of a coding or non-coding gene, with no overlap of exonic sequence."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:15:02Z"^^xsd:string ; oboInOwl:hasAlternativeId "SO:0001903"^^xsd:string ; oboInOwl:hasExactSynonym "sense intronic lncRNA"^^xsd:string, "sense_intronic"^^xsd:string, "sense_intronic_lncRNA"^^xsd:string, "sense_intronic_non-coding_RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002131"^^xsd:string ; a owl:Class ; rdfs:label "sense_intronic_ncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001877 . obo:SO_0002132 obo:IAO_0000115 "A long non-coding transcript that contains a protein coding gene within its intronic sequence on the same strand, with no overlap of exonic sequence."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:16:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "sense overlap lncRNA"^^xsd:string, "sense_overlap_lncRNA"^^xsd:string, "sense_overlapping"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002132"^^xsd:string ; a owl:Class ; rdfs:label "sense_overlap_ncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0001877 . obo:SO_0002133 obo:IAO_0000115 "A T-cell receptor germline gene."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:17:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "TR_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002133"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "T_cell_receptor_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002121 . obo:SO_0002134 obo:IAO_0000115 "A constant (C) gene, a gene that codes the constant region of a T-cell receptor chain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:19:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "T_cell_receptor_C_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002134"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "TR_C_Gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002133 . obo:SO_0002135 obo:IAO_0000115 "A gene that rearranges at the DNA level and codes the diversity region of the variable domain of aT-cell receptor gene."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:20:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "T_cell_receptor_D_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002135"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "TR_D_Gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002133 . obo:SO_0002136 obo:IAO_0000115 "A joining gene that rearranges at the DNA level and codes the joining region of the variable domain of aT-cell receptor chain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:20:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "T_cell_receptor_J_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002136"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "TR_J_Gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002133 . obo:SO_0002137 obo:IAO_0000115 "A variable gene that rearranges at the DNA level and codes the variable region of the variable domain of aT-cell receptor chain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:21:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "T_cell_receptor_V_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002137"^^xsd:string ; a owl:Class ; rdfs:comment "These terms have been requested by Adam Frankish to support Gencode and Vega biotypes. The terms are defined according to IGMT."^^xsd:string ; rdfs:label "TR_V_Gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002133 . obo:SO_0002138 obo:IAO_0000115 "A transcript feature that has been predicted but is not yet validated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:27:38Z"^^xsd:string ; oboInOwl:hasExactSynonym "predicted transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002138"^^xsd:string ; a owl:Class ; rdfs:label "predicted_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673 . obo:SO_0002139 obo:IAO_0000115 "This is used for non-spliced EST clusters that have polyA features. This category has been specifically created for the ENCODE project to highlight regions that could indicate the presence of protein coding genes that require experimental validation, either by 5' RACE or RT-PCR to extend the transcripts, or by confirming expression of the putatively-encoded peptide with specific antibodies."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-08-23T16:28:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "TEC"^^xsd:string, "to_be_experimentally_confirmed_transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002139"^^xsd:string ; a owl:Class ; rdfs:label "unconfirmed_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002138 . obo:SO_0002140 obo:IAO_0000115 "An origin of replication that initiates early in S phase."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-09-15T15:53:36Z"^^xsd:string ; oboInOwl:hasExactSynonym "early origin"^^xsd:string, "early origin of replication"^^xsd:string, "early replication origin"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002140"^^xsd:string ; a owl:Class ; rdfs:label "early_origin_of_replication"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0002141 obo:IAO_0000115 "An origin of replication that initiates late in S phase."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-09-15T15:56:07Z"^^xsd:string ; oboInOwl:hasExactSynonym "late origin"^^xsd:string, "late origin of replication"^^xsd:string, "late replication origin"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002141"^^xsd:string ; a owl:Class ; rdfs:label "late_origin_of_replication"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0002142 obo:IAO_0000115 "A histone 2A modification where the modification is the acetylation of the residue."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T12:03:46Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2Aac"^^xsd:string, "histone 2A acetylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002142"^^xsd:string ; a owl:Class ; rdfs:label "histone_2A_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001702 . obo:SO_0002143 obo:IAO_0000115 "A histone 2B modification where the modification is the acetylation of the residue."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T12:04:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2Bac"^^xsd:string, "histone 2B acetylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002143"^^xsd:string ; a owl:Class ; rdfs:label "histone_2B_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001702 . obo:SO_0002144 obo:IAO_0000115 "A histone 2AZ modification where the modification is the acetylation of the residue."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T14:11:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2A.Zac"^^xsd:string, "H2AZac"^^xsd:string, "histone 2AZ acetylation site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002144"^^xsd:string ; a owl:Class ; rdfs:label "histone_2AZ_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002142 . obo:SO_0002145 obo:IAO_0000115 "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T14:19:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2A.ZK4ac"^^xsd:string, "H2AZK4 acetylation site"^^xsd:string, "H2AZK4ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002145"^^xsd:string ; a owl:Class ; rdfs:label "H2AZK4_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002144 . obo:SO_0002146 obo:IAO_0000115 "A kind of histone modification site, whereby the 7th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T14:23:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2A.ZK7ac"^^xsd:string, "H2AZK7 acetylation site"^^xsd:string, "H2AZK7ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002146"^^xsd:string ; a owl:Class ; rdfs:label "H2AZK7_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002144 . obo:SO_0002147 obo:IAO_0000115 "A kind of histone modification site, whereby the 11th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T14:23:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2A.ZK11ac"^^xsd:string, "H2AZK11 acetylation site"^^xsd:string, "H2AZK11ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002147"^^xsd:string ; a owl:Class ; rdfs:label "H2AZK11_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002144 . obo:SO_0002148 obo:IAO_0000115 "A kind of histone modification site, whereby the 13th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T14:23:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2A.ZK13ac"^^xsd:string, "H2AZK13 acetylation site"^^xsd:string, "H2AZK13ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002148"^^xsd:string ; a owl:Class ; rdfs:label "H2AZK13_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002144 . obo:SO_0002149 obo:IAO_0000115 "A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-25T14:24:08Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2A.ZK15ac"^^xsd:string, "H2AZK15 acetylation site"^^xsd:string, "H2AZK15ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002149"^^xsd:string ; a owl:Class ; rdfs:label "H2AZK15_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002144 . obo:SO_0002150 obo:IAO_0000115 "A uORF beginning with the canonical start codon AUG."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-26T09:37:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "AUG initiated uORF"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002150"^^xsd:string ; a owl:Class ; rdfs:label "AUG_initiated_uORF"^^xsd:string ; rdfs:subClassOf obo:SO_0002027 . obo:SO_0002151 obo:IAO_0000115 "A uORF beginning with a codon other than AUG."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-26T09:37:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "non AUG initiated uORF"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002151"^^xsd:string ; a owl:Class ; rdfs:label "non_AUG_initiated_uORF"^^xsd:string ; rdfs:subClassOf obo:SO_0002027 . obo:SO_0002152 obo:IAO_0000115 "A variant that falls downstream of a transcript, but within the genic region of the gene due to alternately transcribed isoforms."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-28T10:20:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "genic 3 prime transcript variant"^^xsd:string, "genic 3' transcript variant"^^xsd:string, "genic downstream transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002152"^^xsd:string ; a owl:Class ; rdfs:label "genic_downstream_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001564 . obo:SO_0002153 obo:IAO_0000115 "A variant that falls upstream of a transcript, but within the genic region of the gene due to alternately transcribed isoforms."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-28T10:23:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "genic 5 prime transcript variant"^^xsd:string, "genic 5' transcript variant"^^xsd:string, "genic upstream transcript variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002153"^^xsd:string ; a owl:Class ; rdfs:label "genic_upstream_transcript_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001564 . obo:SO_0002154 obo:IAO_0000115 "A genomic region where there is an exchange of genetic material with another genomic region, occurring in somatic cells."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-28T10:33:54Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_recomb"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:mitotic"^^xsd:string, "INSDC_qualifier:mitotic_recombination"^^xsd:string, "mitotic recombination region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002154"^^xsd:string ; a owl:Class ; rdfs:label "mitotic_recombination_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000298 . obo:SO_0002155 obo:IAO_0000115 "A genomic region in which there is an exchange of genetic material as a result of the repair of meiosis-specific double strand breaks that occur during meiotic prophase."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-28T10:34:55Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_recomb"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:meiotic"^^xsd:string, "INSDC_qualifier:meiotic_recombination"^^xsd:string, "meiotic recombination region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002155"^^xsd:string ; a owl:Class ; rdfs:label "meiotic_recombination_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000298 . obo:SO_0002156 obo:IAO_0000115 "A promoter element bound by the MADS family of transcription factors with consensus 5'-(C/T)TA(T/A)4TA(G/A)-3'."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-10-28T10:42:06Z"^^xsd:string ; oboInOwl:hasExactSynonym "CArG box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002156"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Antonia Lock"^^xsd:string ; rdfs:label "CArG_box"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0002157 obo:IAO_0000115 "A gene cassette array containing H+ mating type specific information."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-11-17T10:59:00Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002157"^^xsd:string ; a owl:Class ; rdfs:label "Mat2P"^^xsd:string ; rdfs:subClassOf obo:SO_0001984 . obo:SO_0002158 obo:IAO_0000115 "A gene cassette array containing H- mating type specific information."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-11-17T11:02:27Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002158"^^xsd:string ; a owl:Class ; rdfs:label "Mat3M"^^xsd:string ; rdfs:subClassOf obo:SO_0001984 . obo:SO_0002159 obo:IAO_0000115 "A conserved Cdc48/p97 interaction motif with strict consensus sequence F[PI]GKG[TK][RK]LG[GT] and relaxed consensus sequence FXGKGX[RK]LG."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2016-12-15T09:48:38Z"^^xsd:string ; oboInOwl:hasExactSynonym "SHP box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002159"^^xsd:string ; a owl:Class ; rdfs:label "SHP_box"^^xsd:string ; rdfs:subClassOf obo:SO_0100017 . obo:SO_0002160 obo:IAO_0000115 "A sequence variant that changes the length of one or more sequence features."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-04-26T12:31:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "sequence length variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002160"^^xsd:string ; a owl:Class ; rdfs:label "sequence_length_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001537 . obo:SO_0002161 obo:IAO_0000115 "A sequence variant where the copies of a short tandem repeat (STR) feature are either contracted or expanded."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-04-26T12:50:55Z"^^xsd:string ; oboInOwl:hasExactSynonym "short tandem repeat change"^^xsd:string, "str change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002161"^^xsd:string ; a owl:Class ; rdfs:label "short_tandem_repeat_change"^^xsd:string ; rdfs:subClassOf obo:SO_0002160 . obo:SO_0002162 obo:IAO_0000115 "A short tandem repeat variant containing more repeat units than the reference sequence."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-04-26T12:51:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "short tandem repeat expansion"^^xsd:string, "str expansion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002162"^^xsd:string ; a owl:Class ; rdfs:label "short_tandem_repeat_expansion"^^xsd:string ; rdfs:subClassOf obo:SO_0002161 . obo:SO_0002163 obo:IAO_0000115 "A short tandem repeat variant containing fewer repeat units than the reference sequence."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-04-26T12:52:33Z"^^xsd:string ; oboInOwl:hasExactSynonym "short tandem repeat contraction"^^xsd:string, "str contraction"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002163"^^xsd:string ; a owl:Class ; rdfs:label "short_tandem_repeat_contraction"^^xsd:string ; rdfs:subClassOf obo:SO_0002161 . obo:SO_0002164 obo:IAO_0000115 "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-05-17T15:22:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "H2BK5 acetylation site"^^xsd:string, "H2BK5ac"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002164"^^xsd:string ; a owl:Class ; rdfs:label "H2BK5_acetylation_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002143 . obo:SO_0002165 obo:IAO_0000115 "A short tandem repeat expansion with an increase in a sequence of three nucleotide units repeated in tandem compared to a reference sequence."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-06-02T10:43:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "trinucleotide repeat expansion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002165"^^xsd:string ; a owl:Class ; rdfs:label "trinucleotide_repeat_expansion"^^xsd:string ; rdfs:subClassOf obo:SO_0002162 . obo:SO_0002166 obo:IAO_0000115 "A ref_miRNA (RefSeq-miRNA) sequence is assigned at the creation of a new mature miRNA entry in a database. The ref_miRNA sequence designation remains unchanged even if a different isomiR is later shown to be expressed at a higher level. A ref_miRNA can be produced by one or multiple pre-miRNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-06-22T11:05:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "RefSeq miRNA"^^xsd:string, "RefSeq-miRNA"^^xsd:string, "ref miRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002166"^^xsd:string ; a owl:Class ; rdfs:label "ref_miRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000276 . obo:SO_0002167 obo:IAO_0000115 "IsomiRs are all the bona fide variants of a mature product. IsomiRs should be connected to the ref_miRNA it is most likely to be the variant of. Some isomiRs can be variations of one or multiple ref_miRNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-06-22T11:09:42Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002167"^^xsd:string ; a owl:Class ; rdfs:label "isomiR"^^xsd:string ; rdfs:subClassOf obo:SO_0000276 . obo:SO_0002168 obo:IAO_0000115 "An RNA_thermometer is a cis element in the 5' end of an mRNA that can change its secondary structure in response to temperature and coordinate temperature-dependent gene expression."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-07-17T10:07:45Z"^^xsd:string ; oboInOwl:hasDbXref "https://en.wikipedia.org/wiki/RNA_thermometer"^^xsd:string ; oboInOwl:hasExactSynonym "RNA thermometer"^^xsd:string, "RNA thermoregulator"^^xsd:string, "RNAT"^^xsd:string, "thermoregulator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002168"^^xsd:string ; a owl:Class ; rdfs:label "RNA_thermometer"^^xsd:string ; rdfs:subClassOf obo:SO_0000836, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000234 ] . obo:SO_0002169 obo:IAO_0000115 "A sequence variant that falls in the polypyrimidine tract at 3' end of intron between 17 and 3 bases from the end (acceptor -3 to acceptor -17)."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-07-31T13:40:13Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice polypyrimidine tract variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002169"^^xsd:string ; a owl:Class ; rdfs:label "splice_polypyrimidine_tract_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001568 . obo:SO_0002170 obo:IAO_0000115 "A sequence variant that falls in the region between the 3rd and 6th base after splice junction (5' end of intron)."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-07-31T13:48:32Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice donor region variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002170"^^xsd:string ; a owl:Class ; rdfs:label "splice_donor_region_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001630 . obo:SO_0002171 obo:IAO_0000115 "A telomeric D-loop is a three-stranded DNA displacement loop that forms at the site where the telomeric 3' single-stranded DNA overhang (formed of the repeat sequence TTAGGG in mammals) is tucked back inside the double-stranded component of telomeric DNA molecule, thus forming a t-loop or telomeric-loop and protecting the chromosome terminus."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-01T13:12:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "telomeric D loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002171"^^xsd:string ; a owl:Class ; rdfs:comment "This definition is from GO:0061820 telomeric D-loop disassembly."^^xsd:string ; rdfs:label "telomeric_D_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0002172 obo:IAO_0000115 "A sequence_alteration where the source of the alteration is due to an artifact in the base-calling or assembly process."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T13:43:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "sequence alteration artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002172"^^xsd:string ; a owl:Class ; rdfs:label "sequence_alteration_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0000413 . obo:SO_0002173 obo:IAO_0000115 "An indel that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:16:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "indel artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002173"^^xsd:string ; a owl:Class ; rdfs:label "indel_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002172 . obo:SO_0002174 obo:IAO_0000115 "A deletion that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:17:11Z"^^xsd:string ; oboInOwl:hasExactSynonym "deletion artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002174"^^xsd:string ; a owl:Class ; rdfs:label "deletion_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002172 . obo:SO_0002175 obo:IAO_0000115 "An insertion that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:17:42Z"^^xsd:string ; oboInOwl:hasExactSynonym "insertion artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002175"^^xsd:string ; a owl:Class ; rdfs:label "insertion_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002172 . obo:SO_0002176 obo:IAO_0000115 "A substitution that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:18:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "substitution artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002176"^^xsd:string ; a owl:Class ; rdfs:label "substitution_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002172 . obo:SO_0002177 obo:IAO_0000115 "A duplication that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:26:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "duplication artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002177"^^xsd:string ; a owl:Class ; rdfs:label "duplication_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002175 . obo:SO_0002178 obo:IAO_0000115 "An SNV that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:26:49Z"^^xsd:string ; oboInOwl:hasExactSynonym "SNV artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002178"^^xsd:string ; a owl:Class ; rdfs:label "SNV_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002176 . obo:SO_0002179 obo:IAO_0000115 "An MNV that is the result of base-calling or assembly error."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-08-18T15:27:21Z"^^xsd:string ; oboInOwl:hasExactSynonym "MNV artifact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002179"^^xsd:string ; a owl:Class ; rdfs:label "MNV_artifact"^^xsd:string ; rdfs:subClassOf obo:SO_0002176 . obo:SO_0002180 obo:IAO_0000115 "A gene that encodes an enzymatic RNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-09-27T10:30:27Z"^^xsd:string ; oboInOwl:hasExactSynonym "enzymatic RNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002180"^^xsd:string ; a owl:Class ; rdfs:label "enzymatic_RNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0002181 obo:IAO_0000115 "A gene that encodes a ribozyme."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-09-27T10:31:09Z"^^xsd:string ; oboInOwl:hasExactSynonym "ribozyme gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002181"^^xsd:string ; a owl:Class ; rdfs:label "ribozyme_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002180 . obo:SO_0002182 obo:IAO_0000115 "A gene that encodes an antisense long, non-coding RNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-09-27T10:44:00Z"^^xsd:string ; oboInOwl:hasExactSynonym "antisense lncRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002182"^^xsd:string ; a owl:Class ; rdfs:label "antisense_lncRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002127 . obo:SO_0002183 obo:IAO_0000115 "A gene that encodes a sense overlap long non-coding RNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-09-27T10:48:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "sense overlap lncRNA gene"^^xsd:string, "sense overlap ncRNA gene"^^xsd:string, "sense_overlap_lncRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002183"^^xsd:string ; a owl:Class ; rdfs:label "sense_overlap_ncRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002127 . obo:SO_0002184 obo:IAO_0000115 "A gene that encodes a sense intronic long non-coding RNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-09-27T11:03:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "sense intronic lncRNA gene"^^xsd:string, "sense intronic ncRNA gene"^^xsd:string, "sense_intronic_lncRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002184"^^xsd:string ; a owl:Class ; rdfs:label "sense_intronic_ncRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0002127 . obo:SO_0002185 obo:IAO_0000115 "A non-coding locus that originates from within the promoter region of a protein-coding gene, with transcription proceeding in the opposite direction on the other strand."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-10-03T11:43:48Z"^^xsd:string ; oboInOwl:hasExactSynonym "bidirectional promoter lncRNA"^^xsd:string, "bidirectional promoter lncRNA gene"^^xsd:string, "bidirectional_promoter_lncRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002185"^^xsd:string ; a owl:Class ; rdfs:comment "This is a gencode term. See GitHub Issue #408. Synonyms \"bidirectional promoter lncRNA gene\" and \"bidirectional_promoter_lncRNA_gene\" added 23 April 2021 by David Sant. See GitHub Issue #506."^^xsd:string ; rdfs:label "bidirectional_promoter_lncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002127 . obo:SO_0002186 obo:IAO_0000115 "A region of genomic sequence known to undergo mutational events with greater frequency than expected by chance."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-11-07T12:27:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "mutational hotspot"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002186"^^xsd:string ; a owl:Class ; rdfs:label "mutational_hotspot"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0002187 obo:IAO_0000115 "An insertion of sequence from the HERV family of mobile elements with respect to a reference."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-11-20T11:52:51Z"^^xsd:string ; oboInOwl:hasExactSynonym "HERV insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002187"^^xsd:string ; a owl:Class ; rdfs:label "HERV_insertion"^^xsd:string ; rdfs:subClassOf obo:SO_0001837, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0002268 ] . obo:SO_0002188 obo:IAO_0000115 "A gene_member_region that encodes sequence that directly contributes to the molecular function of its gene or gene product."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2017-12-15T11:08:43Z"^^xsd:string ; oboInOwl:hasExactSynonym "functional gene region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002188"^^xsd:string ; a owl:Class ; rdfs:comment "A functional_gene_region is a sequence feature that resides within a gene. But it is typically the corresponding region of translated/transcribed sequence in a gene product, that performs the molecular function qualifying it as a functional_gene_region. Here, a functional_gene_region must contribute directly to the molecular function of the gene product - regions that code for purely structural elements in a gene product that connect such directly functional elements together are not considered functional_gene_regions. Examples of regions considered 'functional' include those encoding enzymatic activity, binding activity, regions required for localization or membrane association, channel-forming regions, and signal peptides or other elements critical for processing of a gene product. In addition, regions that function at the genomic/DNA level are also included - e.g. regions of sequence known to be critical for binding transcription or splicing factors."^^xsd:string ; rdfs:label "functional_gene_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000831 . obo:SO_0002189 obo:IAO_0000115 "A (unitary) pseudogene that is stable in the population but importantly it has a functional alternative allele also in the population. i.e., one strain may have the gene, another strain may have the pseudogene. MHC haplotypes have allelic pseudogenes."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-03T15:47:32Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:gene"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:allelic"^^xsd:string, "allelic pseudogene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002189"^^xsd:string ; a owl:Class ; rdfs:label "allelic_pseudogene"^^xsd:string ; rdfs:subClassOf obo:SO_0001759 . obo:SO_0002190 obo:IAO_0000115 "A transcriptional cis regulatory region that when located between an enhancer and a gene's promoter prevents the enhancer from modulating the expression of the gene. Sometimes referred to as an insulator but may not include the barrier function of an insulator."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-04T17:28:52Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:enhancer_blocking_element"^^xsd:string, "enhancer blocking element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "insulator"^^xsd:string ; oboInOwl:id "SO:0002190"^^xsd:string ; a owl:Class ; rdfs:comment "Insulator is included as a related synonym since this is used to refer to insulator in the literature (NCBI:cf)."^^xsd:string ; rdfs:label "enhancer_blocking_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000627 . obo:SO_0002191 obo:IAO_0000115 "A regulatory region that controls epigenetic imprinting and affects the expression of target genes in an allele- or parent-of-origin-specific manner. Associated regulatory elements may include differentially methylated regions and non-coding RNAs."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-04T17:35:34Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:imprinting_control_region"^^xsd:string, "imprinting control region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002191"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from is_a regulatory_region (SO:0005836) to is_a epigenetically_modified_region (SO:0001720) on 11 Feb 2021. GREEKC members pointed out that this would be a more appropriate location. See GitHub Issue #530."^^xsd:string ; rdfs:label "imprinting_control_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001720 . obo:SO_0002192 obo:IAO_0000115 "A repeat lying outside the sequence for which it has functional significance (eg. transposon insertion target sites)."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-05T16:27:21Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:flanking"^^xsd:string, "flanking repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002192"^^xsd:string ; a owl:Class ; rdfs:label "flanking_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0002193 obo:IAO_0000115 "The pseudogene has arisen by reverse transcription of a mRNA into cDNA, followed by reintegration into the genome. Therefore, it has lost any intron/exon structure, and it might have a pseudo-polyA-tail."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T11:43:58Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:rRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:processed"^^xsd:string, "processed pseudogenic rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002193"^^xsd:string ; a owl:Class ; rdfs:label "processed_pseudogenic_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000777 . obo:SO_0002194 obo:IAO_0000115 "The pseudogene has arisen from a copy of the parent gene by duplication followed by accumulation of random mutation. The changes, compared to their functional homolog, include insertions, deletions, premature stop codons, frameshifts and a higher proportion of non-synonymous versus synonymous substitutions."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T11:49:41Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:rRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:unprocessed"^^xsd:string, "unprocessed pseudogenic rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002194"^^xsd:string ; a owl:Class ; rdfs:label "unprocessed_pseudogenic_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000777 . obo:SO_0002195 obo:IAO_0000115 "The pseudogene has no parent. It is the original gene, which is functional in some species but disrupted in some way (indels, mutation, recombination) in another species or strain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T11:51:59Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:rRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:unitary"^^xsd:string, "unitary pseudogenic rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002195"^^xsd:string ; a owl:Class ; rdfs:label "unitary_pseudogenic_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000777 . obo:SO_0002196 obo:IAO_0000115 "A (unitary) pseudogene that is stable in the population but importantly it has a functional alternative allele also in the population. i.e., one strain may have the gene, another strain may have the pseudogene. MHC haplotypes have allelic pseudogenes."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T11:53:13Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:rRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:allelic"^^xsd:string, "allelic pseudogenic rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002196"^^xsd:string ; a owl:Class ; rdfs:label "allelic_pseudogenic_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000777 . obo:SO_0002197 obo:IAO_0000115 "The pseudogene has arisen by reverse transcription of a mRNA into cDNA, followed by reintegration into the genome. Therefore, it has lost any intron/exon structure, and it might have a pseudo-polyA-tail."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T12:10:10Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:tRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:processed"^^xsd:string, "processed pseudogenic tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002197"^^xsd:string ; a owl:Class ; rdfs:label "processed_pseudogenic_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000778 . obo:SO_0002198 obo:IAO_0000115 "The pseudogene has arisen from a copy of the parent gene by duplication followed by accumulation of random mutation. The changes, compared to their functional homolog, include insertions, deletions, premature stop codons, frameshifts and a higher proportion of non-synonymous versus synonymous substitutions."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T12:14:34Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:tRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:unprocessed"^^xsd:string, "unprocessed pseudogenic tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002198"^^xsd:string ; a owl:Class ; rdfs:label "unprocessed_pseudogenic_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000778 . obo:SO_0002199 obo:IAO_0000115 "The pseudogene has no parent. It is the original gene, which is functional in some species but disrupted in some way (indels, mutation, recombination) in another species or strain."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T12:16:59Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:tRNA"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:unitary"^^xsd:string, "unitary pseudogenic tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002199"^^xsd:string ; a owl:Class ; rdfs:label "unitary_pseudogenic_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000778 . obo:SO_0002200 obo:IAO_0000115 "A (unitary) pseudogene that is stable in the population but importantly it has a functional alternative allele also in the population. i.e., one strain may have the gene, another strain may have the pseudogene. MHC haplotypes have allelic pseudogenes."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T12:18:38Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:tRNA"^^xsd:string, "INSDC_qualifier:allelic"^^xsd:string, "allelic pseudogenic tRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002200"^^xsd:string ; a owl:Class ; rdfs:label "allelic_pseudogenic_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000778 . obo:SO_0002201 obo:IAO_0000115 "A repeat at the ends of and within the sequence for which it has functional significance other than long terminal repeat."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-08T13:00:59Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:repeat_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:terminal"^^xsd:string, "terminal repeat"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002201"^^xsd:string ; a owl:Class ; rdfs:label "terminal_repeat"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0002202 obo:IAO_0000115 "A repeat region that is prone to expansions and/or contractions."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-09T11:19:55Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:repeat_instability_region"^^xsd:string, "repeat instability region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002202"^^xsd:string ; a owl:Class ; rdfs:label "repeat_instability_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000705 . obo:SO_0002203 obo:IAO_0000115 "A nucleotide site from which replication initiates."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-09T11:23:35Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:replication_start_site"^^xsd:string, "replication start site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002203"^^xsd:string ; a owl:Class ; rdfs:label "replication_start_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000296 . obo:SO_0002204 obo:IAO_0000115 "A point in nucleic acid where a cleavage event occurs."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-09T11:30:34Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:misc_feature"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_note:nucleotide_cleavage_site"^^xsd:string, "nucleotide cleavage site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002204"^^xsd:string ; a owl:Class ; rdfs:label "nucleotide_cleavage_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000699 . obo:SO_0002205 obo:IAO_0000115 "A regulatory element that acts in response to a stimulus, usually via transcription factor binding."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-10T16:33:25Z"^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:response_element"^^xsd:string, "response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002205"^^xsd:string ; a owl:Class ; rdfs:comment "Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001055 . obo:SO_0002206 obo:IAO_0000115 "Identifies the biological source of the specified span of the sequence"^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-01-26T09:50:58Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:source"^^xsd:string, "sequence source"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002206"^^xsd:string ; a owl:Class ; rdfs:comment "Terms such as genomic_DNA or mRNA can be used to describe a sequence source."^^xsd:string ; rdfs:label "sequence_source"^^xsd:string ; rdfs:subClassOf obo:SO_0000400 . obo:SO_0002207 obo:IAO_0000115 "A hexameric RNA motif consisting of nucleotides UNAAAC (where N can be any nucleotide) that targets the RNA for degradation."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-02-06T12:23:24Z"^^xsd:string ; oboInOwl:hasExactSynonym "UNAAAC motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002207"^^xsd:string ; a owl:Class ; rdfs:label "UNAAAC_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001979 . obo:SO_0002208 obo:IAO_0000115 "An RNA that is transcribed from a long terminal repeat."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-02-07T11:51:45Z"^^xsd:string ; oboInOwl:hasExactSynonym "LTR transcript"^^xsd:string, "long terminal repeat transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002208"^^xsd:string ; a owl:Class ; rdfs:label "long_terminal_repeat_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673 . obo:SO_0002209 obo:IAO_0000115 "A contig composed of genomic DNA derived sequences."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-03-21T12:25:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "gDNA contig"^^xsd:string, "gDNA_contig"^^xsd:string, "genomic DNA contig"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002209"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Crop Science, March 2018"^^xsd:string ; rdfs:label "genomic_DNA_contig"^^xsd:string ; rdfs:subClassOf obo:SO_0000149 . obo:SO_0002210 obo:IAO_0000115 "A variation qualifying the presence of a sequence in a genome which is entirely missing in another genome."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-03-21T12:59:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "PAV"^^xsd:string, "presence absence variation"^^xsd:string, "presence-absence variation"^^xsd:string, "presence-absence_variation"^^xsd:string, "presence/absence variation"^^xsd:string, "presence/absence_variation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002210"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Bayer Crop Science, March 2018"^^xsd:string ; rdfs:label "presence_absence_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0001019 . obo:SO_0002211 obo:IAO_0000115 "A self replicating circular nucleic acid molecule that is distinct from a chromosome in the organism."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-04-18T11:13:38Z"^^xsd:string ; oboInOwl:hasExactSynonym "circular plasmid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002211"^^xsd:string ; a owl:Class ; rdfs:label "circular_plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0000155 . obo:SO_0002212 obo:IAO_0000115 "A self replicating linear nucleic acid molecule that is distinct from a chromosome in the organism. They are capped by terminal proteins covalently bound to the 5' ends of the DNA."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-04-18T11:14:04Z"^^xsd:string ; oboInOwl:hasExactSynonym "linear plasmid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002212"^^xsd:string ; a owl:Class ; rdfs:label "linear_plasmid"^^xsd:string ; rdfs:subClassOf obo:SO_0000155 . obo:SO_0002213 obo:IAO_0000115 "Termination signal preferentially observed downstream of polyadenylation signal"^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-05-18T17:10:14Z"^^xsd:string ; oboInOwl:hasExactSynonym "(A(U)GUA) motif"^^xsd:string, "Nrd1 binding motif"^^xsd:string, "Nrd1-dependent terminator"^^xsd:string, "UCUUG motif"^^xsd:string, "UGUAA/G motif"^^xsd:string, "polyA site associated transcription termination signal"^^xsd:string, "polyA site downstream element"^^xsd:string, "transcription termination signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002213"^^xsd:string ; a owl:Class ; rdfs:label "transcription_termination_signal"^^xsd:string ; rdfs:subClassOf obo:SO_0000951 . obo:SO_0002214 obo:IAO_0000115 "A sequence variant whereby at least one base of a codon is changed, resulting in a stop codon inserted next to an existing stop codon. This leads to a polypeptide of the same length."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-06-13T09:53:31Z"^^xsd:string ; oboInOwl:hasExactSynonym "redundant inserted stop gained"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002214"^^xsd:string ; a owl:Class ; rdfs:label "redundant_inserted_stop_gained"^^xsd:string ; rdfs:subClassOf obo:SO_0001992 . obo:SO_0002215 obo:IAO_0000115 "A DNA motif to which the S. pombe Zas1 protein binds. The consensus sequence is 5'-(Y)CCCCAY-3'."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-06-20T10:05:17Z"^^xsd:string ; oboInOwl:hasExactSynonym "Zas1 recognition motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002215"^^xsd:string ; a owl:Class ; rdfs:label "Zas1_recognition_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0002216 obo:IAO_0000115 "A promoter element with consensus sequence [5'-TCG(G/C)(A/T)xxTTxAA], bound by the transcription factor Pho7."^^xsd:string ; oboInOwl:created_by "nicole"^^xsd:string ; oboInOwl:creation_date "2018-09-12T12:26:50Z"^^xsd:string ; oboInOwl:hasExactSynonym "Pho7 binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002216"^^xsd:string ; a owl:Class ; rdfs:label "Pho7_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001659 . obo:SO_0002217 obo:IAO_0000115 "A sequence alteration which includes an insertion or a deletion. This describes a sequence length change when the direction of the change is unspecified or when such changes are pooled into one category."^^xsd:string ; oboInOwl:created_by "nicoleruiz"^^xsd:string ; oboInOwl:creation_date "2019-02-24T18:26:05Z"^^xsd:string ; oboInOwl:hasExactSynonym "insertion or deletion"^^xsd:string, "unspecified indel"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002217"^^xsd:string ; a owl:Class ; rdfs:comment "This term is used when there is a change that is either an insertion or a deletion but it is unknown which event occurred."^^xsd:string ; rdfs:label "unspecified_indel"^^xsd:string ; rdfs:subClassOf obo:SO_0001059 . obo:SO_0002218 obo:IAO_0000115 "A sequence variant in which the function of a gene product is altered with respect to a reference."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-03-01T10:21:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "function modified variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "function_modified_variant"^^xsd:string, "functionally abnormal"^^xsd:string ; oboInOwl:id "SO:0002218"^^xsd:string ; a owl:Class ; rdfs:comment "Added after request from Lea Starita, lea.starita@gmail.com from the NCBI Feb 2019."^^xsd:string ; rdfs:label "functionally_abnormal"^^xsd:string ; rdfs:subClassOf obo:SO_0001536 . obo:SO_0002219 obo:IAO_0000115 "A sequence variant in which the function of a gene product is retained with respect to a reference."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-03-01T10:28:12Z"^^xsd:string ; oboInOwl:hasExactSynonym "function retained variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "function_retained_variant"^^xsd:string, "functionally normal"^^xsd:string ; oboInOwl:id "SO:0002219"^^xsd:string ; a owl:Class ; rdfs:comment "Added after request from Lea Starita, lea.starita@gmail.com from the NCBI Feb 2019."^^xsd:string ; rdfs:label "functionally_normal"^^xsd:string ; rdfs:subClassOf obo:SO_0001536 . obo:SO_0002220 obo:IAO_0000115 "A sequence variant in which the function of a gene product is unknown with respect to a reference."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-03-01T10:29:01Z"^^xsd:string ; oboInOwl:hasExactSynonym "function uncertain variant"^^xsd:string, "function_uncertain_variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002220"^^xsd:string ; a owl:Class ; rdfs:comment "Added after request from Lea Starita, lea.starita@gmail.com from the NCBI Feb 2019."^^xsd:string ; rdfs:label "function_uncertain_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0001536 . obo:SO_0002221 obo:IAO_0000115 "A regulatory_region including the Transcription Start Site (TSS) of a gene and serving as a platform for Pre-Initiation Complex (PIC) assembly, enabling transcription of a gene under certain conditions."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-07-31T14:01:20Z"^^xsd:string ; oboInOwl:hasExactSynonym "Eukaryotic promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002221"^^xsd:string ; a owl:Class ; rdfs:label "eukaryotic_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167 . obo:SO_0002222 obo:IAO_0000115 "A regulatory_region essential for the specific initiation of transcription at a defined location in a DNA molecule, although this location might not be one single base. It is recognized by a specific RNA polymerase(RNAP)-holoenzyme, and this recognition is not necessarily autonomous."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-07-31T14:02:26Z"^^xsd:string ; oboInOwl:hasExactSynonym "Prokaryotic promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002222"^^xsd:string ; a owl:Class ; rdfs:label "prokaryotic_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167 . obo:SO_0002223 obo:IAO_0000115 "Sequences that decrease interactions between biological regions, such as between a promoter, its 5' context and/or the translational unit(s) it regulates. Spacers can affect regulation of translation, transcription, and other biological processes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-09-06T19:05:52Z"^^xsd:string ; oboInOwl:hasDbXref "BioRXiv:https://doi.org/10.1101/584664"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "Inert DNA Spacer"^^xsd:string ; oboInOwl:id "SO:0002223"^^xsd:string ; a owl:Class ; rdfs:comment "Updated by Evan Christensen on May 27, 2021 per github request https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/494"^^xsd:string ; rdfs:label "inert_DNA_spacer"^^xsd:string ; rdfs:subClassOf obo:SO_0005836 . obo:SO_0002224 obo:IAO_0000115 "A region that codes for a 2A self-cleaving polypeptide region, which is a region that can result in a break in the peptide sequence at its terminal G-P junction."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-10-21T10:41:49Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "2A polypeptide region"^^xsd:string, "2A self-cleaving polypeptide region"^^xsd:string ; oboInOwl:id "SO:0002224"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave Sant on October 21, 2019 per github request https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/475"^^xsd:string ; rdfs:label "2A_self_cleaving_peptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0002225 obo:IAO_0000115 "A conserved sequence (5'-CGNMGATCNTY-3') transcription repressor binding site required for gene repression in the presence of high zinc."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2019-10-30T11:19:52Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "LRE"^^xsd:string, "LRE element"^^xsd:string, "Loz1 response element"^^xsd:string ; oboInOwl:id "SO:0002225"^^xsd:string ; a owl:Class ; rdfs:comment "Added on October 30, 2019 as per request of Val Wood request on GitHub Issue# 476 https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/476"^^xsd:string ; rdfs:label "LOZ1_response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0002006 . obo:SO_0002226 obo:IAO_0000115 "A group II intron that recognizes IBS1/EBS1 for the 5-prime exon and IBS3/EBS3 for the 3-prime exon and may also recognize a stem-loop in the RNA."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-03-27T08:56:34Z"^^xsd:string ; oboInOwl:hasExactSynonym "group IIB intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002226"^^xsd:string ; a owl:Class ; rdfs:label "group_IIC_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0000603 . obo:SO_0002227 obo:IAO_0000115 "A sequence variant extending the CDS, that causes elongation of the resulting polypeptide sequence."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-03-27T17:56:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDS Extension"^^xsd:string, "elongated CDS"^^xsd:string, "elongated_CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002227"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Edward Wallace GitHub issue #480 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/480)"^^xsd:string ; rdfs:label "CDS_extension"^^xsd:string ; rdfs:subClassOf obo:SO_0000316 . obo:SO_0002228 obo:IAO_0000115 "A sequence variant extending the CDS at the 5' end, that causes elongation of the resulting polypeptide sequence at the N terminus."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-03-27T17:57:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDS Extension 5 prime"^^xsd:string, "CDS Extension five prime"^^xsd:string, "elongated CDS five prime"^^xsd:string, "elongated_CDS_five_prime"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002228"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Edward Wallace GitHub issue #480 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/480)"^^xsd:string ; rdfs:label "CDS_five_prime_extension"^^xsd:string ; rdfs:subClassOf obo:SO_0002227 . obo:SO_0002229 obo:IAO_0000115 "A sequence variant extending the CDS at the 3' end, that causes elongation of the resulting polypeptide sequence at the C terminus."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-03-27T17:58:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "CDS Extension 3 prime"^^xsd:string, "CDS Extension three prime"^^xsd:string, "elongated CDS three prime"^^xsd:string, "elongated_CDS_three_prime"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002229"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Edward Wallace GitHub issue #480 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/480)"^^xsd:string ; rdfs:label "CDS_three_prime_extension"^^xsd:string ; rdfs:subClassOf obo:SO_0002227 . obo:SO_0002230 obo:IAO_0000115 "A C-terminus protein motif (CAAX) serving as a post-translational prenylation site modified by the attachment of either a farnesyl or a geranyl-geranyl group to a cysteine residue. Farnesyltransferase recognizes CaaX boxes where X = M, S, Q, A, or C, whereas Geranylgeranyltransferase I recognizes CaaX boxes with X = L or E."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-03-27T18:04:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "CAAX box"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002230"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Val Wood GitHub issue #479 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/479)"^^xsd:string ; rdfs:label "CAAX_box"^^xsd:string ; rdfs:subClassOf obo:SO_0100017 . obo:SO_0002231 obo:IAO_0000115 "An RNA that catalyzes its own cleavage."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-03-30T16:02:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "self cleaving ribozyme"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002231"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by John T. Sexton GitHub issue #470 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/470)"^^xsd:string ; rdfs:label "self_cleaving_ribozyme"^^xsd:string ; rdfs:subClassOf obo:SO_0000374, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001977 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000374 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001977 ] ) ] . obo:SO_0002232 obo:IAO_0000115 "A genetic feature that encodes a trait used for artificial selection of a subpopulation."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-04-01T10:04:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "selectable marker"^^xsd:string, "selectable_marker"^^xsd:string, "selection marker"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002232"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Bryan Bartley GitHub issue #468 and #402 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/468)"^^xsd:string ; rdfs:label "selection_marker"^^xsd:string ; rdfs:subClassOf obo:SO_0001645 . obo:SO_0002233 obo:IAO_0000115 "A chromosomal locus where complementary lncRNA and associated proteins accumulate at the corresponding lncRNA gene loci to tether homologous chromosome during chromosome pairing at meiosis I."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-04-14T10:09:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "homologous chromosome recognition and pairing locus"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002233"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Val Wood GitHub issue #483 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/483)"^^xsd:string ; rdfs:label "homologous_chromosome_recognition_and_pairing_locus"^^xsd:string ; rdfs:subClassOf obo:SO_0000409, [ a owl:Restriction ; owl:onProperty so:member_of ; owl:someValuesFrom obo:SO_0000830 ] . obo:SO_0002234 obo:IAO_0000115 "A cis-acting element involved in RNA stability found in the 3' UTR of some RNA (consensus UGUAAAUA)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-04-14T10:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "PRE binding RNA"^^xsd:string, "pumilio response element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002234"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Val Wood GitHub issue #455 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/455)"^^xsd:string ; rdfs:label "pumilio_response_element"^^xsd:string ; rdfs:subClassOf obo:SO_0000837, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000205 ] . obo:SO_0002235 obo:IAO_0000115 "A polypeptide region that mediates binding to SUMO. The motif contains a hydrophobic core sequence consisting of three or four Ile, Leu, or Val residues plus one acidic or polar residue at position 2 or 3."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-04-22T12:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "SBM"^^xsd:string, "SIM"^^xsd:string, "SUMO binding motif"^^xsd:string, "SUMO interaction motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002235"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request GitHub issue #434 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/434)"^^xsd:string ; rdfs:label "SUMO_interaction_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001093 . obo:SO_0002236 obo:IAO_0000115 "A gene which codes for 18S_rRNA, which functions as the small subunit of the ribosome in eukaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "18S rRNA gene"^^xsd:string, "18S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002236"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_18S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000407 ] . obo:SO_0002237 obo:IAO_0000115 "A gene which codes for 16S_rRNA, which functions as the small subunit of the ribosome in prokaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "16S rRNA gene"^^xsd:string, "16S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002237"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_16S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001000 ] . obo:SO_0002238 obo:IAO_0000115 "A gene which codes for 5S_rRNA, which is a portion of the large subunit of the ribosome in both eukaryotes and prokaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "5S rRNA gene"^^xsd:string, "5S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002238"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_5S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000652 ] . obo:SO_0002239 obo:IAO_0000115 "A gene which codes for 28S_rRNA, which functions as a component of the large subunit of the ribosome in eukaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "28S rRNA gene"^^xsd:string, "28S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002239"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_28S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000653 ] . obo:SO_0002240 obo:IAO_0000115 "A gene which codes for 5_8S_rRNA (5.8S rRNA), which functions as a component of the large subunit of the ribosome in eukaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "5.8S rRNA gene"^^xsd:string, "5_8S rRNA gene"^^xsd:string, "5_8S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002240"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_5_8S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000375 ] . obo:SO_0002241 obo:IAO_0000115 "A gene which codes for 21S_rRNA, which functions as a component of the large subunit of the ribosome in mitochondria."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "21S rRNA gene"^^xsd:string, "21S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002241"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472) Removed relationship derives_from SO:0001171 on 10 June 2021 when SO:0001171 rRNA_21S was obsoleted into SO:0002345 mt_LSU_rRNA. See GitHub Issue #493."^^xsd:string ; rdfs:label "rRNA_21S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637 . obo:SO_0002242 obo:IAO_0000115 "A gene which codes for 25S_rRNA, which functions as a component of the large subunit of the ribosome in some eukaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "25S rRNA gene"^^xsd:string, "25S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002242"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_25S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001002 ] . obo:SO_0002243 obo:IAO_0000115 "A gene which codes for 23S_rRNA, which functions as a component of the large subunit of the ribosome in prokaryotes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-07T16:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "23S rRNA gene"^^xsd:string, "23S_rRNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002243"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Antonia Lock GitHub issue #472 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/472)"^^xsd:string ; rdfs:label "rRNA_23S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0001001 ] . obo:SO_0002244 obo:IAO_0000115 "A transcript which is partially duplicated due to duplication of DNA, leading to a new transcript that is only partial and likely nonfunctional."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T09:07:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "partially duplicated transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002244"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from the Illumina group"^^xsd:string ; rdfs:label "partially_duplicated_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0001576 . obo:SO_0002245 obo:IAO_0000115 "A partially_duplicated_transcript where the 5' end of the transcript is duplicated."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T09:07:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "5' duplicated transcript"^^xsd:string, "five prime duplicated transcript"^^xsd:string, "five prime partially duplicated transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002245"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from the Illumina group"^^xsd:string ; rdfs:label "five_prime_duplicated_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002244 . obo:SO_0002246 obo:IAO_0000115 "A partially_duplicated_transcript where the 3' end of the transcript is duplicated."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T09:07:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "3' duplicated transcript"^^xsd:string, "three prime duplicated transcript"^^xsd:string, "three prime partially duplicated transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002246"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from the Illumina group"^^xsd:string ; rdfs:label "three_prime_duplicated_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0002244 . obo:SO_0002247 obo:IAO_0000115 "A non-coding RNA less than 200 nucleotides in length."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T11:07:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Small noncoding RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002247"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #485 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/485)"^^xsd:string ; rdfs:label "sncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002248 obo:IAO_0000115 "A region of DNA that is predicted to be translated and transcribed into a protein by a protein detection algorithm that does not get transcribed in nature."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T11:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "spurious protein"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002248"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #478 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/478)"^^xsd:string ; rdfs:label "spurious_protein"^^xsd:string ; rdfs:subClassOf obo:SO_0001410 . obo:SO_0002249 obo:IAO_0000115 "A CDS region corresponding to a mature protein region of a polypeptide."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T13:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:mat_peptide"^^xsd:string, "mature protein region of CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002249"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #484 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/484)"^^xsd:string ; rdfs:label "mature_protein_region_of_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0002250 obo:IAO_0000115 "A CDS region corresponding to a propeptide of a polypeptide."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T13:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:propeptide"^^xsd:string, "propeptide region of CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002250"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #484 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/484)"^^xsd:string ; rdfs:label "propeptide_region_of_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0002251 obo:IAO_0000115 "A CDS region corresponding to a signal peptide of a polypeptide."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T13:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:sig_peptide"^^xsd:string, "Signal peptide region of CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002251"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #484 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/484)"^^xsd:string ; rdfs:label "signal_peptide_region_of_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0002252 obo:IAO_0000115 "CDS region corresponding to a transit peptide region of a polypeptide."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T13:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:transit_peptide"^^xsd:string, "transit peptide region of CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002252"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #484 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/484)"^^xsd:string ; rdfs:label "transit_peptide_region_of_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_0000851 . obo:SO_0002253 obo:IAO_0000115 "A portion of a stem loop secondary structure in RNA."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T11:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "stem loop region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002253"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #451 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/451)"^^xsd:string ; rdfs:label "stem_loop_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000122, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000313 ] . obo:SO_0002254 obo:IAO_0000115 "The loop portion of a stem loop, which is not folded back upon itself. "^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T11:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "loop portion of stem loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002254"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #451 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/451)"^^xsd:string ; rdfs:label "loop"^^xsd:string ; rdfs:subClassOf obo:SO_0002253 . obo:SO_0002255 obo:IAO_0000115 "The portion of a stem loop where the RNA is folded back upon itself. "^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T11:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "stem portion of stem loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002255"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #451 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/451)"^^xsd:string ; rdfs:label "stem"^^xsd:string ; rdfs:subClassOf obo:SO_0002253 . obo:SO_0002256 obo:IAO_0000115 "A region of a stem in a stem loop structure where the sequences are non-complimentary."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-13T11:40:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "non-complimentary stem"^^xsd:string, "noncomplimentary stem"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002256"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #451 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/451)"^^xsd:string ; rdfs:label "non_complimentary_stem"^^xsd:string ; rdfs:subClassOf obo:SO_0002255 . obo:SO_0002257 obo:IAO_0000115 "Cytologically observable heterochromatic regions of chromosomes away from centromeres that contain predominatly large tandem repeats and retrotransposons."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-27T10:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Heterochromatin Knob"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002257"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from GitHub Issue #487 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/487)"^^xsd:string ; rdfs:label "knob"^^xsd:string ; rdfs:subClassOf obo:SO_0000657 . obo:SO_0002258 obo:IAO_0000115 "A binding motif with the consensus sequence TTAGGG to which Teb1 binds."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-27T11:03:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "teb1 recognition motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002258"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by Antonia Locke, (Pombe) as per GitHub Issue Request #439 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/439)"^^xsd:string ; rdfs:label "teb1_recognition_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0000713 . obo:SO_0002259 obo:IAO_0000115 "A region defined by a cluster of experimentally determined polyadenylation sites, typically less than 25 bp in length and associated with a single polyadenylation signal."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-27T14:17:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "polyA cluster"^^xsd:string, "polyA site cluster"^^xsd:string, "polyA_cluster"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002259"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #450 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/450)"^^xsd:string ; rdfs:label "polyA_site_cluster"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000553 ], [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000205 ] . obo:SO_0002260 obo:IAO_0000115 "Large Retrotransposon Derivative elements are long-terminal repeats that contain reverse transcriptase priming sites and are conserved in sequence but contain no open reading frames encoding typical retrotransposon proteins . The LARDs identified in barley and other Triticeae have LTRs ~5.5 kb and an interal domain of ~3.5 kb. LARDs lack coding domains and thus do not encode proteins."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-27T15:47:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Large Retrotransposon Derivative"^^xsd:string, "large_retrotransposon_derivative"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002260"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #429 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/429)"^^xsd:string ; rdfs:label "LARD"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002261 obo:IAO_0000115 "TRIM elements have terminal direct repeat sequences of 100-250 bp in length that flank an internal domain of 100–300 bp. TRIMs lack coding domains and thus do not encode proteins."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-27T15:47:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "terminal-repeat retrotransposons in miniature"^^xsd:string, "terminal-repeat_retrotransposons_in_miniature"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002261"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #429 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/429)"^^xsd:string ; rdfs:label "TRIM"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002262 obo:IAO_0000115 "An absolute reference to the strand. When a chromosome has p and q arms, the Watson strand is the strand whose 5'-end is on the short arm of the chromosome. Of note, the term 'plus strand' is typically based on a reference sequence where it's preferred for the plus strand to be the Watson strand, but might not be and 'plus strand' is therefore not an exact synonym."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-28T10:33:30Z"^^xsd:string ; oboInOwl:hasBroadSynonym "Plus strand"^^xsd:string ; oboInOwl:hasExactSynonym "Forward strand"^^xsd:string, "Top strand"^^xsd:string, "Watson strand"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002262"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #419 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/419)"^^xsd:string ; rdfs:label "Watson_strand"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0002263 obo:IAO_0000115 "An absolute reference to the strand. When a chromosome has p and q arms, the Crick strand is the strand whose 5'-end is on the long arm of the chromosome. Of note, the term 'minus strand' is typically based on a reference sequence where it's preferred for the minus strand to be the Crick strand, but might not be and 'minus strand' is therefore not an exact synonym."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-05-28T10:33:30Z"^^xsd:string ; oboInOwl:hasBroadSynonym "Minus strand"^^xsd:string ; oboInOwl:hasExactSynonym "Bottom strand"^^xsd:string, "Crick strand"^^xsd:string, "Reverse strand"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002263"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #419 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/419)"^^xsd:string ; rdfs:label "Crick_strand"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0002264 obo:IAO_0000115 "LTR retrotransposons in the Copia superfamily contain elements coding for specific proteins in this order: GAG, AP, INT, RT, RH. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Copia LTR retrotransposon"^^xsd:string, "RLC retrotransposon"^^xsd:string, "Ty1 retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002264"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Copia_LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002265 obo:IAO_0000115 "LTR retrotransposons in the Gypsy superfamily contain elements coding for specific proteins in this order: GAG, AP, RT, RH, INT. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Gypsy LTR retrotransposon"^^xsd:string, "RLG retrotransposon"^^xsd:string, "Ty3 retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002265"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Gypsy_LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002266 obo:IAO_0000115 "LTR retrotransposons in the Bel-Pao superfamily are similar to LTRs in the Gypsy and Retrovirus superfamilies. Mainly described in metazoan genomes, this superfamily contain elements coding for specific proteins in this order: GAG, AP, RT, RH and INT. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Bel Pao LTR retrotransposon"^^xsd:string, "Bel-Pao LTR retrotransposon"^^xsd:string, "RLB retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002266"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Bel_Pao_LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002267 obo:IAO_0000115 "LTR retrotransposons in the retrovirus superfamily are similar to LTR retrotransposons in the Gypsy and Bel-Pao superfamilies. Mainly described in vertebrate animals, this superfamily contain elements coding for specific proteins in this order: GAG, AP, RT, RH, INT, and ENV. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H. ENV is envelop protein."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "RLR retrotransposon"^^xsd:string, "Retrovirus LTR retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002267"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Retrovirus_LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002268 obo:IAO_0000115 "Endogenous retrovirus (ERV) retrotransposons are abundant in the genomes of jawed vertebrates. Human ERVs (HERVs) are classified based on their homologies to animal retroviruses. Class I families are similar in sequence to mammalian Gammaretroviruses (type C) and Epsilonretroviruses (Type E). Class II families show homology to mammalian Betaretroviruses (Type B) and Deltaretroviruses (Type D). F-Class III families are similar to foamy viruses."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Endogenous Retrovirus LTR retrotransposon"^^xsd:string, "HERV"^^xsd:string, "RLE retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002268"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Endogenous_Retrovirus_LTR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000186 . obo:SO_0002269 obo:IAO_0000115 "R2 retrotransposons are LINE elements (SO:0000194) that insert site-specifically into the host organism's 28S ribosomal RNA (rRNA) genes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "R2 LINE retrotransposon"^^xsd:string, "R2 retrotransposon"^^xsd:string, "RIR retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002269"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "R2_LINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000194 . obo:SO_0002270 obo:IAO_0000115 "RTE retrotransposons are LINE elements (SO:0000194) that contain a domain with homology to the apurinic-apyrimidic (AP) endonucleases in addition to the previously identified reverse transcriptase domain."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "RIT retrotransposon"^^xsd:string, "RTE LINE retrotransposon"^^xsd:string, "RTE retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002270"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "RTE_LINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000194 . obo:SO_0002271 obo:IAO_0000115 "Jockey retrotransposons are LINE elements (SO:0000194) found only in arthropods. The full-length element is ~ 5 kb and contains two open reading frames (SO:0000236), ORF1 (568 aa) and ORF2 (916 aa), the second of which encodes an apurinic endonuclease (APE) and a reverse transcriptase (RT)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Jockey LINE retrotransposon"^^xsd:string, "LINE Jockey element"^^xsd:string, "RIJ retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002271"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Jockey_LINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000194 . obo:SO_0002272 obo:IAO_0000115 "Long interspersed element-1 (LINE-1) elements are found in the human genome, which contains ORF1 (open reading frame1, including CC, coiled coil; RRM, RNA recognition motif; CTD, carboxyl-terminal domain) and ORF2 (including EN, endonuclease; RT, reverse transcriptase; C, cysteine-rich domain). The L1-encoded proteins (ORF1p and ORF2p) can mobilize nonautonomous retrotransposons, other noncoding RNAs, and messenger RNAs."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "L1 LINE retrotransposon"^^xsd:string, "L1 element"^^xsd:string, "LINE 1 element"^^xsd:string, "LINE-1 element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002272"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "L1_LINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000194 . obo:SO_0002273 obo:IAO_0000115 "Elements of the LINE I superfamily are similar to the Jockey and L1 superfamily. They contains two ORFs, the.second of which includes  Apurinic endonuclease (APE) and  reverse transcriptase (RT). The I superfamily encodes an RH (RNase H) domain downstream of the RT domain."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasDbXref "https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/long-interspersed-nuclear-element"^^xsd:string ; oboInOwl:hasExactSynonym "I LINE retrotransposon"^^xsd:string, "LINE I element"^^xsd:string, "RII retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002273"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "I_LINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000194 . obo:SO_0002274 obo:IAO_0000115 "Short interspersed elements that originated from tRNAs."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "RST retrotransposon"^^xsd:string, "tRNA SINE element"^^xsd:string, "tRNA SINE retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002274"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "tRNA_SINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000206 . obo:SO_0002275 obo:IAO_0000115 "Short interspersed elements that originated from 7SL RNAs."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "7SL SINE element"^^xsd:string, "7SL SINE retrotransposon"^^xsd:string, "RSL retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002275"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "7SL_SINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000206 . obo:SO_0002276 obo:IAO_0000115 "Short interspersed elements that originated from 5S rRNAs."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "5S SINE element"^^xsd:string, "5S SINE retrotransposon"^^xsd:string, "RSS retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002276"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "5S_SINE_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000206 . obo:SO_0002277 obo:IAO_0000115 "Crypton is a superfamily of DNA transposons that use tyrosine recombinase (YR) to cut and rejoin the recombining DNA molecules."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Crypton YR transposon"^^xsd:string, "Crypton transposon"^^xsd:string, "DYC transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002277"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Crypton_YR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000182 . obo:SO_0002278 obo:IAO_0000115 "Elements of the Tc1-Mariner terminal inverted repeat transposon superfamily (also called mariner transposons) are named after the Transponon of C. elegans number 1 transposasse. Their activity creates a 2-bp (TA) target-site duplication (TSD). Stowaway is the non-autonomous element in this superfamily usually shorter than 600 bp."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTT transposon"^^xsd:string, "Mariner"^^xsd:string, "Stowaway"^^xsd:string, "Tc1 Mariner TIR transposon"^^xsd:string, "Tc1 transposon"^^xsd:string, "TcMar-Stowaway transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002278"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Tc1_Mariner_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002279 obo:IAO_0000115 "The hAT terminal inverted repeat transposon superfamily elements were first found in maize (the Ac/Ds elements). Members of the hAT superfamily have TSDs of 8 bp, relatively short TIRs of 5–27 bp and overall lengths of less than 4 kb."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Ac transposon"^^xsd:string, "Ac/Ds transposon"^^xsd:string, "DTA transposon"^^xsd:string, "Ds transposon"^^xsd:string, "hAT TIR transposon"^^xsd:string, "hAT transposon"^^xsd:string, "hAT-Ac transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002279"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "hAT_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002280 obo:IAO_0000115 "Members of the Mutator family of terminal inverted repeat (TIR) transposon are usually long but are also highly divergent, either sharing only terminal G…C nucleotides, or with the G…C nucleotides absent. The length of the TSD (7-11 bp, usually 9 bp) remains probably the most useful criterion for identification."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTM transposon"^^xsd:string, "MLE transposon"^^xsd:string, "MULE"^^xsd:string, "Mu transposon"^^xsd:string, "MuDR"^^xsd:string, "Mutator TIR transposon"^^xsd:string, "Mutator transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002280"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Mutator_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002281 obo:IAO_0000115 "Terminal inverted repeat transposon superfamily Merlin elements create 8-9 bp target-site duplications (TSD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTE transposon"^^xsd:string, "Merlin TIR transposon"^^xsd:string, "Merlin transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002281"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Merlin_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002282 obo:IAO_0000115 "Terminal inverted repeat (TIR) transposons of the superfamily Transib contain the DDE motif, which is related to the RAG1 protein involved in V(D)J recombination."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTR transposon"^^xsd:string, "Transib TIR transposon"^^xsd:string, "transib transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002282"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Transib_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002283 obo:IAO_0000115 "Primarily found in animals, the terminal inverted repeat (TIR) transposon superfamily piggyBac elements favour insertion adjacent to TTAA."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTB transposon"^^xsd:string, "PiggyBac transposable element"^^xsd:string, "piggyBac TIR transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002283"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "piggyBac_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002284 obo:IAO_0000115 "Terminal inverted repeat transposons in the PIF/Harbinger/tourist superfamily create 3-bp target site duplication that are mainly 'TAA' or 'TTA'. The autonomous PIF-Harbinger elements are relatively small in size, usually a few kb in length. Non-autonomous elements in this superfamily usually shorter than 600 bp are referrred to as Tourist elements. The terminal sequences for PIF/Harbinger/Tourist elements are 'GGG/CCC…GGC/GCC' or 'GA/GGCA…TGCC/TC'."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DTH transposon"^^xsd:string, "Harbinger transposon"^^xsd:string, "PIF Harbinger TIR transposon"^^xsd:string, "PIF transposon"^^xsd:string, "Tourist transposon element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002284"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "PIF_Harbinger_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002285 obo:IAO_0000115 "This terminal inverted repeat of the CACTA family generate 3-bp target site duplication (TSD) upon insertion. CACTA elements do not have a significant preference for genic region insertions. This terminal inverted repeat (TIR) transposon superfamily is named CACTA because their terminal sequences are 'CACTA/G…C/TAGTG'."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "CACTA TIR transposon"^^xsd:string, "CACTA transposon element"^^xsd:string, "CACTC transposon"^^xsd:string, "CMC-EnSpm transposon"^^xsd:string, "DTC transposon"^^xsd:string, "En transposon"^^xsd:string, "En-Spm transposon"^^xsd:string, "EnSpm transposon"^^xsd:string, "Spm transposon"^^xsd:string, "dSpm transposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002285"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "CACTA_TIR_transposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000208 . obo:SO_0002286 obo:IAO_0000115 "Tyrosine Kinase (YR) retrotransposons are a subclass of non-LTR retrotransposons. These YR-encoding elements consist of central gag, pol and tyrosine recombinase (YR) open reading frames (ORFs) flanked with terminal repeat. The pol ORF includes a reverse transcriptase (RT), a RNase H (RH) and, in case of DIRS, a domain similar to bacterial and phage DNA N-6-adenine-methyltransferase (MT). Compared to the retroviral pol (LTR retrotransposons, non-LTR retrotransposons and Penelope elements), both aspartic protease and DDE integrase are absent from YR retrotransposons. YR retrotransposons have inverted terminal repeats (ITRs)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "YR retrotransposon"^^xsd:string, "tyrosine kinase retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002286"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "YR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000189 . obo:SO_0002287 obo:IAO_0000115 "Dictyostelium intermediate repeat sequence (DIRS) retrotransposons are members of the YR_retrotransposon (SO:0002286) superfamily with the following protein domains: RT, RH, YR, and MT. RT is a reverse transcriptase. RH is RNAse H. YR is tyrosine recombinase. MT is DNA N-6-adenine-methyltransferase."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DIRS YR retrotransposon"^^xsd:string, "DIRS retrotransposon"^^xsd:string, "RYD retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002287"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "DIRS_YR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0002286 . obo:SO_0002288 obo:IAO_0000115 "Ngaro retrotransposons are members of the YR_retrotransposon (SO:0002286) superfamily with the following protein domains: RT, RH, YR. RT is a reverse transcriptase. RH is RNAse H. YR is Tyrosine recombinase. Inverted terminal repeats (ITRs) in Ngaro are arranged in A-pol-B-A-B order where A and B represent ITRs."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Ngaro YR retrotransposon"^^xsd:string, "Ngaro retrotransposon"^^xsd:string, "RYN retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002288"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Ngaro_YR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0002286 . obo:SO_0002289 obo:IAO_0000115 "VIPER retrotransposons are members of the YR_retrotransposon (SO:0002286 superfamily with protein domains: RT, RH, YR. RT is a reverse transcriptase. RH is RNAse H. YR is Tyrosine recombinase. Inverted terminal repeats (ITRs) in VIPER are arranged in A-pol-B-A-B order where A and B represent ITRs. VIPER is only found in kinetoplastida genomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "RYV retrotransposon"^^xsd:string, "Viper YR retrotransposon"^^xsd:string, "Viper retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002289"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Viper_YR_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0002286 . obo:SO_0002290 obo:IAO_0000115 "Penelope is a subclass of non_LTR_retrotransposons (SO:0000189). Penelope retrotransposons contains structural features of TR, RT, EN, TR, terminal repeats which can be in tandem or inverse orientation in different Penelope copies. RT is reverse transcriptase. EN is endonuclease."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-06-25T14:00:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Penelope retrotransposon"^^xsd:string, "RPP retrotransposon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002290"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #488 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/488)"^^xsd:string ; rdfs:label "Penelope_retrotransposon"^^xsd:string ; rdfs:subClassOf obo:SO_0000189 . obo:SO_0002291 obo:IAO_0000115 "A non-coding RNA that is generated by backsplicing of exons or introns, resulting in a covalently closed loop without a 5’ cap or 3’ polyA tail."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-07-01T11:49:30Z"^^xsd:string ; oboInOwl:hasBroadSynonym "circRNA"^^xsd:string ; oboInOwl:hasExactSynonym "circular ncRNA"^^xsd:string, "noncoding circRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002291"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #490 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/490) and GitHub Issue Request #391 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/391)"^^xsd:string ; rdfs:label "circular_ncRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002292 obo:IAO_0000115 "An mRNA that is generated by backsplicing of exons or introns, resulting in a covalently closed loop without a 5’ cap or 3’ polyA tail."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-07-01T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "circular mRNA"^^xsd:string, "coding circRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002292"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #490 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/490) and GitHub Issue Request #391 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/391)"^^xsd:string ; rdfs:label "circular_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234 . obo:SO_0002293 obo:IAO_0000115 "The non-coding region of the mitochondrial genome that controls RNA and DNA synthesis."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-07-01T16:40:30Z"^^xsd:string ; oboInOwl:hasDbXref "https://en.wikipedia.org/wiki/MtDNA_control_region"^^xsd:string ; oboInOwl:hasExactSynonym "Mitochondrial A+T region"^^xsd:string, "Mitochondrial DNA control region"^^xsd:string, "Mitochondrial NCR"^^xsd:string, "Mitochondrial noncoding region"^^xsd:string, "MtDNA control region"^^xsd:string, "MtDNA_control_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002293"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub Issue Request #417 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/417) from INSDC"^^xsd:string ; rdfs:label "mitochondrial_control_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000296, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000737 ] . obo:SO_0002294 obo:IAO_0000115 "Mitochondrial displacement loop; a region within mitochondrial DNA in which a short stretch of RNA is paired with one strand of DNA, displacing the original partner DNA strand in this region."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-07-08T11:49:30Z"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/D_loop"^^xsd:string ; oboInOwl:hasExactSynonym "Mitochondrial D loop"^^xsd:string, "Mitochondrial displacement loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002294"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request by Terence Murphy (INSDC) for GitHub Issue #417 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/417)"^^xsd:string ; rdfs:label "mitochondrial_D_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000297, obo:SO_0002293 . obo:SO_0002295 obo:IAO_0000115 "A TF_binding_site that is involved in regulation of expression."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "TFRS"^^xsd:string, "transcription factor regulatory site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002295"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "transcription_factor_regulatory_site"^^xsd:string ; rdfs:subClassOf obo:SO_0000235 . obo:SO_0002296 obo:IAO_0000115 "The possible discontinuous stretch of DNA that is the combination of one or several TFRSs whose bound TFs work jointly in the regulation of a promoter. "^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "TFRS module"^^xsd:string, "TFRS phrase"^^xsd:string, "transcription factor regulatory site module"^^xsd:string, "transcription factor regulatory site phrase"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002296"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585. Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "TFRS_module"^^xsd:string ; rdfs:subClassOf obo:SO_0001055, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0002295 ] . obo:SO_0002297 obo:IAO_0000115 "The possible discontinous stretch of DNA that encompass all the TFRSs that regulate a promoter."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "TFRS collection"^^xsd:string, "transcription factor regulatory site collection"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002297"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585. Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527."^^xsd:string ; rdfs:label "TFRS_collection"^^xsd:string ; rdfs:subClassOf obo:SO_0001055, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0002295 ] . obo:SO_0002298 obo:IAO_0000115 "An operon whose transcription is coordinated on a single transcription unit."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "simple operon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002298"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "simple_operon"^^xsd:string ; rdfs:subClassOf obo:SO_0000178 . obo:SO_0002299 obo:IAO_0000115 "An operon whose transcription is coordinated on several mutually overlapping transcription units transcribed in the same direction and sharing at least one gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "complex operon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002299"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "complex_operon"^^xsd:string ; rdfs:subClassOf obo:SO_0000178 . obo:SO_0002300 obo:IAO_0000115 "Transcription units or transcribed coding sequences."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "unit of gene expression"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002300"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "unit_of_gene_expression"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0002301 obo:IAO_0000115 "DNA regions delimited by different nonspurious TSS-TTS pairs."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "transcription unit"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002301"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "transcription_unit"^^xsd:string ; rdfs:subClassOf obo:SO_0002300 . obo:SO_0002302 obo:IAO_0000115 "A regulon defined by considering one regulatory gene product."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "simple regulon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002302"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "simple_regulon"^^xsd:string ; rdfs:subClassOf obo:SO_1001284 . obo:SO_0002303 obo:IAO_0000115 "A regulon defined by considering the units of expression regulated by a specified set of regulatory gene products."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-05T11:49:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "simple regulon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002303"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per Mejia-Almonte et.al PMID:32665585"^^xsd:string ; rdfs:label "complex_regulon"^^xsd:string ; rdfs:subClassOf obo:SO_1001284 . obo:SO_0002304 obo:IAO_0000115 "An instance of a self-interacting DNA region flanked by left and right TAD boundaries."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "TAD"^^xsd:string, "topologically associated domain"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002304"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative."^^xsd:string ; rdfs:label "topologically_associated_domain"^^xsd:string ; rdfs:subClassOf obo:SO_0001412 . obo:SO_0002305 obo:IAO_0000115 "A DNA region enriched in DNA loop anchors and across which DNA loops occur less often than expected by chance."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "TAD boundary"^^xsd:string, "TAD_boundary"^^xsd:string, "topologically associated domain boundary"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002305"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative."^^xsd:string ; rdfs:label "topologically_associated_domain_boundary"^^xsd:string ; rdfs:subClassOf obo:SO_0000699, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0002304 ] . obo:SO_0002306 obo:IAO_0000115 "A region of a chromosome where regulatory events occur, including epigenetic modifications. These epigenetic modifications can include nucleosome modifications and post-replicational DNA modifications."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "chromatin regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002306"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative."^^xsd:string ; rdfs:label "chromatin_regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000830 . obo:SO_0002307 obo:IAO_0000115 "A region of DNA between two loop anchor positions that are held in close physical proximity."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DNA loop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002307"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative. DS updated defintion Feb 16, 2021. See GitHub Issue #534."^^xsd:string ; rdfs:label "DNA_loop"^^xsd:string ; rdfs:subClassOf obo:SO_0000830, [ a owl:Restriction ; owl:onProperty so:overlaps ; owl:someValuesFrom obo:SO_0002304 ] . obo:SO_0002308 obo:IAO_0000115 "The ends of a DNA loop where the two strands of DNA are held in close physical proximity. During interphase the anchors of DNA loops are convergently oriented CTCF binding sites."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "DNA loop anchor"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002308"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative. DS updated defintion Feb 16, 2021. See GitHub Issue #534."^^xsd:string ; rdfs:label "DNA_loop_anchor"^^xsd:string ; rdfs:subClassOf obo:SO_0000727, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0002307 ] . obo:SO_0002309 obo:IAO_0000115 "An element that always exists within the promoter region of a gene. When multiple transcripts exist for a gene, the separate transcripts may have separate core_promoter_elements."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "core promoter element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002309"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative."^^xsd:string ; rdfs:label "core_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0001659, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000167 ] . obo:SO_0002310 obo:IAO_0000115 "The promoter of a cryptic gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002310"^^xsd:string ; a owl:Class ; rdfs:comment "Added by Dave to be consistent with other ontologies updated with GREEKC initiative."^^xsd:string ; rdfs:label "cryptic_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001431 ] . obo:SO_0002311 obo:IAO_0000115 "A regulatory_region including the Transcription Start Site (TSS) of a gene found in genes of viruses."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "viral promoter"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002311"^^xsd:string ; a owl:Class ; rdfs:label "viral_promoter"^^xsd:string ; rdfs:subClassOf obo:SO_0000167 . obo:SO_0002312 obo:IAO_0000115 "An element that always exists within the promoter region of a prokaryotic gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "core prokaryotic promoter element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "general transcription factor binding site"^^xsd:string ; oboInOwl:id "SO:0002312"^^xsd:string ; a owl:Class ; rdfs:label "core_prokaryotic_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0002309, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0002222 ] . obo:SO_0002313 obo:IAO_0000115 "An element that always exists within the promoter region of a viral gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-08-12T14:01:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "core viral promoter element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "general transcription factor binding site"^^xsd:string ; oboInOwl:id "SO:0002313"^^xsd:string ; a owl:Class ; rdfs:label "core_viral_promoter_element"^^xsd:string ; rdfs:subClassOf obo:SO_0002309, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0002311 ] . obo:SO_0002314 obo:IAO_0000115 "A sequence variant that alters the level of transcription of a gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-18T22:35:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "altered gene product level"^^xsd:string, "altered transcription level"^^xsd:string, "altered_transcription_level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002314"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020. See Issue Request #501 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/501)"^^xsd:string ; rdfs:label "altered_gene_product_level"^^xsd:string ; rdfs:subClassOf obo:SO_0001536 . obo:SO_0002315 obo:IAO_0000115 "A sequence variant that increases the level of transcription of a gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-18T22:35:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "increased gene product level"^^xsd:string, "increased transcription level"^^xsd:string, "increased_transcription_level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002315"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020. See Issue Request #501 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/501)"^^xsd:string ; rdfs:label "increased_gene_product_level"^^xsd:string ; rdfs:subClassOf obo:SO_0002314 . obo:SO_0002316 obo:IAO_0000115 "A sequence variant that decreases the level of transcription of a gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-18T22:35:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "decreased gene product level"^^xsd:string, "decreased transcription level"^^xsd:string, "decreased_transcription_level"^^xsd:string, "reduced gene product level"^^xsd:string, "reduced transcription level"^^xsd:string, "reduced_gene_product_level"^^xsd:string, "reduced_transcription_level"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002316"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020. See Issue Request #501 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/501)"^^xsd:string ; rdfs:label "decreased_gene_product_level"^^xsd:string ; rdfs:subClassOf obo:SO_0002314 . obo:SO_0002317 obo:IAO_0000115 "A sequence variant that entirely stops the transcription of a gene."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-18T22:35:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "absent gene product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002317"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020. See Issue Request #501 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/501)"^^xsd:string ; rdfs:label "absent_gene_product"^^xsd:string ; rdfs:subClassOf obo:SO_0002055, obo:SO_0002316 . obo:SO_0002318 obo:IAO_0000115 "A sequence variant that alters the structure of a gene product."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-18T22:35:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "altered gene product structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002318"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020. See Issue Request #501 (https://github.com/The-Sequence-Ontology/SO-Ontologies/issues/501)"^^xsd:string ; rdfs:label "altered_gene_product_structure"^^xsd:string ; rdfs:subClassOf obo:SO_0001536 . obo:SO_0002319 obo:IAO_0000115 "A sequence variant that leads to a change in the location of a termination codon in a transcript that leads to nonsense-mediated decay (NMD). The change in location of a termination codon can be caused by several different types of sequence variants, including stop_gained (SO:0001587), frameshift_variant (SO:0001589), splice_donor_variant (SO:0001575), and splice_acceptor_variant (SO:0001574) types of variants."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "NMD triggering variant"^^xsd:string, "nonsense-mediated decay triggering variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002319"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "NMD_triggering_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0002320 obo:IAO_0000115 "A sequence variant that leads to a change in the location of a termination codon in a transcript but allows the transcript to escape nonsense-mediated decay (NMD). The change in location of a termination codon can be caused by several different types of sequence variants, including stop_gained (SO:0001587), frameshift_variant (SO:0001589), splice_donor_variant (SO:0001575), and splice_acceptor_variant (SO:0001574) types of variants."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "NMD escaping variant"^^xsd:string, "nonsense-mediated decay escaping variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002320"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "NMD_escaping_variant"^^xsd:string ; rdfs:subClassOf obo:SO_0002218 . obo:SO_0002321 obo:IAO_0000115 "A stop_gained (SO:0001587) variant that is degraded by nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "stop gained variant-nonsense-mediated decay triggering"^^xsd:string, "stop gained-NMD triggering"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002321"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "stop_gained_NMD_triggering"^^xsd:string ; rdfs:subClassOf obo:SO_0001587, obo:SO_0002319 . obo:SO_0002322 obo:IAO_0000115 "A stop_gained (SO:0001587) variant that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "stop gained variant-nonsense-mediated decay escaping"^^xsd:string, "stop gained-NMD escaping"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002322"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "stop_gained_NMD_escaping"^^xsd:string ; rdfs:subClassOf obo:SO_0001587, obo:SO_0002320 . obo:SO_0002323 obo:IAO_0000115 "A frameshift_variant (SO:0001589) that is degraded by nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "frameshift variant-NMD triggering"^^xsd:string, "frameshift variant-nonsense-mediated decay triggering"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002323"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "frameshift_variant_NMD_triggering"^^xsd:string ; rdfs:subClassOf obo:SO_0001589, obo:SO_0002319 . obo:SO_0002324 obo:IAO_0000115 "A frameshift_variant (SO:0001589) that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "frameshift variant-NMD escaping"^^xsd:string, "frameshift variant-nonsense-mediated decay escaping"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002324"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "frameshift_variant_NMD_escaping"^^xsd:string ; rdfs:subClassOf obo:SO_0001589, obo:SO_0002320 . obo:SO_0002325 obo:IAO_0000115 "A splice_donor_variant (SO:0001575) that is degraded by nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice donor variant-NMD triggering"^^xsd:string, "splice donor variant-nonsense-mediated decay triggering"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002325"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "splice_donor_variant_NMD_triggering"^^xsd:string ; rdfs:subClassOf obo:SO_0001575, obo:SO_0002319 . obo:SO_0002326 obo:IAO_0000115 "A splice_donor_variant (SO:0001575) that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice donor variant-NMD escaping"^^xsd:string, "splice donor variant-nonsense-mediated decay escaping"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002326"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "splice_donor_variant_NMD_escaping"^^xsd:string ; rdfs:subClassOf obo:SO_0001575, obo:SO_0002320 . obo:SO_0002327 obo:IAO_0000115 "A splice_acceptor_variant (SO:0001574) that is degraded by nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice acceptor variant-NMD triggering"^^xsd:string, "splice acceptor variant-nonsense-mediated decay triggering"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002327"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "splice_acceptor_variant_NMD_triggering"^^xsd:string ; rdfs:subClassOf obo:SO_0001574, obo:SO_0002319 . obo:SO_0002328 obo:IAO_0000115 "A splice_acceptor_variant (SO:0001574) that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2020-12-30T17:12:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "splice acceptor variant-NMD escaping"^^xsd:string, "splice acceptor variant-nonsense-mediated decay escaping"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002328"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per request from Ang Roberts as part of GenCC November 2020."^^xsd:string ; rdfs:label "splice_acceptor_variant_NMD_escaping"^^xsd:string ; rdfs:subClassOf obo:SO_0001574, obo:SO_0002320 . obo:SO_0002329 obo:IAO_0000115 "The region of mRNA 1 base long that is included as part of two separate codons during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-02-03T20:33:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "minus 1 ribosomal frameshift"^^xsd:string, "minus 1 ribosomal slippage"^^xsd:string, "minus 1 translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002329"^^xsd:string ; a owl:Class ; rdfs:comment "Added along with the update to the definition of transaltional_frameshift SO:0001210 Feb 2021, brought to our attention by Terrence Murphy of INSDC. See GitHub Issue #522."^^xsd:string ; rdfs:label "minus_1_translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0001210 . obo:SO_0002330 obo:IAO_0000115 "The region of mRNA 2 bases long that is included as part of two separate codons during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-02-03T20:33:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "minus 2 ribosomal frameshift"^^xsd:string, "minus 2 ribosomal slippage"^^xsd:string, "minus 2 translational frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002330"^^xsd:string ; a owl:Class ; rdfs:comment "Added along with the update to the definition of transaltional_frameshift SO:0001210 Feb 2021, brought to our attention by Terrence Murphy of INSDC. See GitHub Issue #522."^^xsd:string ; rdfs:label "minus_2_translational_frameshift"^^xsd:string ; rdfs:subClassOf obo:SO_0001210 . obo:SO_0002331 obo:IAO_0000115 "A region of DNA that is depleted of nucleosomes and accessible to DNA-binding proteins including transcription factors and nucleases."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-02-11T16:41:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "accessible DNA region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002331"^^xsd:string ; a owl:Class ; rdfs:comment "Added as part of GREEKC terms. See GitHub Issues #531 & #534."^^xsd:string ; rdfs:label "accessible_DNA_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001411, [ a owl:Restriction ; owl:onProperty so:overlaps ; owl:someValuesFrom obo:SO_0001720 ] . obo:SO_0002332 obo:IAO_0000115 "A biological region implicated in inherited changes caused by mechanisms other than changes in the underlying DNA sequence."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-02-11T21:16:30Z"^^xsd:string ; oboInOwl:hasDbXref "https://epi.grants.cancer.gov/epigen/#:~:text=mail.nih.gov-,Overview,a%20cell%20or%20entire%20organism."^^xsd:string ; oboInOwl:hasExactSynonym "epigenomically modified region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002332"^^xsd:string ; a owl:Class ; rdfs:comment "Added as part of GREEKC terms to differentiate between inherited and not inherited epigenetic changes. See GitHub Issue #532."^^xsd:string ; rdfs:label "epigenomically_modified_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001720, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000133 ] . obo:SO_0002333 obo:IAO_0000115 "A stop codon with the DNA sequence TAG."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-21T21:16:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Amber stop codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002333"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub request #537."^^xsd:string ; rdfs:label "amber_stop_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000319 . obo:SO_0002334 obo:IAO_0000115 "A stop codon with the DNA sequence TAA."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-21T21:16:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Ochre stop codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002334"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub request #537."^^xsd:string ; rdfs:label "ochre_stop_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000319 . obo:SO_0002335 obo:IAO_0000115 "A stop codon with the DNA sequence TGA."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-21T21:16:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Opal stop codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002335"^^xsd:string ; a owl:Class ; rdfs:comment "Added as per GitHub request #537."^^xsd:string ; rdfs:label "opal_stop_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000319 . obo:SO_0002336 obo:IAO_0000115 "A gene that encodes for 2S ribosomal RNA, which functions as a component of the large subunit of the ribosome in Drosophila and at least some other Diptera."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-23T22:59:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "2S rRNA gene"^^xsd:string, "rRNA 2S gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002336"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase. See GitHub Issue #507"^^xsd:string ; rdfs:label "rRNA_2S_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001637 . obo:SO_0002337 obo:IAO_0000115 "Cytosolic 2S rRNA is a 30 nucleotide RNA component of the large subunit of cytosolic ribosomes in Drosophila and at least some other Diptera. It is homologous to the 3' part of other 5.8S rRNA molecules. The 3' end of the 5.8S molecule is able to base-pair with the 5' end of the 2S rRNA to generate a helical region equivalent in position to the 'GC-rich hairpin' found in all previously sequenced 5.8S molecules."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-23T22:59:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic 2S rRNA"^^xsd:string, "cytosolic rRNA 2S"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002337"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase. See GitHub Issue #507. Renamed from rRNA_2S to cytosolic_2S_rRNA on 27 May 2021 with the restructuring of rRNA child terms. Updated definition to be consistent with format of other rRNA definitions. Requested by EBI. See GitHub Issue #493."^^xsd:string ; rdfs:label "cytosolic_2S_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000651 . obo:SO_0002338 obo:IAO_0000115 "A 57 to 71 nucleotide RNA that is a component of the U7 small nuclear ribonucleoprotein complex (U7 snRNP). The U7 snRNP is required for histone pre-mRNA processing."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-24T16:59:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "U7 small nuclear RNA"^^xsd:string, "U7 snRNA"^^xsd:string, "small nuclear RNA U7"^^xsd:string, "snRNA U7"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002338"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase. See GitHub Issue #508"^^xsd:string ; rdfs:label "U7_snRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000274 . obo:SO_0002339 obo:IAO_0000115 "A gene that encodes for a scaRNA (small Cajal body-specific RNA)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-24T16:59:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "Small Cajal body-specific RNA gene"^^xsd:string, "scaRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002339"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase. See GitHub Issue #510"^^xsd:string ; rdfs:label "scaRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001267 . obo:SO_0002340 obo:IAO_0000115 "An abundant small nuclear RNA that, together with associated cellular proteins, regulates the activity of the positive transcription elongation factor b (P-TEFb). It is often described in literature as similar to a snRNA, except of longer length."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-27T14:50:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "7SK RNA"^^xsd:string, "RNA 7SK"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002340"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase. See GitHub Issue #512"^^xsd:string ; rdfs:label "RNA_7SK"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002341 obo:IAO_0000115 "A gene encoding a 7SK RNA (SO:0002340)."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-27T14:50:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "7SK RNA gene"^^xsd:string, "RNA 7SK gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002341"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase. See GitHub Issue #512"^^xsd:string ; rdfs:label "RNA_7SK_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0002342 obo:IAO_0000115 "A ncRNA_gene (SO:0001263) that is less than 200 nucleotides in length."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-04-27T14:50:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "small non-coding RNA gene"^^xsd:string, "sncRNA gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002342"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from FlyBase to make the ncRNA_gene branch in SO mirror the ncRNA branch. See GitHub Issue #514"^^xsd:string ; rdfs:label "sncRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0002343 obo:IAO_0000115 "Cytosolic rRNA is an RNA component of the small or large subunits of cytosolic ribosomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-06-10T16:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "cytosolic rRNA"^^xsd:string, "cytosolic ribosomal RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002343"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from EBI. See GitHub Issue #493"^^xsd:string ; rdfs:label "cytosolic_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000252 . obo:SO_0002344 obo:IAO_0000115 "Mitochondrial SSU rRNA is an RNA component of the small subunit of mitochondrial ribosomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-06-10T16:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "MT SSU rRNA"^^xsd:string, "mitochondrial SSU rRNA"^^xsd:string, "mitochondrial small subunit rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002344"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from EMBL. See GitHub Issue #493"^^xsd:string ; rdfs:label "mt_SSU_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002128 . obo:SO_0002345 obo:IAO_0000115 "Mitochondrial LSU rRNA is an RNA component of the large subunit of mitochondrial ribosomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-06-10T16:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "MT LSU rRNA"^^xsd:string, "mitochondrial LSU rRNA"^^xsd:string, "mitochondrial large subunit rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002345"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from EMBL. See GitHub Issue #493"^^xsd:string ; rdfs:label "mt_LSU_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002128 . obo:SO_0002346 obo:IAO_0000115 "Plastid rRNA is an RNA component of the small or large subunits of plastid (such as chloroplast) ribosomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-06-10T16:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "plastid rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002346"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from EMBL. See GitHub Issue #493"^^xsd:string ; rdfs:label "plastid_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000252 . obo:SO_0002347 obo:IAO_0000115 "Plastid SSU rRNA is an RNA component of the small subunit of plastid (such as chloroplast) ribosomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-06-10T16:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "plastid SSU rRNA"^^xsd:string, "plastid small subunit rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002347"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from EMBL. See GitHub Issue #493"^^xsd:string ; rdfs:label "plastid_SSU_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002346 . obo:SO_0002348 obo:IAO_0000115 "Plastid LSU rRNA is an RNA component of the large subunit of plastid (such as chloroplast) ribosomes."^^xsd:string ; oboInOwl:created_by "david"^^xsd:string ; oboInOwl:creation_date "2021-06-10T16:45:30Z"^^xsd:string ; oboInOwl:hasExactSynonym "plastid LSU rRNA"^^xsd:string, "plastid large subunit rRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002348"^^xsd:string ; a owl:Class ; rdfs:comment "Added as a request from EMBL. See GitHub Issue #493"^^xsd:string ; rdfs:label "plastid_LSU_rRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0002346 . obo:SO_0002349 obo:IAO_0000115 "A heritable locus on a chromosome that is prone to DNA breakage."^^xsd:string ; oboInOwl:created_by "evan"^^xsd:string ; oboInOwl:creation_date "2021-09-30T19:29:24Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002349"^^xsd:string ; a owl:Class ; rdfs:comment "See GitHub Issue #301."^^xsd:string ; rdfs:label "fragile_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001021 . obo:SO_0002350 obo:IAO_0000115 "A fragile site considered part of the normal chromosomal structure."^^xsd:string ; oboInOwl:created_by "evan"^^xsd:string ; oboInOwl:creation_date "2021-09-30T19:33:59Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002350"^^xsd:string ; a owl:Class ; rdfs:comment "See GitHub Issue #301."^^xsd:string ; rdfs:label "common_fragile_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002349 . obo:SO_0002351 obo:IAO_0000115 "A fragile site found in the chromosomes of less than five percent of the human population."^^xsd:string ; oboInOwl:created_by "evan"^^xsd:string ; oboInOwl:creation_date "2021-09-30T19:34:13Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002351"^^xsd:string ; a owl:Class ; rdfs:comment "See GitHub Issue #301."^^xsd:string ; rdfs:label "rare_fragile_site"^^xsd:string ; rdfs:subClassOf obo:SO_0002349 . obo:SO_0002352 obo:IAO_0000115 "An intronic sequence derived from the coding strand of a cognate host gene, that is not rapidly degraded. It may contain exonic sequences, 5′ caps, and_or polyA tails."^^xsd:string ; oboInOwl:created_by "evan"^^xsd:string ; oboInOwl:creation_date "2021-09-30T21:07:18Z"^^xsd:string ; oboInOwl:hasExactSynonym "Stable intronic sequence RNA"^^xsd:string, "stable_intronic_sequence_RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002352"^^xsd:string ; a owl:Class ; rdfs:comment "See GitHub Issue #515."^^xsd:string ; rdfs:label "sisRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0002353 obo:IAO_0000115 "A gene encoding a stem-bulge RNA."^^xsd:string ; oboInOwl:created_by "evan"^^xsd:string ; oboInOwl:creation_date "2021-09-30T21:25:37Z"^^xsd:string ; oboInOwl:hasExactSynonym "Stem-bulge RNA gene"^^xsd:string, "stem_bulge_RNA_gene"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002353"^^xsd:string ; a owl:Class ; rdfs:comment "See GitHub Issue #516."^^xsd:string ; rdfs:label "sbRNA_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0001263 . obo:SO_0002354 obo:IAO_0000115 "A small non-coding stem-loop RNA present in nematodes and insects, functionally and structurally related to vertebrate Y RNA."^^xsd:string ; oboInOwl:created_by "evan"^^xsd:string ; oboInOwl:creation_date "2021-09-30T21:29:19Z"^^xsd:string ; oboInOwl:hasExactSynonym "Stem-bulge RNA"^^xsd:string, "stem_bulge_RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0002354"^^xsd:string ; a owl:Class ; rdfs:comment "See GitHub Issue #516."^^xsd:string ; rdfs:label "sbRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655 . obo:SO_0005836 obo:IAO_0000115 "A region of sequence that is involved in the control of a biological process."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Regulatory_region"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:other"^^xsd:string, "regulatory region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005836"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "regulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000831 . obo:SO_0005837 obo:IAO_0000115 "The primary transcript of an evolutionarily conserved eukaryotic low molecular weight RNA capable of intermolecular hybridization with both homologous and heterologous 18S rRNA."^^xsd:string ; oboInOwl:hasExactSynonym "4.5S snRNA primary transcript"^^xsd:string, "U14 snoRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005837"^^xsd:string ; a owl:Class ; rdfs:label "U14_snoRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000232 . obo:SO_0005839 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000403 ; a owl:Class ; owl:deprecated true . obo:SO_0005841 obo:IAO_0000115 "A snoRNA that specifies the site of 2'-O-ribose methylation in an RNA molecule by base pairing with a short sequence around the target residue."^^xsd:string ; oboInOwl:hasExactSynonym "methylation guide snoRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005841"^^xsd:string ; a owl:Class ; rdfs:comment "Has RNA 2'-O-ribose methylation guide activity (GO:0030561)."^^xsd:string ; rdfs:label "methylation_guide_snoRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000593, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000580 ] . obo:SO_0005843 obo:IAO_0000115 "An ncRNA that is part of a ribonucleoprotein that cleaves the primary pre-rRNA transcript in the process of producing mature rRNA molecules."^^xsd:string ; oboInOwl:hasExactSynonym "rRNA cleavage RNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005843"^^xsd:string ; a owl:Class ; rdfs:label "rRNA_cleavage_RNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000655, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0000582 ] . obo:SO_0005845 obo:IAO_0000115 "An exon that is the only exon in a gene."^^xsd:string ; oboInOwl:hasExactSynonym "exon of single exon gene"^^xsd:string, "singleton exon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "single_exon"^^xsd:string ; oboInOwl:id "SO:0005845"^^xsd:string ; a owl:Class ; rdfs:label "exon_of_single_exon_gene"^^xsd:string ; rdfs:subClassOf obo:SO_0000147 . obo:SO_0005847 obo:IAO_0000115 "A gene that is a member of a gene cassette, which is a mobile genetic element."^^xsd:string ; oboInOwl:hasExactSynonym "cassette array member"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005847"^^xsd:string ; a owl:Class ; rdfs:label "cassette_array_member"^^xsd:string ; rdfs:subClassOf obo:SO_0005848 . obo:SO_0005848 obo:IAO_0000115 "A gene that is a member of a gene cassette, which is a mobile genetic element."^^xsd:string ; oboInOwl:hasExactSynonym "gene cassette member"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005848"^^xsd:string ; a owl:Class ; rdfs:label "gene_cassette_member"^^xsd:string ; rdfs:subClassOf obo:SO_0000081 . obo:SO_0005849 obo:IAO_0000115 "A gene that is a member of a group of genes that are either regulated or transcribed together within a larger group of genes that are regulated or transcribed together."^^xsd:string ; oboInOwl:hasExactSynonym "gene subarray member"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005849"^^xsd:string ; a owl:Class ; rdfs:label "gene_subarray_member"^^xsd:string ; rdfs:subClassOf obo:SO_0000081 . obo:SO_0005850 obo:IAO_0000115 "Non-covalent primer binding site for initiation of replication, transcription, or reverse transcription."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Primer_binding_site"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_feature:primer_bind"^^xsd:string, "primer binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005850"^^xsd:string ; a owl:Class ; rdfs:label "primer_binding_site"^^xsd:string ; rdfs:subClassOf obo:SO_0001655, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000186 ] . obo:SO_0005851 obo:IAO_0000115 "An array includes two or more genes, or two or more gene subarrays, contiguously arranged where the individual genes, or subarrays, are either identical in sequence, or essentially so."^^xsd:string ; oboInOwl:hasExactSynonym "gene array"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005851"^^xsd:string ; a owl:Class ; rdfs:comment "This would include, for example, a cluster of genes each encoding the major ribosomal RNAs and a cluster of histone gene subarrays."^^xsd:string ; rdfs:label "gene_array"^^xsd:string ; rdfs:subClassOf obo:SO_0005855 . obo:SO_0005852 obo:IAO_0000115 "A subarray is, by defintition, a member of a gene array (SO:0005851); the members of a subarray may differ substantially in sequence, but are closely related in function."^^xsd:string ; oboInOwl:hasExactSynonym "gene subarray"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005852"^^xsd:string ; a owl:Class ; rdfs:comment "This would include, for example, a cluster of genes encoding different histones."^^xsd:string ; rdfs:label "gene_subarray"^^xsd:string ; rdfs:subClassOf obo:SO_0005855 . obo:SO_0005853 obo:IAO_0000115 "A gene that can be substituted for a related gene at a different site in the genome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Gene_cassette"^^xsd:string ; oboInOwl:hasExactSynonym "gene cassette"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005853"^^xsd:string ; a owl:Class ; rdfs:comment "This would include, for example, the mating type gene cassettes of S. cerevisiae. Gene cassettes usually exist as linear sequences as part of a larger DNA molecule, such as a chromosome or plasmid."^^xsd:string ; rdfs:label "gene_cassette"^^xsd:string ; rdfs:subClassOf obo:SO_0000704 . obo:SO_0005854 obo:IAO_0000115 "An array of non-functional genes whose members, when captured by recombination form functional genes."^^xsd:string ; oboInOwl:hasExactSynonym "gene cassette array"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005854"^^xsd:string ; a owl:Class ; rdfs:comment "This would include, for example, the arrays of non-functional VSG genes of Trypanosomes."^^xsd:string ; rdfs:label "gene_cassette_array"^^xsd:string ; rdfs:subClassOf obo:SO_0005855, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0005853 ] . obo:SO_0005855 obo:IAO_0000115 "A collection of related genes."^^xsd:string ; oboInOwl:hasExactSynonym "gene group"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005855"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "gene_group"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_0005856 obo:IAO_0000115 "A primary transcript encoding seryl tRNA (SO:000269)."^^xsd:string ; oboInOwl:hasExactSynonym "selenocysteine tRNA primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005856"^^xsd:string ; a owl:Class ; rdfs:label "selenocysteine_tRNA_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000210 . obo:SO_0005857 obo:IAO_0000115 "A tRNA sequence that has a selenocysteine anticodon, and a 3' selenocysteine binding region."^^xsd:string ; oboInOwl:hasExactSynonym "selenocysteinyl tRNA"^^xsd:string, "selenocysteinyl-transfer RNA"^^xsd:string, "selenocysteinyl-transfer ribonucleic acid"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005857"^^xsd:string ; a owl:Class ; rdfs:label "selenocysteinyl_tRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000253, [ a owl:Restriction ; owl:onProperty so:derives_from ; owl:someValuesFrom obo:SO_0005856 ] . obo:SO_0005858 obo:IAO_0000115 "A region in which two or more pairs of homologous markers occur on the same chromosome in two or more species."^^xsd:string ; oboInOwl:hasExactSynonym "syntenic region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0005858"^^xsd:string ; a owl:Class ; rdfs:label "syntenic_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000330, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000860 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000330 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000860 ] ) ] . obo:SO_0100001 obo:IAO_0000115 "A region of a peptide that is involved in a biochemical function."^^xsd:string ; oboInOwl:hasExactSynonym "biochemical motif"^^xsd:string, "biochemical region of peptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "biochemical_region"^^xsd:string ; oboInOwl:id "SO:0100001"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "biochemical_region_of_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0001067 . obo:SO_0100002 obo:IAO_0000115 "A region that is involved a contact with another molecule."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "molecular contact region"^^xsd:string ; oboInOwl:id "SO:0100002"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "molecular_contact_region"^^xsd:string ; rdfs:subClassOf obo:SO_0100001 . obo:SO_0100003 obo:IAO_0000115 "A region of polypeptide chain with high conformational flexibility."^^xsd:string ; oboInOwl:hasExactSynonym "intrinsically unstructured polypeptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "disordered region"^^xsd:string ; oboInOwl:id "SO:0100003"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "intrinsically_unstructured_polypeptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0001070 . obo:SO_0100004 obo:IAO_0000115 "A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1."^^xsd:string ; oboInOwl:hasExactSynonym "catmat-3l"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100004"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "catmat_left_handed_three"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0100005 obo:IAO_0000115 "A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2."^^xsd:string ; oboInOwl:hasExactSynonym "catmat-4l"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100005"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "catmat_left_handed_four"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0100006 obo:IAO_0000115 "A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1."^^xsd:string ; oboInOwl:hasExactSynonym "catmat-3r"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100006"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "catmat_right_handed_three"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0100007 obo:IAO_0000115 "A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2."^^xsd:string ; oboInOwl:hasExactSynonym "catmat-4r"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100007"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "catmat_right_handed_four"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0100008 obo:IAO_0000115 "A motif of five consecutive residues and two H-bonds in which: H-bond between CO of residue(i) and NH of residue(i+4), H-bond between CO of residue(i) and NH of residue(i+3),Phi angles of residues(i+1), (i+2) and (i+3) are negative."^^xsd:string ; oboInOwl:hasExactSynonym "alpha beta motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100008"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "alpha_beta_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0100009 obo:IAO_0000115 "A peptide that acts as a signal for both membrane translocation and lipid attachment in prokaryotes."^^xsd:string ; oboInOwl:hasExactSynonym "lipoprotein signal peptide"^^xsd:string, "prokaryotic membrane lipoprotein lipid attachment site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100009"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "lipoprotein_signal_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0100011 . obo:SO_0100010 obo:IAO_0000115 "An experimental region wherean analysis has been run and not produced any annotation."^^xsd:string ; oboInOwl:hasExactSynonym "no output"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100010"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "no_output"^^xsd:string ; rdfs:subClassOf obo:SO_0000703 . obo:SO_0100011 obo:IAO_0000115 "The cleaved_peptide_region is the region of a peptide sequence that is cleaved during maturation."^^xsd:string ; oboInOwl:hasExactSynonym "cleaved peptide region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100011"^^xsd:string ; oboInOwl:inSubset so:SOFA, so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "cleaved_peptide_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0001063 ] . obo:SO_0100012 obo:IAO_0000115 "Irregular, unstructured regions of a protein's backbone, as distinct from the regular region (namely alpha helix and beta strand - characterised by specific patterns of main-chain hydrogen bonds)."^^xsd:string ; oboInOwl:hasExactSynonym "peptide coil"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "coil"^^xsd:string, "random coil"^^xsd:string ; oboInOwl:id "SO:0100012"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "peptide_coil"^^xsd:string ; rdfs:subClassOf obo:SO_0001078 . obo:SO_0100013 obo:IAO_0000115 "Hydrophobic regions are regions with a low affinity for water."^^xsd:string ; oboInOwl:hasExactSynonym "hydrophobic_region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "hydropathic"^^xsd:string, "hydrophobic region of peptide"^^xsd:string, "hydrophobicity"^^xsd:string ; oboInOwl:id "SO:0100013"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:comment "Range."^^xsd:string ; rdfs:label "hydrophobic_region_of_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0100014 obo:IAO_0000115 "The amino-terminal positively-charged region of a signal peptide (approx 1-5 aa)."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "N-region"^^xsd:string ; oboInOwl:id "SO:0100014"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "n_terminal_region"^^xsd:string ; rdfs:subClassOf obo:SO_0100011, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000418 ] . obo:SO_0100015 obo:IAO_0000115 "The more polar, carboxy-terminal region of the signal peptide (approx 3-7 aa)."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "C-region"^^xsd:string ; oboInOwl:id "SO:0100015"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "c_terminal_region"^^xsd:string ; rdfs:subClassOf obo:SO_0100011, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000418 ] . obo:SO_0100016 obo:IAO_0000115 "The central, hydrophobic region of the signal peptide (approx 7-15 aa)."^^xsd:string ; oboInOwl:hasExactSynonym "central hydrophobic region of signal peptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "H-region"^^xsd:string, "central_hydrophobic_region"^^xsd:string ; oboInOwl:id "SO:0100016"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "central_hydrophobic_region_of_signal_peptide"^^xsd:string ; rdfs:subClassOf obo:SO_0100011, [ a owl:Restriction ; owl:onProperty so:part_of ; owl:someValuesFrom obo:SO_0000418 ] . obo:SO_0100017 obo:IAO_0000115 "A conserved motif is a short (up to 20 amino acids) region of biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "motif"^^xsd:string ; oboInOwl:id "SO:0100017"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_conserved_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0001067 . obo:SO_0100018 obo:IAO_0000115 "A polypeptide binding motif is a short (up to 20 amino acids) polypeptide region of biological interest that contains one or more amino acids experimentally shown to bind to a ligand."^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide binding motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "binding"^^xsd:string ; oboInOwl:id "SO:0100018"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_binding_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0100001 . obo:SO_0100019 obo:IAO_0000115 "A polypeptide catalytic motif is a short (up to 20 amino acids) polypeptide region that contains one or more active site residues."^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide catalytic motif"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "catalytic_motif"^^xsd:string ; oboInOwl:id "SO:0100019"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_catalytic_motif"^^xsd:string ; rdfs:subClassOf obo:SO_0100001 . obo:SO_0100020 obo:IAO_0000115 "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with DNA."^^xsd:string ; oboInOwl:hasExactSynonym "DNA_bind"^^xsd:string, "polypeptide DNA contact"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100020"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_DNA_contact"^^xsd:string ; rdfs:subClassOf obo:SO_0001429, obo:SO_0100002 . obo:SO_0100021 obo:IAO_0000115 "A subsection of sequence with biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found."^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide conserved region"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:0100021"^^xsd:string ; oboInOwl:inSubset so:biosapiens ; a owl:Class ; rdfs:label "polypeptide_conserved_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000839 . obo:SO_0100042 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000569 ; a owl:Class ; owl:deprecated true . obo:SO_1000002 obo:IAO_0000115 "A sequence alteration where the length of the change in the variant is the same as that of the reference."^^xsd:string ; oboInOwl:hasDbXref "loinc:LA6690-7"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000002"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "substitution"^^xsd:string ; rdfs:subClassOf obo:SO_0001059, obo:SO_0001411 . obo:SO_1000004 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001059 ; a owl:Class ; owl:deprecated true . obo:SO_1000005 obo:IAO_0000115 "When no simple or well defined DNA mutation event describes the observed DNA change, the keyword \"complex\" should be used. Usually there are multiple equally plausible explanations for the change."^^xsd:string ; oboInOwl:hasExactSynonym "complex substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000005"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "complex_substitution"^^xsd:string ; rdfs:subClassOf obo:SO_1000002 . obo:SO_1000007 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001059 ; a owl:Class ; owl:deprecated true . obo:SO_1000008 obo:IAO_0000115 "A single nucleotide change which has occurred at the same position of a corresponding nucleotide in a reference sequence."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Point_mutation"^^xsd:string ; oboInOwl:hasExactSynonym "point mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000008"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "point_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_0001483 . obo:SO_1000009 obo:IAO_0000115 "Change of a pyrimidine nucleotide, C or T, into an other pyrimidine nucleotide, or change of a purine nucleotide, A or G, into an other purine nucleotide."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000009"^^xsd:string ; a owl:Class ; rdfs:label "transition"^^xsd:string ; rdfs:subClassOf obo:SO_0001483 . obo:SO_1000010 obo:IAO_0000115 "A substitution of a pyrimidine, C or T, for another pyrimidine."^^xsd:string ; oboInOwl:hasExactSynonym "pyrimidine transition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000010"^^xsd:string ; a owl:Class ; rdfs:label "pyrimidine_transition"^^xsd:string ; rdfs:subClassOf obo:SO_1000009 . obo:SO_1000011 obo:IAO_0000115 "A transition of a cytidine to a thymine."^^xsd:string ; oboInOwl:hasExactSynonym "C to T transition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000011"^^xsd:string ; a owl:Class ; rdfs:label "C_to_T_transition"^^xsd:string ; rdfs:subClassOf obo:SO_1000010 . obo:SO_1000012 obo:IAO_0000115 "The transition of cytidine to thymine occurring at a pCpG site as a consequence of the spontaneous deamination of 5'-methylcytidine."^^xsd:string ; oboInOwl:hasExactSynonym "C to T transition at pCpG site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000012"^^xsd:string ; a owl:Class ; rdfs:label "C_to_T_transition_at_pCpG_site"^^xsd:string ; rdfs:subClassOf obo:SO_1000011 . obo:SO_1000013 obo:IAO_0000115 "A transition of a thymine to a cytidine."^^xsd:string ; oboInOwl:hasExactSynonym "T to C transition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000013"^^xsd:string ; a owl:Class ; rdfs:label "T_to_C_transition"^^xsd:string ; rdfs:subClassOf obo:SO_1000010 . obo:SO_1000014 obo:IAO_0000115 "A substitution of a purine, A or G, for another purine."^^xsd:string ; oboInOwl:hasExactSynonym "purine transition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000014"^^xsd:string ; a owl:Class ; rdfs:label "purine_transition"^^xsd:string ; rdfs:subClassOf obo:SO_1000009 . obo:SO_1000015 obo:IAO_0000115 "A transition of an adenine to a guanine."^^xsd:string ; oboInOwl:hasExactSynonym "A to G transition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000015"^^xsd:string ; a owl:Class ; rdfs:label "A_to_G_transition"^^xsd:string ; rdfs:subClassOf obo:SO_1000014 . obo:SO_1000016 obo:IAO_0000115 "A transition of a guanine to an adenine."^^xsd:string ; oboInOwl:hasExactSynonym "G to A transition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000016"^^xsd:string ; a owl:Class ; rdfs:label "G_to_A_transition"^^xsd:string ; rdfs:subClassOf obo:SO_1000014 . obo:SO_1000017 obo:IAO_0000115 "Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G, or vice versa."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000017"^^xsd:string ; a owl:Class ; rdfs:label "transversion"^^xsd:string ; rdfs:subClassOf obo:SO_0001483 . obo:SO_1000018 obo:IAO_0000115 "Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G."^^xsd:string ; oboInOwl:hasExactSynonym "pyrimidine to purine transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000018"^^xsd:string ; a owl:Class ; rdfs:label "pyrimidine_to_purine_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000017 . obo:SO_1000019 obo:IAO_0000115 "A transversion from cytidine to adenine."^^xsd:string ; oboInOwl:hasExactSynonym "C to A transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000019"^^xsd:string ; a owl:Class ; rdfs:label "C_to_A_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000018 . obo:SO_1000020 obo:IAO_0000115 "A transversion of a cytidine to a guanine."^^xsd:string ; oboInOwl:hasExactSynonym "C to G transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000020"^^xsd:string ; a owl:Class ; rdfs:label "C_to_G_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000018 . obo:SO_1000021 obo:IAO_0000115 "A transversion from T to A."^^xsd:string ; oboInOwl:hasExactSynonym "T to A transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000021"^^xsd:string ; a owl:Class ; rdfs:label "T_to_A_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000018 . obo:SO_1000022 obo:IAO_0000115 "A transversion from T to G."^^xsd:string ; oboInOwl:hasExactSynonym "T to G transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000022"^^xsd:string ; a owl:Class ; rdfs:label "T_to_G_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000018 . obo:SO_1000023 obo:IAO_0000115 "Change of a purine nucleotide, A or G , into a pyrimidine nucleotide C or T."^^xsd:string ; oboInOwl:hasExactSynonym "purine to pyrimidine transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000023"^^xsd:string ; a owl:Class ; rdfs:label "purine_to_pyrimidine_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000017 . obo:SO_1000024 obo:IAO_0000115 "A transversion from adenine to cytidine."^^xsd:string ; oboInOwl:hasExactSynonym "A to C transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000024"^^xsd:string ; a owl:Class ; rdfs:label "A_to_C_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000023 . obo:SO_1000025 obo:IAO_0000115 "A transversion from adenine to thymine."^^xsd:string ; oboInOwl:hasExactSynonym "A to T transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000025"^^xsd:string ; a owl:Class ; rdfs:label "A_to_T_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000023 . obo:SO_1000026 obo:IAO_0000115 "A transversion from guanine to cytidine."^^xsd:string ; oboInOwl:hasExactSynonym "G to C transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000026"^^xsd:string ; a owl:Class ; rdfs:label "G_to_C_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000023 . obo:SO_1000027 obo:IAO_0000115 "A transversion from guanine to thymine."^^xsd:string ; oboInOwl:hasExactSynonym "G to T transversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000027"^^xsd:string ; a owl:Class ; rdfs:label "G_to_T_transversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000023 . obo:SO_1000028 obo:IAO_0000115 "A chromosomal structure variation within a single chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "intrachromosomal mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000028"^^xsd:string ; a owl:Class ; rdfs:label "intrachromosomal_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_1000183, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001510 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000183 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001510 ] ) ] . obo:SO_1000029 obo:IAO_0000115 "An incomplete chromosome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Chromosomal_deletion"^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal deletion"^^xsd:string, "deficiency"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Df"^^xsd:string, "(bacteria)&Dgr;"^^xsd:string, "(fungi)D"^^xsd:string ; oboInOwl:id "SO:1000029"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_deletion"^^xsd:string ; rdfs:subClassOf obo:SO_1000028, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000159 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000028 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000159 ] ) ] . obo:SO_1000030 obo:IAO_0000115 "An interchromosomal mutation where a region of the chromosome is inverted with respect to wild type."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Chromosomal_inversion"^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal inversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)In"^^xsd:string, "(bacteria)IN"^^xsd:string, "(fungi)In"^^xsd:string ; oboInOwl:id "SO:1000030"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_inversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000028, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000036 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000028 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000036 ] ) ] . obo:SO_1000031 obo:IAO_0000115 "A chromosomal structure variation whereby more than one chromosome is involved."^^xsd:string ; oboInOwl:hasExactSynonym "interchromosomal mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000031"^^xsd:string ; a owl:Class ; rdfs:label "interchromosomal_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_1000183, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001511 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000183 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001511 ] ) ] . obo:SO_1000032 obo:IAO_0000115 "A sequence alteration which included an insertion and a deletion, affecting 2 or more bases."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Indel"^^xsd:string, "loinc:LA9659-9"^^xsd:string ; oboInOwl:hasExactSynonym "deletion-insertion"^^xsd:string, "indel"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000032"^^xsd:string ; a owl:Class ; rdfs:comment "Indels can have a different number of bases than the corresponding reference sequence. The term name was changed from indel to delins on 2/24/2019 to align with the HGVS nomenclature term for a deletion-insertion. Indel was causing confusion in the annotation community (github issue 445). The HGVS nomenclature definition of deletion-insertion (delins) is a sequence change where, compared to a reference sequence, one or more nucleotides are replaced by one or more other nucleotides and which is not a substitution, inversion or conversion."^^xsd:string ; rdfs:label "delins"^^xsd:string ; rdfs:subClassOf obo:SO_0001059 . obo:SO_1000033 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000159 ; a owl:Class ; owl:deprecated true . obo:SO_1000034 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0000667 ; a owl:Class ; owl:deprecated true . obo:SO_1000035 obo:IAO_0000115 "An insertion which derives from, or is identical in sequence to, nucleotides present at a known location in the genome."^^xsd:string ; oboInOwl:hasDbXref "loinc:LA6686-5"^^xsd:string ; oboInOwl:hasExactSynonym "nucleotide duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "nucleotide_duplication"^^xsd:string ; oboInOwl:id "SO:1000035"^^xsd:string ; a owl:Class ; rdfs:label "duplication"^^xsd:string ; rdfs:subClassOf obo:SO_0000667 . obo:SO_1000036 obo:IAO_0000115 "A continuous nucleotide sequence is inverted in the same position."^^xsd:string ; oboInOwl:hasDbXref "loinc:LA6689-9"^^xsd:string ; oboInOwl:hasExactSynonym "inversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000036"^^xsd:string ; oboInOwl:inSubset so:DBVAR, so:SOFA ; a owl:Class ; rdfs:label "inversion"^^xsd:string ; rdfs:subClassOf obo:SO_0001059, obo:SO_0001411 . obo:SO_1000037 obo:IAO_0000115 "An extra chromosome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Chromosomal_duplication"^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Dp"^^xsd:string, "(fungi)Dp"^^xsd:string ; oboInOwl:id "SO:1000037"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_1000038 obo:IAO_0000115 "A duplication that occurred within a chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "intrachromosomal duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000038"^^xsd:string ; a owl:Class ; rdfs:label "intrachromosomal_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000028, obo:SO_1000037, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000035 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000028 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000035 ] ) ] . obo:SO_1000039 obo:IAO_0000115 "A tandem duplication where the individual regions are in the same orientation."^^xsd:string ; oboInOwl:hasExactSynonym "direct tandem duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000039"^^xsd:string ; a owl:Class ; rdfs:label "direct_tandem_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000173 . obo:SO_1000040 obo:IAO_0000115 "A tandem duplication where the individual regions are not in the same orientation."^^xsd:string ; oboInOwl:hasExactSynonym "inverted tandem duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mirror duplication"^^xsd:string ; oboInOwl:id "SO:1000040"^^xsd:string ; a owl:Class ; rdfs:label "inverted_tandem_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000173 . obo:SO_1000041 obo:IAO_0000115 "A chromosome structure variation whereby a transposition occurred within a chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "intrachromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Tp"^^xsd:string ; oboInOwl:id "SO:1000041"^^xsd:string ; a owl:Class ; rdfs:label "intrachromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_0000453, obo:SO_1000038, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000199 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000035 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000028 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000199 ] [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000035 ] ) ] . obo:SO_1000042 obo:IAO_0000115 "A chromosome structure variant where a monocentric element is caused by the fusion of two chromosome arms."^^xsd:string ; oboInOwl:hasExactSynonym "compound chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000042"^^xsd:string ; a owl:Class ; rdfs:label "compound_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_1000043 obo:IAO_0000115 "A non reciprocal translocation whereby the participating chromosomes break at their centromeres and the long arms fuse to form a single chromosome with a single centromere."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Robertsonian_fusion"^^xsd:string ; oboInOwl:hasExactSynonym "Robertsonian fusion"^^xsd:string, "centric-fusion translocations"^^xsd:string, "whole-arm translocations"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000043"^^xsd:string ; a owl:Class ; rdfs:label "Robertsonian_fusion"^^xsd:string ; rdfs:subClassOf obo:SO_1000044 . obo:SO_1000044 obo:IAO_0000115 "A chromosomal mutation. Rearrangements that alter the pairing of telomeres are classified as translocations."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Chromosomal_translocation"^^xsd:string ; oboInOwl:hasExactSynonym "chromosomal translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)T"^^xsd:string, "(fungi)T"^^xsd:string ; oboInOwl:id "SO:1000044"^^xsd:string ; a owl:Class ; rdfs:label "chromosomal_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0000199, obo:SO_1000031 . obo:SO_1000045 obo:IAO_0000115 "A ring chromosome is a chromosome whose arms have fused together to form a ring, often with the loss of the ends of the chromosome."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Ring_chromosome"^^xsd:string ; oboInOwl:hasExactSynonym "ring chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)R"^^xsd:string, "(fungi)C"^^xsd:string ; oboInOwl:id "SO:1000045"^^xsd:string ; a owl:Class ; rdfs:label "ring_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000028, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000028 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000988 ] ) ] . obo:SO_1000046 obo:IAO_0000115 "A chromosomal inversion that includes the centromere."^^xsd:string ; oboInOwl:hasExactSynonym "pericentric inversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000046"^^xsd:string ; a owl:Class ; rdfs:label "pericentric_inversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000030, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001518 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000030 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001518 ] ) ] . obo:SO_1000047 obo:IAO_0000115 "A chromosomal inversion that does not include the centromere."^^xsd:string ; oboInOwl:hasExactSynonym "paracentric inversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000047"^^xsd:string ; a owl:Class ; rdfs:label "paracentric_inversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000030, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001519 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000030 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001519 ] ) ] . obo:SO_1000048 obo:IAO_0000115 "A chromosomal translocation with two breaks; two chromosome segments have simply been exchanged."^^xsd:string ; oboInOwl:hasExactSynonym "reciprocal chromosomal translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000048"^^xsd:string ; a owl:Class ; rdfs:label "reciprocal_chromosomal_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_1000044 . obo:SO_1000049 obo:IAO_0000115 "Any change in mature, spliced and processed, RNA that results from a change in the corresponding DNA sequence."^^xsd:string ; obo:IAO_0100001 "SO:0001576"^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000177"^^xsd:string, "SO:1000179"^^xsd:string ; oboInOwl:hasExactSynonym "mutation affecting transcript"^^xsd:string, "sequence variant causing partially characterised change in transcript"^^xsd:string, "sequence variant causing uncharacterised change in transcript"^^xsd:string, "sequence variation affecting transcript"^^xsd:string, "sequence_variant_causing_partially_characterised_change_in_transcript"^^xsd:string, "sequence_variant_causing_uncharacterised_change_in_transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing partially characterised change in transcript"^^xsd:string, "mutation causing uncharacterised change in transcript"^^xsd:string ; oboInOwl:id "SO:1000049"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_affecting_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000050 obo:IAO_0000115 "No effect on the state of the RNA."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing no change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing no change in transcript"^^xsd:string ; oboInOwl:id "SO:1000050"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also as there is not change, it is not a good ontological term."^^xsd:string ; rdfs:label "sequence_variant_causing_no_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000054 obo:IAO_0000115 "Any of the amino acid coding triplets of a gene are affected by the DNA mutation."^^xsd:string ; obo:IAO_0100001 "SO:0001580"^^xsd:string ; oboInOwl:hasExactSynonym "mutation affecting coding sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sequence variation affecting coding sequence"^^xsd:string ; oboInOwl:id "SO:1000054"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_affecting_coding_sequence"^^xsd:string ; owl:deprecated true . obo:SO_1000055 obo:IAO_0000115 "The DNA mutation changes, usually destroys, the first coding triplet of a gene. Usually prevents translation although another initiator codon may be used."^^xsd:string ; obo:IAO_0100001 "SO:0001582"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing initiator codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing initiator codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000055"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_initiator_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000056 obo:IAO_0000115 "The DNA mutation affects the amino acid coding sequence of a gene; this region includes both the initiator and terminator codons."^^xsd:string ; oboInOwl:consider "SO:0001606"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing amino acid coding codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutaton causing amino acid coding codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000056"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_amino_acid_coding_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000057 obo:IAO_0000115 "The changed codon has the same translation product as the original codon."^^xsd:string ; obo:IAO_0100001 "SO:0001819"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing synonymous codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing synonymous codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000057"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_synonymous_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000058 obo:IAO_0000115 "A DNA point mutation that causes a substitution of an amino acid by an other."^^xsd:string ; oboInOwl:consider "SO:0001583"^^xsd:string ; oboInOwl:hasExactSynonym "non-synonymous codon change in transcript"^^xsd:string, "sequence variant causing non synonymous codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing non synonymous codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000058"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_non_synonymous_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000059 obo:IAO_0000115 "The nucleotide change in the codon leads to a new codon coding for a new amino acid."^^xsd:string ; oboInOwl:consider "SO:0001583"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing missense codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing missense codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000059"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_missense_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000060 obo:IAO_0000115 "The amino acid change following from the codon change does not change the gross properties (size, charge, hydrophobicity) of the amino acid at that position."^^xsd:string ; obo:IAO_0100001 "SO:0001585"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing conservative missense codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing conservative missense codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000060"^^xsd:string ; a owl:Class ; rdfs:comment "The exact rules need to be stated, a common set of rules can be derived from e.g. BLOSUM62 amino acid distance matrix."^^xsd:string ; rdfs:label "sequence_variant_causing_conservative_missense_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000061 obo:IAO_0000115 "The amino acid change following from the codon change changes the gross properties (size, charge, hydrophobicity) of the amino acid in that position."^^xsd:string ; oboInOwl:consider "SO:0001586"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing nonconservative missense codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing nonconservative missense codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000061"^^xsd:string ; a owl:Class ; rdfs:comment "The exact rules need to be stated, a common set of rules can be derived from e.g. BLOSUM62 amino acid distance matrix."^^xsd:string ; rdfs:label "sequence_variant_causing_nonconservative_missense_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000062 obo:IAO_0000115 "The nucleotide change in the codon triplet creates a terminator codon."^^xsd:string ; oboInOwl:consider "SO:0001587"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing nonsense codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing nonsense codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000062"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_nonsense_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000063 obo:IAO_0000115 "The nucleotide change in the codon triplet changes the stop codon, causing an elongated transcript sequence."^^xsd:string ; oboInOwl:consider "SO:0001590"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing terminator codon change in transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing terminator codon change in transcript"^^xsd:string ; oboInOwl:id "SO:1000063"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_terminator_codon_change_in_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000064 obo:IAO_0000115 "An umbrella term for terms describing an effect of a sequence variation on the frame of translation."^^xsd:string ; oboInOwl:hasExactSynonym "mutation affecting reading frame"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sequence variation affecting reading frame"^^xsd:string ; oboInOwl:id "SO:1000064"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_affecting_reading_frame"^^xsd:string ; owl:deprecated true . obo:SO_1000065 obo:IAO_0000115 "A mutation causing a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Frameshift_mutation"^^xsd:string ; oboInOwl:hasExactSynonym "frameshift mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "frameshift sequence variation"^^xsd:string, "out of frame mutation"^^xsd:string ; oboInOwl:id "SO:1000065"^^xsd:string ; a owl:Class ; rdfs:label "frameshift_sequence_variation"^^xsd:string ; owl:deprecated true . obo:SO_1000066 obo:IAO_0000115 "A mutation causing a disruption of the translational reading frame, due to the insertion of a nucleotide."^^xsd:string ; obo:IAO_0100001 "SO:0001594"^^xsd:string ; oboInOwl:hasExactSynonym "plus 1 frameshift mutation"^^xsd:string, "sequence variant causing plus 1 frameshift mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000066"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_plus_1_frameshift_mutation"^^xsd:string ; owl:deprecated true . obo:SO_1000067 obo:IAO_0000115 "A mutation causing a disruption of the translational reading frame, due to the deletion of a nucleotide."^^xsd:string ; obo:IAO_0100001 "SO:0001592"^^xsd:string ; oboInOwl:hasExactSynonym "minus 1 frameshift mutation"^^xsd:string, "sequence variant causing minus 1 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000067"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_minus_1_frameshift"^^xsd:string ; owl:deprecated true . obo:SO_1000068 obo:IAO_0000115 "A mutation causing a disruption of the translational reading frame, due to the insertion of two nucleotides."^^xsd:string ; obo:IAO_0100001 "SO:0001595"^^xsd:string ; oboInOwl:hasExactSynonym "plus 2 frameshift mutation"^^xsd:string, "sequence variant causing plus 2 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000068"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_plus_2_frameshift"^^xsd:string ; owl:deprecated true . obo:SO_1000069 obo:IAO_0000115 "A mutation causing a disruption of the translational reading frame, due to the deletion of two nucleotides."^^xsd:string ; obo:IAO_0100001 "SO:0001593"^^xsd:string ; oboInOwl:hasExactSynonym "minus 2 frameshift mutation"^^xsd:string, "sequence variant causing minus 2 frameshift"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000069"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_minus_2_frameshift"^^xsd:string ; owl:deprecated true . obo:SO_1000070 obo:IAO_0000115 "Sequence variant affects the way in which the primary transcriptional product is processed to form the mature transcript."^^xsd:string ; obo:IAO_0100001 "SO:0001543"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting transcript processing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting transcript processing"^^xsd:string ; oboInOwl:id "SO:1000070"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_transcript_processing"^^xsd:string ; owl:deprecated true . obo:SO_1000071 obo:IAO_0000115 "A sequence_variant_effect where the way in which the primary transcriptional product is processed to form the mature transcript, specifically by the removal (splicing) of intron sequences is changed."^^xsd:string ; obo:IAO_0100001 "SO:0001568"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting splicing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting splicing"^^xsd:string ; oboInOwl:id "SO:1000071"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_splicing"^^xsd:string ; owl:deprecated true . obo:SO_1000072 obo:IAO_0000115 "A sequence_variant_effect that changes the splice donor sequence."^^xsd:string ; obo:IAO_0100001 "SO:0001575"^^xsd:string ; oboInOwl:hasExactSynonym "splice donor mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting splice donor"^^xsd:string, "sequence variant affecting splice donor"^^xsd:string ; oboInOwl:id "SO:1000072"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_splice_donor"^^xsd:string ; owl:deprecated true . obo:SO_1000073 obo:IAO_0000115 "A sequence_variant_effect that changes the splice acceptor sequence."^^xsd:string ; obo:IAO_0100001 "SO:0001574"^^xsd:string ; oboInOwl:hasExactSynonym "splice acceptor mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting splicing"^^xsd:string, "sequence variant affecting splice acceptor"^^xsd:string ; oboInOwl:id "SO:1000073"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_splice_acceptor"^^xsd:string ; owl:deprecated true . obo:SO_1000074 obo:IAO_0000115 "A sequence variant causing a new (functional) splice site."^^xsd:string ; obo:IAO_0100001 "SO:0001569"^^xsd:string ; oboInOwl:hasExactSynonym "cryptic splice activator sequence variant"^^xsd:string, "sequence variant causing cryptic splice activator"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing cryptic splice activator"^^xsd:string ; oboInOwl:id "SO:1000074"^^xsd:string ; a owl:Class ; rdfs:comment "A cryptic splice site is only used when the natural splice site has been disrupted by a sequence alteration."^^xsd:string ; rdfs:label "sequence_variant_causing_cryptic_splice_activation"^^xsd:string ; owl:deprecated true . obo:SO_1000075 obo:IAO_0000115 "Sequence variant affects the editing of the transcript."^^xsd:string ; obo:IAO_0100001 "SO:0001544"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting editing"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting editing"^^xsd:string ; oboInOwl:id "SO:1000075"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_editing"^^xsd:string ; owl:deprecated true . obo:SO_1000076 obo:IAO_0000115 "Mutation affects the process of transcription, its initiation, progression or termination."^^xsd:string ; obo:IAO_0100001 "SO:0001549"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting transcription"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting transcription"^^xsd:string ; oboInOwl:id "SO:1000076"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_transcription"^^xsd:string ; owl:deprecated true . obo:SO_1000078 obo:IAO_0000115 "A sequence variation that decreases the rate a which transcription of the sequence occurs."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variation decreasing rate of transcription"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation decreasing rate of transcription"^^xsd:string ; oboInOwl:id "SO:1000078"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_decreasing_rate_of_transcription"^^xsd:string ; owl:deprecated true . obo:SO_1000079 oboInOwl:hasExactSynonym "mutation affecting transcript sequence"^^xsd:string, "sequence variation affecting transcript sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000079"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_affecting_transcript_sequence"^^xsd:string ; owl:deprecated true . obo:SO_1000080 oboInOwl:hasExactSynonym "sequence variation increasing rate of transcription"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation increasing rate of transcription"^^xsd:string ; oboInOwl:id "SO:1000080"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_increasing_rate_of_transcription"^^xsd:string ; owl:deprecated true . obo:SO_1000081 obo:IAO_0000115 "A mutation that alters the rate a which transcription of the sequence occurs."^^xsd:string ; obo:IAO_0100001 "SO:0001550"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting rate of transcription"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting rate of transcription"^^xsd:string ; oboInOwl:id "SO:1000081"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_rate_of_transcription"^^xsd:string ; owl:deprecated true . obo:SO_1000082 obo:IAO_0000115 "Sequence variant affects the stability of the transcript."^^xsd:string ; obo:IAO_0100001 "SO:0001546"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting transcript stability"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting transcript stability"^^xsd:string ; oboInOwl:id "SO:1000082"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence variant_affecting_transcript_stability"^^xsd:string ; owl:deprecated true . obo:SO_1000083 obo:IAO_0000115 "Sequence variant increases the stability (half-life) of the transcript."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant increasing transcript stability"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation increasing transcript stability"^^xsd:string ; oboInOwl:id "SO:1000083"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_increasing_transcript_stability"^^xsd:string ; owl:deprecated true . obo:SO_1000084 obo:IAO_0000115 "Sequence variant decreases the stability (half-life) of the transcript."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant decreasing transcript stability"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation decreasing transcript stability"^^xsd:string ; oboInOwl:id "SO:1000084"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_decreasing_transcript_stability"^^xsd:string ; owl:deprecated true . obo:SO_1000085 obo:IAO_0000115 "A sequence variation that causes a change in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence."^^xsd:string ; obo:IAO_0100001 "SO:0001540"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variation affecting level of transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting level of transcript"^^xsd:string ; oboInOwl:id "SO:1000085"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_affecting_level_of_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000086 obo:IAO_0000115 "A sequence variation that causes a decrease in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "mutation decreasing level of transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sequence variation decreasing level of transcript"^^xsd:string ; oboInOwl:id "SO:1000086"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_decreasing_level_of_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000087 obo:IAO_0000115 "A sequence_variation that causes an increase in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence."^^xsd:string ; oboInOwl:hasExactSynonym "mutation increasing level of transcript"^^xsd:string, "sequence variation increasing level of transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000087"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variation_increasing_level_of_transcript"^^xsd:string ; owl:deprecated true . obo:SO_1000088 obo:IAO_0000115 "A sequence variant causing a change in primary translation product of a transcript."^^xsd:string ; obo:IAO_0100001 "SO:0001553"^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000090"^^xsd:string, "SO:1000091"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting translational product"^^xsd:string, "sequence variant causing partially characterised change of translational product"^^xsd:string, "sequence variant causing uncharacterised change of translational product"^^xsd:string, "sequence_variant_causing_partially_characterised_change_of_translational_product"^^xsd:string, "sequence_variant_causing_uncharacterised_change_of_translational_product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting translational product"^^xsd:string, "mutation causing partially characterised change of translational product"^^xsd:string, "mutation causing uncharacterised change of translational product"^^xsd:string ; oboInOwl:id "SO:1000088"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_translational_product"^^xsd:string ; owl:deprecated true . obo:SO_1000089 obo:IAO_0000115 "The sequence variant at RNA level does not lead to any change in polypeptide."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing no change of translational product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing no change of translational product"^^xsd:string ; oboInOwl:id "SO:1000089"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also, as there is no change, this is not a good ontological term."^^xsd:string ; rdfs:label "sequence_variant_causing_no_change_of_translational_product"^^xsd:string ; owl:deprecated true . obo:SO_1000090 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_1000088 ; a owl:Class ; owl:deprecated true . obo:SO_1000091 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_1000088 ; a owl:Class ; owl:deprecated true . obo:SO_1000092 obo:IAO_0000115 "Any sequence variant effect that is known at nucleotide level but cannot be explained by using other key terms."^^xsd:string ; oboInOwl:consider "SO:0001539"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing complex change of translational product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing complex change of translational product"^^xsd:string ; oboInOwl:id "SO:1000092"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_complex_change_of_translational_product"^^xsd:string ; owl:deprecated true . obo:SO_1000093 obo:IAO_0000115 "The replacement of a single amino acid by another."^^xsd:string ; obo:IAO_0100001 "SO:0001606"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing amino acid substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing amino acid substitution"^^xsd:string ; oboInOwl:id "SO:1000093"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_amino_acid_substitution"^^xsd:string ; owl:deprecated true . obo:SO_1000094 obo:IAO_0100001 "SO:0001607"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing conservative amino acid substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing conservative amino acid substitution"^^xsd:string ; oboInOwl:id "SO:1000094"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_conservative_amino_acid_substitution"^^xsd:string ; owl:deprecated true . obo:SO_1000095 obo:IAO_0100001 "SO:0001607"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing nonconservative amino acid substitution"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing nonconservative amino acid substitution"^^xsd:string ; oboInOwl:id "SO:1000095"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_nonconservative_amino_acid_substitution"^^xsd:string ; owl:deprecated true . obo:SO_1000096 obo:IAO_0000115 "The insertion of one or more amino acids from the polypeptide, without affecting the surrounding sequence."^^xsd:string ; obo:IAO_0100001 "SO:0001605"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing amino acid insertion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing amino acid insertion"^^xsd:string ; oboInOwl:id "SO:1000096"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_amino_acid_insertion"^^xsd:string ; owl:deprecated true . obo:SO_1000097 obo:IAO_0000115 "The deletion of one or more amino acids from the polypeptide, without affecting the surrounding sequence."^^xsd:string ; oboInOwl:consider "SO:0001825"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing amino acid deletion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing amino acid deletion"^^xsd:string ; oboInOwl:id "SO:1000097"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_amino_acid_deletion"^^xsd:string ; owl:deprecated true . obo:SO_1000098 obo:IAO_0000115 "The translational product is truncated at its C-terminus, usually a result of a nonsense codon change in transcript (SO:1000062)."^^xsd:string ; obo:IAO_0100001 "SO:0001587"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing polypeptide truncation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing polypeptide truncation"^^xsd:string ; oboInOwl:id "SO:1000098"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_polypeptide_truncation"^^xsd:string ; owl:deprecated true . obo:SO_1000099 obo:IAO_0000115 "The extension of the translational product at either (or both) the N-terminus and/or the C-terminus."^^xsd:string ; obo:IAO_0100001 "SO:0001609"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing polypeptide elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing polypeptide elongation"^^xsd:string ; oboInOwl:id "SO:1000099"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_polypeptide_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000100 obo:IAO_0000115 "."^^xsd:string ; obo:IAO_0100001 "SO:0001611"^^xsd:string ; oboInOwl:hasExactSynonym "mutation causing polypeptide N terminal elongation"^^xsd:string, "polypeptide N-terminal elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000100"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "mutation_causing_polypeptide_N_terminal_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000101 obo:IAO_0000115 "."^^xsd:string ; obo:IAO_0100001 "SO:0001610"^^xsd:string ; oboInOwl:hasExactSynonym "mutation causing polypeptide C terminal elongation"^^xsd:string, "polypeptide C-terminal elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000101"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "mutation_causing_polypeptide_C_terminal_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000102 obo:IAO_0100001 "SO:0001553"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting level of translational product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting level of translational product"^^xsd:string ; oboInOwl:id "SO:1000102"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_level_of_translational_product"^^xsd:string ; owl:deprecated true . obo:SO_1000103 obo:IAO_0100001 "SO:0001555"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant decreasing level of translation product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutationdecreasing level of translation product"^^xsd:string ; oboInOwl:id "SO:1000103"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_decreasing_level_of_translation_product"^^xsd:string ; owl:deprecated true . obo:SO_1000104 oboInOwl:hasExactSynonym "sequence variant increasing level of translation product"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutationt increasing level of translation product"^^xsd:string ; oboInOwl:id "SO:1000104"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_increasing_level_of_translation_product"^^xsd:string ; owl:deprecated true . obo:SO_1000105 obo:IAO_0100001 "SO:0001603"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting polypeptide amino acid sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting polypeptide amino acid sequence"^^xsd:string ; oboInOwl:id "SO:1000105"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_polypeptide_amino_acid_sequence"^^xsd:string ; owl:deprecated true . obo:SO_1000106 obo:IAO_0100001 "SO:0001614"^^xsd:string ; oboInOwl:hasExactSynonym "inframe polypeptide N-terminal elongation"^^xsd:string, "mutation causing inframe polypeptide N terminal elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000106"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "mutation_causing_inframe_polypeptide_N_terminal_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000107 obo:IAO_0100001 "SO:0001615"^^xsd:string ; oboInOwl:hasExactSynonym "mutation causing out of frame polypeptide N terminal elongation"^^xsd:string, "out of frame polypeptide N-terminal elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000107"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "mutation_causing_out_of_frame_polypeptide_N_terminal_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000108 obo:IAO_0100001 "SO:0001612"^^xsd:string ; oboInOwl:hasExactSynonym "inframe_polypeptide C-terminal elongation"^^xsd:string, "mutaton causing inframe polypeptide C terminal elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000108"^^xsd:string ; a owl:Class ; rdfs:label "mutaton_causing_inframe_polypeptide_C_terminal_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000109 obo:IAO_0100001 "SO:0001613"^^xsd:string ; oboInOwl:hasExactSynonym "mutation causing out of frame polypeptide C terminal elongation"^^xsd:string, "out of frame polypeptide C-terminal elongation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000109"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "mutation_causing_out_of_frame_polypeptide_C_terminal_elongation"^^xsd:string ; owl:deprecated true . obo:SO_1000110 obo:IAO_0000115 "A mutation that reverts the sequence of a previous frameshift mutation back to the initial frame."^^xsd:string ; oboInOwl:hasExactSynonym "frame restoring mutation"^^xsd:string, "frame restoring sequence variant"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000110"^^xsd:string ; a owl:Class ; rdfs:label "frame_restoring_sequence_variant"^^xsd:string ; owl:deprecated true . obo:SO_1000111 obo:IAO_0000115 "A mutation that changes the amino acid sequence of the peptide in such a way that it changes the 3D structure of the molecule."^^xsd:string ; obo:IAO_0100001 "SO:0001599"^^xsd:string ; oboInOwl:hasAlternativeId "SO:1000113"^^xsd:string, "SO:1000114"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting 3D structure of polypeptide"^^xsd:string, "sequence variant affecting 3D-structure of polypeptide"^^xsd:string, "sequence variant causing partially characterised 3D structural change"^^xsd:string, "sequence variant causing uncharacterised 3D structural change"^^xsd:string, "sequence_variant_causing_partially_characterised_3D_structural_change"^^xsd:string, "sequence_variant_causing_uncharacterised_3D_structural_change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting 3D structure of polypeptide"^^xsd:string, "mutation causing partially characterised 3D structural change"^^xsd:string, "mutation causing uncharacterised 3D structural change"^^xsd:string ; oboInOwl:id "SO:1000111"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_3D_structure_of_polypeptide"^^xsd:string ; owl:deprecated true . obo:SO_1000112 oboInOwl:hasExactSynonym "sequence variant causing no 3D structural change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing no 3D structural change"^^xsd:string ; oboInOwl:id "SO:1000112"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also as there is no effect, it is not a good term."^^xsd:string ; rdfs:label "sequence_variant_causing_no_3D_structural_change"^^xsd:string ; owl:deprecated true . obo:SO_1000113 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_1000111 ; a owl:Class ; owl:deprecated true . obo:SO_1000114 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_1000111 ; a owl:Class ; owl:deprecated true . obo:SO_1000115 obo:IAO_0100001 "SO:0001600"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing complex 3D structural change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing complex 3D structural change"^^xsd:string ; oboInOwl:id "SO:1000115"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_complex_3D_structural_change"^^xsd:string ; owl:deprecated true . obo:SO_1000116 obo:IAO_0100001 "SO:0001601"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing conformational change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing conformational change"^^xsd:string ; oboInOwl:id "SO:1000116"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_conformational_change"^^xsd:string ; owl:deprecated true . obo:SO_1000117 obo:IAO_0100001 "SO:0001554"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting polypeptide function"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting polypeptide function"^^xsd:string ; oboInOwl:id "SO:1000117"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_polypeptide_function"^^xsd:string ; owl:deprecated true . obo:SO_1000118 obo:IAO_0100001 "SO:0001559"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing loss of function of polypeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "loss of function of polypeptide"^^xsd:string, "mutation causing loss of function of polypeptide"^^xsd:string ; oboInOwl:id "SO:1000118"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_loss_of_function_of_polypeptide"^^xsd:string ; owl:deprecated true . obo:SO_1000119 obo:IAO_0100001 "SO:0001560"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing inactive ligand binding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing inactive ligand binding site"^^xsd:string ; oboInOwl:id "SO:1000119"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_inactive_ligand_binding_site"^^xsd:string ; owl:deprecated true . obo:SO_1000120 obo:IAO_0100001 "SO:0001618"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing inactive catalytic site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing inactive catalytic site"^^xsd:string ; oboInOwl:id "SO:1000120"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_inactive_catalytic_site"^^xsd:string ; owl:deprecated true . obo:SO_1000121 obo:IAO_0100001 "SO:0001558"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing polypeptide localization change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing polypeptide localization change"^^xsd:string ; oboInOwl:id "SO:1000121"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_polypeptide_localization_change"^^xsd:string ; owl:deprecated true . obo:SO_1000122 obo:IAO_0100001 "SO:0001562"^^xsd:string ; oboInOwl:hasExactSynonym "polypeptide post-translational processing affected"^^xsd:string, "sequence variant causing polypeptide post translational processing change"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing polypeptide post translational processing change"^^xsd:string ; oboInOwl:id "SO:1000122"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_polypeptide_post_translational_processing_change"^^xsd:string ; owl:deprecated true . obo:SO_1000123 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "polypeptide_post-translational_processing_affected"^^xsd:string ; oboInOwl:id "SO:1000123"^^xsd:string ; a owl:Class ; rdfs:label "polypeptide_post_translational_processing_affected"^^xsd:string ; owl:deprecated true . obo:SO_1000124 obo:IAO_0100001 "SO:0001561"^^xsd:string ; oboInOwl:hasExactSynonym "partial loss of function of polypeptide"^^xsd:string, "sequence variant causing partial loss of function of polypeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing partial loss of function of polypeptide"^^xsd:string ; oboInOwl:id "SO:1000124"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_partial_loss_of_function_of_polypeptide"^^xsd:string ; owl:deprecated true . obo:SO_1000125 obo:IAO_0100001 "SO:0001557"^^xsd:string ; oboInOwl:hasExactSynonym "gain of function of polypeptide"^^xsd:string, "sequence variant causing gain of function of polypeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing gain of function of polypeptide"^^xsd:string ; oboInOwl:id "SO:1000125"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_gain_of_function_of_polypeptide"^^xsd:string ; owl:deprecated true . obo:SO_1000126 obo:IAO_0000115 "A sequence variant that affects the secondary structure (folding) of the RNA transcript molecule."^^xsd:string ; obo:IAO_0100001 "SO:0001596"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting transcript secondary structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting transcript secondary structure"^^xsd:string ; oboInOwl:id "SO:1000126"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_transcript_secondary_structure"^^xsd:string ; owl:deprecated true . obo:SO_1000127 obo:IAO_0100001 "SO:0001597"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing compensatory transcript secondary structure mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing compensatory transcript secondary structure mutation"^^xsd:string ; oboInOwl:id "SO:1000127"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_compensatory_transcript_secondary_structure_mutation"^^xsd:string ; owl:deprecated true . obo:SO_1000132 obo:IAO_0000115 "The effect of a change in nucleotide sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "sequence variant effect"^^xsd:string ; oboInOwl:id "SO:1000132"^^xsd:string ; a owl:Class ; rdfs:comment """OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Updated after discussion with Peter Taschner - Feb 09."""^^xsd:string ; rdfs:label "sequence_variant_effect"^^xsd:string ; owl:deprecated true . obo:SO_1000134 obo:IAO_0100001 "SO:0001616"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing polypeptide fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing polypeptide fusion"^^xsd:string ; oboInOwl:id "SO:1000134"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_polypeptide_fusion"^^xsd:string ; owl:deprecated true . obo:SO_1000136 obo:IAO_0000115 "An autosynaptic chromosome is the aneuploid product of recombination between a pericentric inversion and a cytologically wild-type chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "autosynaptic chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)A"^^xsd:string ; oboInOwl:id "SO:1000136"^^xsd:string ; a owl:Class ; rdfs:label "autosynaptic_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_1000138 obo:IAO_0000115 "A compound chromosome whereby two copies of the same chromosomal arm attached to a common centromere. The chromosome is diploid for the arm involved."^^xsd:string ; oboInOwl:hasExactSynonym "homo compound chromosome"^^xsd:string, "homo-compound chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000138"^^xsd:string ; a owl:Class ; rdfs:label "homo_compound_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000042 . obo:SO_1000140 obo:IAO_0000115 "A compound chromosome whereby two arms from different chromosomes are connected through the centromere of one of them."^^xsd:string ; oboInOwl:hasExactSynonym "hetero compound chromosome"^^xsd:string, "hetero-compound chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000140"^^xsd:string ; a owl:Class ; rdfs:label "hetero_compound_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000042 . obo:SO_1000141 obo:IAO_0000115 "A chromosome that occurred by the division of a larger chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "chromosome fission"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000141"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_fission"^^xsd:string ; rdfs:subClassOf obo:SO_1000028 . obo:SO_1000142 obo:IAO_0000115 "An autosynaptic chromosome carrying the two right (D = dextro) telomeres."^^xsd:string ; oboInOwl:hasExactSynonym "dextrosynaptic chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000142"^^xsd:string ; a owl:Class ; rdfs:comment "Corrected spelling from dexstrosynaptic_chromosome to dextrosynaptic_chromosome on April 14, 2020 in response to GitHub request #447"^^xsd:string ; rdfs:label "dextrosynaptic_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000136 . obo:SO_1000143 obo:IAO_0000115 "LS is an autosynaptic chromosome carrying the two left (L = levo) telomeres."^^xsd:string ; oboInOwl:hasExactSynonym "laevosynaptic chromosome"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000143"^^xsd:string ; a owl:Class ; rdfs:label "laevosynaptic_chromosome"^^xsd:string ; rdfs:subClassOf obo:SO_1000136 . obo:SO_1000144 obo:IAO_0000115 "A chromosome structure variation whereby the duplicated sequences are carried as a free centric element."^^xsd:string ; oboInOwl:hasExactSynonym "free duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000144"^^xsd:string ; a owl:Class ; rdfs:label "free_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000037 . obo:SO_1000145 obo:IAO_0000115 "A ring chromosome which is a copy of another chromosome."^^xsd:string ; oboInOwl:hasExactSynonym "free ring duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)R"^^xsd:string ; oboInOwl:id "SO:1000145"^^xsd:string ; a owl:Class ; rdfs:label "free_ring_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000045, obo:SO_1000144, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001516 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000045 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0001516 ] ) ] . obo:SO_1000146 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_0001784 ; a owl:Class ; owl:deprecated true . obo:SO_1000147 obo:IAO_0000115 "A chromosomal deletion whereby a translocation occurs in which one of the four broken ends loses a segment before re-joining."^^xsd:string ; oboInOwl:hasExactSynonym "deficient translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Df"^^xsd:string, "(Drosophila)DfT"^^xsd:string ; oboInOwl:id "SO:1000147"^^xsd:string ; a owl:Class ; rdfs:label "deficient_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_1000029, obo:SO_1000044, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000159 ] . obo:SO_1000148 obo:IAO_0000115 "A chromosomal translocation whereby the first two breaks are in the same chromosome, and the region between them is rejoined in inverted order to the other side of the first break, such that both sides of break one are present on the same chromosome. The remaining free ends are joined as a translocation with those resulting from the third break."^^xsd:string ; oboInOwl:hasExactSynonym "inversion cum translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)InT"^^xsd:string, "(Drosophila)T"^^xsd:string ; oboInOwl:id "SO:1000148"^^xsd:string ; a owl:Class ; rdfs:label "inversion_cum_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_1000030, obo:SO_1000044, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000036 ] . obo:SO_1000149 obo:IAO_0000115 "An interchromosomal mutation whereby the (large) region between the first two breaks listed is lost, and the two flanking segments (one of them centric) are joined as a translocation to the free ends resulting from the third break."^^xsd:string ; oboInOwl:hasExactSynonym "bipartite duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)bDp"^^xsd:string ; oboInOwl:id "SO:1000149"^^xsd:string ; a owl:Class ; rdfs:label "bipartite_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000031, obo:SO_1000038 . obo:SO_1000150 obo:IAO_0000115 "A chromosomal translocation whereby three breaks occurred in three different chromosomes. The centric segment resulting from the first break listed is joined to the acentric segment resulting from the second, rather than the third."^^xsd:string ; oboInOwl:hasExactSynonym "cyclic translocation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000150"^^xsd:string ; a owl:Class ; rdfs:label "cyclic_translocation"^^xsd:string ; rdfs:subClassOf obo:SO_0002060 . obo:SO_1000151 obo:IAO_0000115 "A chromosomal inversion caused by three breaks in the same chromosome; both central segments are inverted in place (i.e., they are not transposed)."^^xsd:string ; oboInOwl:hasExactSynonym "bipartite inversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)bIn"^^xsd:string ; oboInOwl:id "SO:1000151"^^xsd:string ; a owl:Class ; rdfs:label "bipartite_inversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000030 . obo:SO_1000152 obo:IAO_0000115 "An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments."^^xsd:string ; oboInOwl:hasExactSynonym "uninverted insertional duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)eDp"^^xsd:string ; oboInOwl:id "SO:1000152"^^xsd:string ; a owl:Class ; rdfs:label "uninverted_insertional_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000154 . obo:SO_1000153 obo:IAO_0000115 "An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments."^^xsd:string ; oboInOwl:hasExactSynonym "inverted insertional duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)iDp"^^xsd:string ; oboInOwl:id "SO:1000153"^^xsd:string ; a owl:Class ; rdfs:label "inverted_insertional_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000154 . obo:SO_1000154 obo:IAO_0000115 "A chromosome duplication involving the insertion of a duplicated region (as opposed to a free duplication)."^^xsd:string ; oboInOwl:hasExactSynonym "insertional duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Dpp"^^xsd:string ; oboInOwl:id "SO:1000154"^^xsd:string ; a owl:Class ; rdfs:label "insertional_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000037 . obo:SO_1000155 obo:IAO_0000115 "A chromosome structure variation whereby a transposition occurred between chromosomes."^^xsd:string ; oboInOwl:hasExactSynonym "interchromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Tp"^^xsd:string ; oboInOwl:id "SO:1000155"^^xsd:string ; a owl:Class ; rdfs:label "interchromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_0000453, obo:SO_1000031 . obo:SO_1000156 obo:IAO_0000115 "An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segment."^^xsd:string ; oboInOwl:hasExactSynonym "inverted interchromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)iTp"^^xsd:string ; oboInOwl:id "SO:1000156"^^xsd:string ; a owl:Class ; rdfs:label "inverted_interchromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000155 . obo:SO_1000157 obo:IAO_0000115 "An interchromosomal transition where the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments."^^xsd:string ; oboInOwl:hasExactSynonym "uninverted interchromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)eTp"^^xsd:string ; oboInOwl:id "SO:1000157"^^xsd:string ; a owl:Class ; rdfs:label "uninverted_interchromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000155 . obo:SO_1000158 obo:IAO_0000115 "An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments."^^xsd:string ; oboInOwl:hasExactSynonym "inverted intrachromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)iTp"^^xsd:string ; oboInOwl:id "SO:1000158"^^xsd:string ; a owl:Class ; rdfs:label "inverted_intrachromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000148, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000036 ] . obo:SO_1000159 obo:IAO_0000115 "An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments."^^xsd:string ; oboInOwl:hasExactSynonym "uninverted intrachromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)eTp"^^xsd:string ; oboInOwl:id "SO:1000159"^^xsd:string ; a owl:Class ; rdfs:label "uninverted_intrachromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000041, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001514 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1000041 [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0001514 ] ) ] . obo:SO_1000160 obo:IAO_0000115 "An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded."^^xsd:string ; oboInOwl:hasExactSynonym "unoriented insertional duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)uDp"^^xsd:string ; oboInOwl:id "SO:1000160"^^xsd:string ; a owl:Class ; rdfs:comment "Flag - unknown in the definition."^^xsd:string ; rdfs:label "unoriented_insertional_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000154 . obo:SO_1000161 obo:IAO_0000115 "An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded."^^xsd:string ; oboInOwl:hasExactSynonym "unorientated interchromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)uTp"^^xsd:string ; oboInOwl:id "SO:1000161"^^xsd:string ; a owl:Class ; rdfs:comment "FLAG - term describes an unknown."^^xsd:string ; rdfs:label "unoriented_interchromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000155 . obo:SO_1000162 obo:IAO_0000115 "An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded."^^xsd:string ; oboInOwl:hasExactSynonym "unorientated intrachromosomal transposition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)uTp"^^xsd:string ; oboInOwl:id "SO:1000162"^^xsd:string ; a owl:Class ; rdfs:comment "FLAG - definition describes an unknown."^^xsd:string ; rdfs:label "unoriented_intrachromosomal_transposition"^^xsd:string ; rdfs:subClassOf obo:SO_1000041 . obo:SO_1000170 obo:IAO_0000115 "A chromosome structure variant that has not been characterized."^^xsd:string ; oboInOwl:hasExactSynonym "uncharacterized chromosomal mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000170"^^xsd:string ; a owl:Class ; rdfs:label "uncharacterized_chromosomal_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_1000183 . obo:SO_1000171 obo:IAO_0000115 "A chromosomal deletion whereby three breaks occur in the same chromosome; one central region is lost, and the other is inverted."^^xsd:string ; oboInOwl:hasExactSynonym "deficient inversion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "(Drosophila)Df"^^xsd:string, "(Drosophila)DfIn"^^xsd:string ; oboInOwl:id "SO:1000171"^^xsd:string ; a owl:Class ; rdfs:label "deficient_inversion"^^xsd:string ; rdfs:subClassOf obo:SO_1000029, obo:SO_1000030, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0000159 ], [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_1000036 ] . obo:SO_1000173 obo:IAO_0000115 "A duplication consisting of 2 identical adjacent regions."^^xsd:string ; oboInOwl:hasExactSynonym "tandem duplication"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "erverted"^^xsd:string ; oboInOwl:id "SO:1000173"^^xsd:string ; oboInOwl:inSubset so:DBVAR ; a owl:Class ; rdfs:label "tandem_duplication"^^xsd:string ; rdfs:subClassOf obo:SO_1000035 . obo:SO_1000175 obo:IAO_0000115 "A chromosome structure variant that has not been characterized fully."^^xsd:string ; oboInOwl:hasExactSynonym "partially characterized chromosomal mutation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000175"^^xsd:string ; a owl:Class ; rdfs:label "partially_characterized_chromosomal_mutation"^^xsd:string ; rdfs:subClassOf obo:SO_1000170 . obo:SO_1000177 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_1000049 ; a owl:Class ; owl:deprecated true . obo:SO_1000179 obo:IAO_0000231 obo:IAO_0000227 ; obo:IAO_0100001 obo:SO_1000049 ; a owl:Class ; owl:deprecated true . obo:SO_1000180 obo:IAO_0000115 "A sequence_variant_effect that changes the gene structure."^^xsd:string ; obo:IAO_0100001 "SO:0001564"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant affecting gene structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation affecting gene structure"^^xsd:string ; oboInOwl:id "SO:1000180"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_affecting_gene_structure"^^xsd:string ; owl:deprecated true . obo:SO_1000181 obo:IAO_0000115 "A sequence_variant_effect that changes the gene structure by causing a fusion to another gene."^^xsd:string ; obo:IAO_0100001 "SO:0001565"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing gene fusion"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causing gene fusion"^^xsd:string ; oboInOwl:id "SO:1000181"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_gene_fusion"^^xsd:string ; owl:deprecated true . obo:SO_1000182 obo:IAO_0000115 "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number."^^xsd:string ; oboInOwl:hasExactSynonym "Jannovar:chromosome_number_variation"^^xsd:string, "chromosome number variation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000182"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_number_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0000240 . obo:SO_1000183 obo:IAO_0000115 "An alteration of the genome that leads to a change in the structure or number of one or more chromosomes."^^xsd:string ; oboInOwl:hasDbXref "http://snpeff.sourceforge.net/SnpEff_manual.html"^^xsd:string ; oboInOwl:hasExactSynonym "chromosome structure variation"^^xsd:string, "snpEff:CHROMOSOME_LARGE_DELETION"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000183"^^xsd:string ; a owl:Class ; rdfs:label "chromosome_structure_variation"^^xsd:string ; rdfs:subClassOf obo:SO_0000240 . obo:SO_1000184 obo:IAO_0000115 "A sequence variant affecting splicing and causes an exon loss."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causes exon loss"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causes exon loss"^^xsd:string ; oboInOwl:id "SO:1000184"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causes_exon_loss"^^xsd:string ; owl:deprecated true . obo:SO_1000185 obo:IAO_0000115 "A sequence variant effect, causing an intron to be gained by the processed transcript; usually a result of a donor acceptor mutation (SO:1000072)."^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causes intron gain"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "mutation causes intron gain"^^xsd:string ; oboInOwl:id "SO:1000185"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causes_intron_gain"^^xsd:string ; owl:deprecated true . obo:SO_1000186 obo:IAO_0100001 "SO:0001571"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing cryptic splice donor activation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1000186"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_cryptic_splice_donor_activation"^^xsd:string ; owl:deprecated true . obo:SO_1001186 obo:IAO_0100001 "SO:0001570"^^xsd:string ; oboInOwl:hasExactSynonym "sequence variant causing cryptic splice acceptor activation"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001186"^^xsd:string ; a owl:Class ; rdfs:comment "OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect."^^xsd:string ; rdfs:label "sequence_variant_causing_cryptic_splice_acceptor_activation"^^xsd:string ; owl:deprecated true . obo:SO_1001187 obo:IAO_0000115 "A transcript that is alternatively spliced."^^xsd:string ; oboInOwl:hasExactSynonym "alternatively spliced transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001187"^^xsd:string ; a owl:Class ; rdfs:label "alternatively_spliced_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000673, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000877 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000673 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000877 ] ) ] . obo:SO_1001188 obo:IAO_0000115 "A gene that is alternately spliced, but encodes only one polypeptide."^^xsd:string ; oboInOwl:hasExactSynonym "encodes 1 polypeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001188"^^xsd:string ; a owl:Class ; rdfs:label "encodes_1_polypeptide"^^xsd:string ; rdfs:subClassOf obo:SO_0000463 . obo:SO_1001189 obo:IAO_0000115 "A gene that is alternately spliced, and encodes more than one polypeptide."^^xsd:string ; oboInOwl:hasExactSynonym "encodes greater than 1 polypeptide"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001189"^^xsd:string ; a owl:Class ; rdfs:label "encodes_greater_than_1_polypeptide"^^xsd:string ; rdfs:subClassOf obo:SO_0000463 . obo:SO_1001190 obo:IAO_0000115 "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different stop codons."^^xsd:string ; oboInOwl:hasExactSynonym "encodes different polypeptides different stop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001190"^^xsd:string ; a owl:Class ; rdfs:label "encodes_different_polypeptides_different_stop"^^xsd:string ; rdfs:subClassOf obo:SO_1001195 . obo:SO_1001191 obo:IAO_0000115 "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start codons."^^xsd:string ; oboInOwl:hasExactSynonym "encodes overlapping peptides different start"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001191"^^xsd:string ; a owl:Class ; rdfs:label "encodes_overlapping_peptides_different_start"^^xsd:string ; rdfs:subClassOf obo:SO_1001195 . obo:SO_1001192 obo:IAO_0000115 "A gene that is alternately spliced, and encodes more than one polypeptide, that do not have overlapping peptide sequences."^^xsd:string ; oboInOwl:hasExactSynonym "encodes disjoint polypeptides"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001192"^^xsd:string ; a owl:Class ; rdfs:label "encodes_disjoint_polypeptides"^^xsd:string ; rdfs:subClassOf obo:SO_1001189 . obo:SO_1001193 obo:IAO_0000115 "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start and stop codons."^^xsd:string ; oboInOwl:hasExactSynonym "encodes overlapping polypeptides different start and stop"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001193"^^xsd:string ; a owl:Class ; rdfs:label "encodes_overlapping_polypeptides_different_start_and_stop"^^xsd:string ; rdfs:subClassOf obo:SO_1001195 . obo:SO_1001194 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001194"^^xsd:string ; a owl:Class ; rdfs:label "alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping"^^xsd:string ; owl:deprecated true . obo:SO_1001195 obo:IAO_0000115 "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences."^^xsd:string ; oboInOwl:hasExactSynonym "encodes overlapping peptides"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001195"^^xsd:string ; a owl:Class ; rdfs:label "encodes_overlapping_peptides"^^xsd:string ; rdfs:subClassOf obo:SO_1001189 . obo:SO_1001196 obo:IAO_0000115 "A maxicircle gene so extensively edited that it cannot be matched to its edited mRNA sequence."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001196"^^xsd:string ; a owl:Class ; rdfs:label "cryptogene"^^xsd:string ; rdfs:subClassOf obo:SO_0000654, obo:SO_0001431, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000976 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000654 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000976 ] ) ] . obo:SO_1001197 obo:IAO_0000115 "A primary transcript that has the quality dicistronic."^^xsd:string ; oboInOwl:hasExactSynonym "dicistronic primary transcript"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001197"^^xsd:string ; a owl:Class ; rdfs:label "dicistronic_primary_transcript"^^xsd:string ; rdfs:subClassOf obo:SO_0000079, obo:SO_0000631, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000879 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000185 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000879 ] ) ] . obo:SO_1001217 obo:IAO_0000115 "A gene that is a member of a group of genes that are either regulated or transcribed together."^^xsd:string ; oboInOwl:hasExactSynonym "member of regulon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001217"^^xsd:string ; a owl:Class ; rdfs:label "member_of_regulon"^^xsd:string ; rdfs:subClassOf obo:SO_0000081 . obo:SO_1001244 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non-overlapping"^^xsd:string ; oboInOwl:id "SO:1001244"^^xsd:string ; a owl:Class ; rdfs:label "alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping"^^xsd:string ; owl:deprecated true . obo:SO_1001246 obo:IAO_0000115 "A CDS with the evidence status of being independently known."^^xsd:string ; oboInOwl:hasExactSynonym "CDS independently known"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001246"^^xsd:string ; a owl:Class ; rdfs:label "CDS_independently_known"^^xsd:string ; rdfs:subClassOf obo:SO_0000316, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000906 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000316 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000906 ] ) ] . obo:SO_1001247 obo:IAO_0000115 "A CDS whose predicted amino acid sequence is unsupported by any experimental evidence or by any match with any other known sequence."^^xsd:string ; oboInOwl:hasExactSynonym "orphan CDS"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001247"^^xsd:string ; a owl:Class ; rdfs:label "orphan_CDS"^^xsd:string ; rdfs:subClassOf obo:SO_1001254, [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000910 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1001254 [ a owl:Restriction ; owl:onProperty so:has_origin ; owl:someValuesFrom obo:SO_0000910 ] ) ] . obo:SO_1001249 obo:IAO_0000115 "A CDS that is supported by domain similarity."^^xsd:string ; oboInOwl:hasExactSynonym "CDS supported by domain match data"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001249"^^xsd:string ; a owl:Class ; rdfs:label "CDS_supported_by_domain_match_data"^^xsd:string ; rdfs:subClassOf obo:SO_1001251, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000908 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1001251 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000908 ] ) ] . obo:SO_1001251 obo:IAO_0000115 "A CDS that is supported by sequence similarity data."^^xsd:string ; oboInOwl:hasExactSynonym "CDS supported by sequence similarity data"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001251"^^xsd:string ; a owl:Class ; rdfs:label "CDS_supported_by_sequence_similarity_data"^^xsd:string ; rdfs:subClassOf obo:SO_1001254, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000907 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000316 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000907 ] ) ] . obo:SO_1001254 obo:IAO_0000115 "A CDS that is predicted."^^xsd:string ; oboInOwl:hasExactSynonym "CDS predicted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001254"^^xsd:string ; a owl:Class ; rdfs:label "CDS_predicted"^^xsd:string ; rdfs:subClassOf obo:SO_0000316, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000732 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000316 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000732 ] ) ] . obo:SO_1001255 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001255"^^xsd:string ; a owl:Class ; rdfs:label "status_of_coding_sequence"^^xsd:string ; owl:deprecated true . obo:SO_1001259 obo:IAO_0000115 "A CDS that is supported by similarity to EST or cDNA data."^^xsd:string ; oboInOwl:hasExactSynonym "CDS supported by EST or cDNA data"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001259"^^xsd:string ; a owl:Class ; rdfs:label "CDS_supported_by_EST_or_cDNA_data"^^xsd:string ; rdfs:subClassOf obo:SO_1001251, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000909 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_1001251 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000909 ] ) ] . obo:SO_1001260 obo:IAO_0000115 "A Shine-Dalgarno sequence that stimulates recoding through interactions with the anti-Shine-Dalgarno in the RNA of small ribosomal subunits of translating ribosomes. The signal is only operative in Bacteria."^^xsd:string ; oboInOwl:hasExactSynonym "internal Shine Dalgarno sequence"^^xsd:string, "internal Shine-Dalgarno sequence"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001260"^^xsd:string ; a owl:Class ; rdfs:label "internal_Shine_Dalgarno_sequence"^^xsd:string ; rdfs:subClassOf obo:SO_0000243, obo:SO_1001268 . obo:SO_1001261 obo:IAO_0000115 "The sequence of a mature mRNA transcript, modified before translation or during translation, usually by special cis-acting signals."^^xsd:string ; oboInOwl:hasExactSynonym "recoded mRNA"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001261"^^xsd:string ; a owl:Class ; rdfs:label "recoded_mRNA"^^xsd:string ; rdfs:subClassOf obo:SO_0000234, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000881 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000881 ] ) ] . obo:SO_1001262 obo:IAO_0000115 "An attribute describing a translational frameshift of -1."^^xsd:string ; oboInOwl:hasExactSynonym "minus 1 translationally frameshifted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001262"^^xsd:string ; a owl:Class ; rdfs:label "minus_1_translationally_frameshifted"^^xsd:string ; rdfs:subClassOf obo:SO_0000887 . obo:SO_1001263 obo:IAO_0000115 "An attribute describing a translational frameshift of +1."^^xsd:string ; oboInOwl:hasExactSynonym "plus 1 translationally frameshifted"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001263"^^xsd:string ; a owl:Class ; rdfs:label "plus_1_translationally_frameshifted"^^xsd:string ; rdfs:subClassOf obo:SO_0000887 . obo:SO_1001264 obo:IAO_0000115 "A recoded_mRNA where translation was suspended at a particular codon and resumed at a particular non-overlapping downstream codon."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA recoded by translational bypass"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001264"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_recoded_by_translational_bypass"^^xsd:string ; rdfs:subClassOf obo:SO_1001261, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000886 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000886 ] ) ] . obo:SO_1001265 obo:IAO_0000115 "A recoded_mRNA that was modified by an alteration of codon meaning."^^xsd:string ; oboInOwl:hasExactSynonym "mRNA recoded by codon redefinition"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001265"^^xsd:string ; a owl:Class ; rdfs:label "mRNA_recoded_by_codon_redefinition"^^xsd:string ; rdfs:subClassOf obo:SO_1001261, [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000882 ] ; owl:equivalentClass [ a owl:Class ; owl:intersectionOf (obo:SO_0000234 [ a owl:Restriction ; owl:onProperty so:has_quality ; owl:someValuesFrom obo:SO_0000882 ] ) ] . obo:SO_1001266 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001266"^^xsd:string ; a owl:Class ; rdfs:label "stop_codon_redefinition_as_selenocysteine"^^xsd:string ; owl:deprecated true . obo:SO_1001267 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001267"^^xsd:string ; a owl:Class ; rdfs:label "stop_codon_readthrough"^^xsd:string ; owl:deprecated true . obo:SO_1001268 obo:IAO_0000115 "A site in an mRNA sequence that stimulates the recoding of a region in the same mRNA."^^xsd:string ; oboInOwl:hasBroadSynonym "INSDC_feature:regulatory"^^xsd:string ; oboInOwl:hasExactSynonym "INSDC_qualifier:recoding_stimulatory_region"^^xsd:string, "recoding stimulatory region"^^xsd:string, "recoding stimulatory signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001268"^^xsd:string ; a owl:Class ; rdfs:label "recoding_stimulatory_region"^^xsd:string ; rdfs:subClassOf obo:SO_0000836 . obo:SO_1001269 obo:IAO_0000115 "A non-canonical start codon with 4 base pairs."^^xsd:string ; oboInOwl:hasExactSynonym "4bp start codon"^^xsd:string, "four bp start codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001269"^^xsd:string ; a owl:Class ; rdfs:label "four_bp_start_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000680 . obo:SO_1001270 oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001270"^^xsd:string ; a owl:Class ; rdfs:label "stop_codon_redefinition_as_pyrrolysine"^^xsd:string ; owl:deprecated true . obo:SO_1001271 obo:IAO_0000115 "An intron characteristic of Archaeal tRNA and rRNA genes, where intron transcript generates a bulge-helix-bulge motif that is recognised by a splicing endoribonuclease."^^xsd:string ; oboInOwl:hasExactSynonym "archaeal intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001271"^^xsd:string ; a owl:Class ; rdfs:comment "Intron characteristic of tRNA genes; splices by an endonuclease-ligase mediated mechanism."^^xsd:string ; rdfs:label "archaeal_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0001216 . obo:SO_1001272 obo:IAO_0000115 "An intron found in tRNA that is spliced via endonucleolytic cleavage and ligation rather than transesterification."^^xsd:string ; oboInOwl:hasExactSynonym "pre-tRNA intron"^^xsd:string, "tRNA intron"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001272"^^xsd:string ; a owl:Class ; rdfs:comment "Could be a cross product with Gene ontology, GO:0006388."^^xsd:string ; rdfs:label "tRNA_intron"^^xsd:string ; rdfs:subClassOf obo:SO_0001216 . obo:SO_1001273 obo:IAO_0000115 "A non-canonical start codon of sequence CTG."^^xsd:string ; oboInOwl:hasExactSynonym "CTG start codon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001273"^^xsd:string ; a owl:Class ; rdfs:label "CTG_start_codon"^^xsd:string ; rdfs:subClassOf obo:SO_0000680 . obo:SO_1001274 obo:IAO_0000115 "The incorporation of selenocysteine into a protein sequence is directed by an in-frame UGA codon (usually a stop codon) within the coding region of the mRNA. Selenoprotein mRNAs contain a conserved secondary structure in the 3' UTR that is required for the distinction of UGA stop from UGA selenocysteine. The selenocysteine insertion sequence (SECIS) is around 60 nt in length and adopts a hairpin structure which is sufficiently well-defined and conserved to act as a computational screen for selenoprotein genes."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/SECIS_element"^^xsd:string ; oboInOwl:hasExactSynonym "SECIS element"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001274"^^xsd:string ; a owl:Class ; rdfs:label "SECIS_element"^^xsd:string ; rdfs:subClassOf obo:SO_1001268 . obo:SO_1001275 obo:IAO_0000115 "Sequence coding for a short, single-stranded, DNA sequence via a retrotransposed RNA intermediate; characteristic of some microbial genomes."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001275"^^xsd:string ; a owl:Class ; rdfs:label "retron"^^xsd:string ; rdfs:subClassOf obo:SO_0001411 . obo:SO_1001277 obo:IAO_0000115 "The recoding stimulatory signal located downstream of the recoding site."^^xsd:string ; oboInOwl:hasExactSynonym "three prime recoding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001277"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_recoding_site"^^xsd:string ; rdfs:subClassOf obo:SO_1001268 . obo:SO_1001279 obo:IAO_0000115 "A recoding stimulatory region, the stem-loop secondary structural element is downstream of the redefined region."^^xsd:string ; oboInOwl:hasExactSynonym "three prime stem loop structure"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001279"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_stem_loop_structure"^^xsd:string ; rdfs:subClassOf obo:SO_1001277 . obo:SO_1001280 obo:IAO_0000115 "The recoding stimulatory signal located upstream of the recoding site."^^xsd:string ; oboInOwl:hasExactSynonym "five prime recoding site"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001280"^^xsd:string ; a owl:Class ; rdfs:label "five_prime_recoding_site"^^xsd:string ; rdfs:subClassOf obo:SO_1001268 . obo:SO_1001281 obo:IAO_0000115 "Four base pair sequence immediately downstream of the redefined region. The redefined region is a frameshift site. The quadruplet is 2 overlapping codons."^^xsd:string ; oboInOwl:hasExactSynonym "flanking three prime quadruplet recoding signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001281"^^xsd:string ; a owl:Class ; rdfs:label "flanking_three_prime_quadruplet_recoding_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001277 . obo:SO_1001282 obo:IAO_0000115 "A stop codon signal for a UAG stop codon redefinition."^^xsd:string ; oboInOwl:hasExactSynonym "UAG stop codon signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001282"^^xsd:string ; a owl:Class ; rdfs:label "UAG_stop_codon_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001288 . obo:SO_1001283 obo:IAO_0000115 "A stop codon signal for a UAA stop codon redefinition."^^xsd:string ; oboInOwl:hasExactSynonym "UAA stop codon signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001283"^^xsd:string ; a owl:Class ; rdfs:label "UAA_stop_codon_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001288 . obo:SO_1001284 obo:IAO_0000115 "A set of units of gene expression directly regulated by a common set of one or more common regulatory gene products."^^xsd:string ; oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Regulon"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001284"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:comment "Definition updated with Mejia-Almonte et.al PMID:32665585 on Aug 5, 2020. Added relationship has_part SO:0002300"^^xsd:string ; rdfs:label "regulon"^^xsd:string ; rdfs:subClassOf obo:SO_0005855, [ a owl:Restriction ; owl:onProperty so:has_part ; owl:someValuesFrom obo:SO_0002300 ] . obo:SO_1001285 obo:IAO_0000115 "A stop codon signal for a UGA stop codon redefinition."^^xsd:string ; oboInOwl:hasExactSynonym "UGA stop codon signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001285"^^xsd:string ; a owl:Class ; rdfs:label "UGA_stop_codon_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001288 . obo:SO_1001286 obo:IAO_0000115 "A recoding stimulatory signal, downstream sequence important for recoding that contains repetitive elements."^^xsd:string ; oboInOwl:hasExactSynonym "three prime repeat recoding signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001286"^^xsd:string ; a owl:Class ; rdfs:label "three_prime_repeat_recoding_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001277 . obo:SO_1001287 obo:IAO_0000115 "A recoding signal that is found many hundreds of nucleotides 3' of a redefined stop codon."^^xsd:string ; oboInOwl:hasExactSynonym "distant three prime recoding signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001287"^^xsd:string ; a owl:Class ; rdfs:label "distant_three_prime_recoding_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001277 . obo:SO_1001288 obo:IAO_0000115 "A recoding stimulatory signal that is a stop codon and has effect on efficiency of recoding."^^xsd:string ; oboInOwl:hasExactSynonym "stop codon signal"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:1001288"^^xsd:string ; a owl:Class ; rdfs:comment "This term does not include the stop codons that are redefined. An example would be a stop codon that partially overlapped a frame shifting site would be an example stimulatory signal."^^xsd:string ; rdfs:label "stop_codon_signal"^^xsd:string ; rdfs:subClassOf obo:SO_1001268 . obo:SO_2000061 obo:IAO_0000115 "The sequence referred to by an entry in a databank such as GenBank or SwissProt."^^xsd:string ; oboInOwl:hasExactSynonym "databank entry"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:hasRelatedSynonym "accession"^^xsd:string ; oboInOwl:id "SO:2000061"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:Class ; rdfs:label "databank_entry"^^xsd:string ; rdfs:subClassOf obo:SO_0000695 . obo:SO_3000000 obo:IAO_0000115 "A gene component region which acts as a recombinational unit of a gene whose functional form is generated through somatic recombination."^^xsd:string ; oboInOwl:hasExactSynonym "gene segment"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "SO:3000000"^^xsd:string ; a owl:Class ; rdfs:comment "Requested by tracker 2021594, July 2008, by Alex."^^xsd:string ; rdfs:label "gene_segment"^^xsd:string ; rdfs:subClassOf obo:SO_0000842 . so:AAMOD a owl:AnnotationProperty ; rdfs:label "amino acid modification"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:AGR a owl:AnnotationProperty ; rdfs:label "Alliance of Genome Resources"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:Alliance_of_Genome_Resources a owl:AnnotationProperty ; rdfs:comment "Alliance of Genome Resources Gene Biotype Slim"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SubsetProperty . so:BS a owl:AnnotationProperty ; rdfs:label "biosapiens"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:DBVAR a owl:AnnotationProperty ; rdfs:comment "database of genomic structural variation"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SubsetProperty . so:RNAMOD oboInOwl:hasScope oboInOwl:hasExactSynonym ; a owl:AnnotationProperty ; rdfs:label "RNA modification"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:SOFA a owl:AnnotationProperty ; rdfs:comment "SO feature annotation"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SubsetProperty . so:VAR a owl:AnnotationProperty ; rdfs:label "variant annotation term"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:aa1 a owl:AnnotationProperty ; rdfs:label "amino acid 1 letter code"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:aa3 a owl:AnnotationProperty ; rdfs:label "amino acid 3 letter code"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:adjacent_to obo:IAO_0000115 "A geometric operator, specified in Egenhofer 1989. Two features meet if they share a junction on the sequence. X adjacent_to Y iff X and Y share a boundary but do not overlap."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "adjacent_to"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty ; rdfs:label "adjacent_to"^^xsd:string . so:associated_with oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "associated_with"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "This relationship is vague and up for discussion."^^xsd:string ; rdfs:label "associated_with"^^xsd:string . so:biosapiens a owl:AnnotationProperty ; rdfs:comment "biosapiens protein feature ontology"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SubsetProperty . so:complete_evidence_for_feature obo:IAO_0000115 "B is complete_evidence_for_feature A if the extent (5' and 3' boundaries) and internal boundaries of B fully support the extent and internal boundaries of A."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "complete_evidence_for_feature"^^xsd:string ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:comment "If A is a feature with multiple regions such as a multi exon transcript, the supporting EST evidence is complete if each of the regions is supported by an equivalent region in B. Also there must be no extra regions in B that are not represented in A. This relationship was requested by jeltje on the SO term tracker. The thread for the discussion is available can be accessed via tracker ID:1917222."^^xsd:string ; rdfs:label "complete_evidence_for_feature"^^xsd:string ; rdfs:subPropertyOf so:evidence_for_feature . so:connects_on obo:IAO_0000115 "X connects_on Y, Z, R iff whenever Z is on a R, X is adjacent to a Y and adjacent to a Z."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:38:51Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "connects_on"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: A splice_junction connects_on exon, exon, mature_transcript."^^xsd:string ; rdfs:label "connects_on"^^xsd:string . so:contained_by obo:IAO_0000115 "X contained_by Y iff X starts after start of Y and X ends before end of Y."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:26:16Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "contained_by"^^xsd:string ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:comment "The inverse is contains. Example: intein contained_by immature_peptide_region."^^xsd:string ; rdfs:label "contained_by"^^xsd:string . so:contains obo:IAO_0000115 "The inverse of contained_by."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:32:15Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "contains"^^xsd:string ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:comment "Example: pre_miRNA contains miRNA_loop."^^xsd:string ; rdfs:label "contains"^^xsd:string . so:dbsnp a owl:AnnotationProperty ; rdfs:label "dbsnp variant terms"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:dbvar a owl:AnnotationProperty ; rdfs:label "DBVAR"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:derives_from oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "derives_from"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:label "derives_from"^^xsd:string . so:disconnected_from obo:IAO_0000115 "X is disconnected_from Y iff it is not the case that X overlaps Y."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:42:10Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "disconnected_from"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "disconnected_from"^^xsd:string . so:ebi_variants a owl:AnnotationProperty ; rdfs:label "ensembl variant terms"^^xsd:string ; rdfs:subPropertyOf oboInOwl:SynonymTypeProperty . so:edited_from oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:19:45Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "edited_from"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "edited_from"^^xsd:string . so:edited_to oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:19:11Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "edited_to"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "edited_to"^^xsd:string . so:evidence_for_feature obo:IAO_0000115 "B is evidence_for_feature A, if an instance of B supports the existence of A."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "evidence_for_feature"^^xsd:string ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:comment "This relationship was requested by nlw on the SO term tracker. The thread for the discussion is available can be accessed via tracker ID:1917222."^^xsd:string ; rdfs:label "evidence_for_feature"^^xsd:string . so:exemplar_of obo:IAO_0000115 "X is exemplar of Y if X is the best evidence for Y."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "exemplar_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Tracker id: 2594157."^^xsd:string ; rdfs:label "exemplar_of"^^xsd:string . so:finished_by obo:IAO_0000115 "Xy is finished_by Y if Y part of X, and X and Y share a 3' boundary."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:45:45Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "finished_by"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example CDS finished_by stop_codon."^^xsd:string ; rdfs:label "finished_by"^^xsd:string . so:finishes obo:IAO_0000115 "X finishes Y if X is part_of Y and X and Y share a 3' or C terminal boundary."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T02:17:53Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "finishes"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: stop_codon finishes CDS."^^xsd:string ; rdfs:label "finishes"^^xsd:string . so:gained obo:IAO_0000115 "X gained Y if X is a variant_of X' and Y part of X but not X'."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-28T12:51:10Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "gained"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment """A relation with which to annotate the changes in a variant sequence with respect to a reference. For example a variant transcript may gain a stop codon not present in the reference sequence."""^^xsd:string ; rdfs:label "gained"^^xsd:string . so:genome_of oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "genome_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "genome_of"^^xsd:string . so:guided_by oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:27:04Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "guided_by"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "guided_by"^^xsd:string . so:guides oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:27:24Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "guides"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "guides"^^xsd:string . so:has_integral_part obo:IAO_0000115 "X has_integral_part Y if and only if: X has_part Y and Y part_of X."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:01:46Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "has_integral_part"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: mRNA has_integral_part CDS."^^xsd:string ; rdfs:label "has_integral_part"^^xsd:string ; rdfs:subPropertyOf so:has_part . so:has_origin oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "has_origin"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "has_origin"^^xsd:string . so:has_part obo:IAO_0000115 "Inverse of part_of."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "has_part"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: operon has_part gene."^^xsd:string ; rdfs:label "has_part"^^xsd:string . so:has_quality oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "has_quality"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "The relationship between a feature and an attribute."^^xsd:string ; rdfs:label "has_quality"^^xsd:string . so:homologous_to oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "homologous_to"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:SymmetricProperty ; rdfs:label "homologous_to"^^xsd:string ; rdfs:subPropertyOf so:similar_to . so:integral_part_of obo:IAO_0000115 "X integral_part_of Y if and only if: X part_of Y and Y has_part X."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:03:28Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "integral_part_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: exon integral_part_of transcript."^^xsd:string ; rdfs:label "integral_part_of"^^xsd:string ; rdfs:subPropertyOf so:part_of . so:is_consecutive_sequence_of obo:IAO_0000115 "R is_consecutive_sequence_of R iff every instance of R is equivalent to a collection of instances of U:u1, u2, un, such that no pair of ux uy is overlapping and for all ux, it is adjacent to ux-1 and ux+1, with the exception of the initial and terminal u1,and un (which may be identical)."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T02:19:48Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "is_consecutive_sequence_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: region is consecutive_sequence of base."^^xsd:string ; rdfs:label "is_consecutive_sequence_of"^^xsd:string . so:lost obo:IAO_0000115 "X lost Y if X is a variant_of X' and Y part of X' but not X."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2011-06-28T12:53:16Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "lost"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment """A relation with which to annotate the changes in a variant sequence with respect to a reference. For example a variant transcript may have lost a stop codon present in the reference sequence."""^^xsd:string ; rdfs:label "lost"^^xsd:string . so:maximally_overlaps obo:IAO_0000115 "A maximally_overlaps X iff all parts of A (including A itself) overlap both A and Y."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:34:48Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "maximally_overlaps"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: non_coding_region_of_exon maximally_overlaps the intersections of exon and UTR."^^xsd:string ; rdfs:label "maximally_overlaps"^^xsd:string . so:member_of oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "member_of"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:comment "A subtype of part_of. Inverse is collection_of. Winston, M, Chaffin, R, Herrmann: A taxonomy of part-whole relations. Cognitive Science 1987, 11:417-444."^^xsd:string ; rdfs:label "member_of"^^xsd:string ; rdfs:subPropertyOf so:part_of . so:non_functional_homolog_of obo:IAO_0000115 "A relationship between a pseudogenic feature and its functional ancestor."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "non_functional_homolog_of"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty ; rdfs:label "non_functional_homolog_of"^^xsd:string ; rdfs:subPropertyOf so:homologous_to . so:orthologous_to oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "orthologous_to"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:SymmetricProperty ; rdfs:label "orthologous_to"^^xsd:string ; rdfs:subPropertyOf so:homologous_to . so:overlaps obo:IAO_0000115 "X overlaps Y iff there exists some Z such that Z contained_by X and Z contained_by Y."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:33:15Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "overlaps"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: coding_exon overlaps CDS."^^xsd:string ; rdfs:label "overlaps"^^xsd:string . so:paralogous_to oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "paralogous_to"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:SymmetricProperty ; rdfs:label "paralogous_to"^^xsd:string ; rdfs:subPropertyOf so:homologous_to . so:part_of obo:IAO_0000115 "X part_of Y if X is a subregion of Y."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "part_of"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:TransitiveProperty ; rdfs:comment "Example: amino_acid part_of polypeptide."^^xsd:string ; rdfs:label "part_of"^^xsd:string . so:partial_evidence_for_feature obo:IAO_0000115 "B is partial_evidence_for_feature A if the extent of B supports part_of but not all of A."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "partial_evidence_for_feature"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "partial_evidence_for_feature"^^xsd:string ; rdfs:subPropertyOf so:evidence_for_feature . so:position_of oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "position_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "position_of"^^xsd:string . so:processed_from obo:IAO_0000115 "Inverse of processed_into."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:14:00Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "processed_from"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: miRNA processed_from miRNA_primary_transcript."^^xsd:string ; rdfs:label "processed_from"^^xsd:string . so:processed_into obo:IAO_0000115 "X is processed_into Y if a region X is modified to create Y."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:15:02Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "processed_into"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: miRNA_primary_transcript processed into miRNA."^^xsd:string ; rdfs:label "processed_into"^^xsd:string . so:recombined_from oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:21:03Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "recombined_from"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "recombined_from"^^xsd:string . so:recombined_to oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:20:07Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "recombined_to"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "recombined_to"^^xsd:string . so:sequence_of oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "sequence_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "sequence_of"^^xsd:string . so:similar_to oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "similar_to"^^xsd:string ; oboInOwl:inSubset so:SOFA ; a owl:ObjectProperty, owl:SymmetricProperty ; rdfs:label "similar_to"^^xsd:string . so:started_by obo:IAO_0000115 "X is strted_by Y if Y is part_of X and X and Y share a 5' boundary."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:43:55Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "started_by"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: CDS started_by start_codon."^^xsd:string ; rdfs:label "started_by"^^xsd:string . so:starts obo:IAO_0000115 "X starts Y if X is part of Y, and A and Y share a 5' or N-terminal boundary."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2010-10-14T01:47:53Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "starts"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: start_codon starts CDS."^^xsd:string ; rdfs:label "starts"^^xsd:string . so:trans_spliced_from oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:22:14Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "trans_spliced_from"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "trans_spliced_from"^^xsd:string . so:trans_spliced_to oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T02:22:00Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "trans_spliced_to"^^xsd:string ; a owl:ObjectProperty ; rdfs:label "trans_spliced_to"^^xsd:string . so:transcribed_from obo:IAO_0000115 "X is transcribed_from Y if X is synthesized from template Y."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:05:39Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "transcribed_from"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: primary_transcript transcribed_from gene."^^xsd:string ; rdfs:label "transcribed_from"^^xsd:string . so:transcribed_to obo:IAO_0000115 "Inverse of transcribed_from."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:08:24Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "transcribed_to"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: gene transcribed_to primary_transcript."^^xsd:string ; rdfs:label "transcribed_to"^^xsd:string . so:translates_to obo:IAO_0000115 "Inverse of translation _of."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:11:53Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "translates_to"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: codon translates_to amino_acid."^^xsd:string ; rdfs:label "translates_to"^^xsd:string . so:translation_of obo:IAO_0000115 "X is translation of Y if Y is translated by ribosome to create X."^^xsd:string ; oboInOwl:created_by "kareneilbeck"^^xsd:string ; oboInOwl:creation_date "2009-08-19T12:09:59Z"^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "translation_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Example: Polypeptide translation_of CDS."^^xsd:string ; rdfs:label "translation_of"^^xsd:string . so:variant_of obo:IAO_0000115 "A' is a variant (mutation) of A = definition every instance of A' is either an immediate mutation of some instance of A, or there is a chain of immediate mutation processes linking A' to some instance of A."^^xsd:string ; oboInOwl:hasOBONamespace "sequence"^^xsd:string ; oboInOwl:id "variant_of"^^xsd:string ; a owl:ObjectProperty ; rdfs:comment "Added to SO during the immunology workshop, June 2007. This relationship was approved by Barry Smith."^^xsd:string ; rdfs:label "variant_of"^^xsd:string . oboInOwl:auto-generated-by "OBO-Edit 2.3.1"^^xsd:string ; oboInOwl:date "12:07:2021 19:12"^^xsd:string ; oboInOwl:default-namespace "sequence"^^xsd:string ; oboInOwl:hasOBOFormatVersion "1.2"^^xsd:string ; oboInOwl:saved-by "David Sant"^^xsd:string ; a owl:Ontology ; owl:versionIRI . oboInOwl:SubsetProperty a owl:AnnotationProperty ; rdfs:label "subset_property"^^xsd:string . oboInOwl:SynonymTypeProperty a owl:AnnotationProperty ; rdfs:label "synonym_type_property"^^xsd:string . oboInOwl:auto-generated-by a owl:AnnotationProperty . oboInOwl:consider a owl:AnnotationProperty ; rdfs:label "consider"^^xsd:string . oboInOwl:created_by a owl:AnnotationProperty . oboInOwl:creation_date a owl:AnnotationProperty . oboInOwl:date a owl:AnnotationProperty . oboInOwl:default-namespace a owl:AnnotationProperty . oboInOwl:hasAlternativeId a owl:AnnotationProperty ; rdfs:label "has_alternative_id"^^xsd:string . oboInOwl:hasBroadSynonym a owl:AnnotationProperty ; rdfs:label "has_broad_synonym"^^xsd:string . oboInOwl:hasDbXref a owl:AnnotationProperty ; rdfs:label "database_cross_reference"^^xsd:string . oboInOwl:hasExactSynonym a owl:AnnotationProperty ; rdfs:label "has_exact_synonym"^^xsd:string . oboInOwl:hasNarrowSynonym a owl:AnnotationProperty ; rdfs:label "has_narrow_synonym"^^xsd:string . oboInOwl:hasOBOFormatVersion a owl:AnnotationProperty ; rdfs:label "has_obo_format_version"^^xsd:string . oboInOwl:hasOBONamespace a owl:AnnotationProperty ; rdfs:label "has_obo_namespace"^^xsd:string . oboInOwl:hasRelatedSynonym a owl:AnnotationProperty ; rdfs:label "has_related_synonym"^^xsd:string . oboInOwl:hasScope a owl:AnnotationProperty ; rdfs:label "has_scope"^^xsd:string . oboInOwl:hasSynonymType a owl:AnnotationProperty ; rdfs:label "has_synonym_type"^^xsd:string . oboInOwl:id a owl:AnnotationProperty . oboInOwl:inSubset a owl:AnnotationProperty ; rdfs:label "in_subset"^^xsd:string . oboInOwl:saved-by a owl:AnnotationProperty . rdfs:comment a owl:AnnotationProperty . rdfs:label a owl:AnnotationProperty . owl:deprecated a owl:AnnotationProperty . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:adjacent_to ; owl:annotatedTarget "A geometric operator, specified in Egenhofer 1989. Two features meet if they share a junction on the sequence. X adjacent_to Y iff X and Y share a boundary but do not overlap."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:finishes ; owl:annotatedTarget "X finishes Y if X is part_of Y and X and Y share a 3' or C terminal boundary."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000050 ; owl:annotatedTarget "A part of a gene, that has no other route in the ontology back to region. This concept is necessary for logical inference as these parts must have the properties of region. It also allows us to associate all the parts of genes with a gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000513 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000514 ; owl:annotatedTarget "9 nucleotide recombination site (e.g. GGTTTTTGT), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000515 ; owl:annotatedTarget "7 nucleotide recombination site (e.g. CACAGTG), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000516 ; owl:annotatedTarget "A non functional descendant of a transcript, part of a pseudogene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000051 ; owl:annotatedTarget "A DNA sequence used experimentally to detect the presence or absence of a complementary nucleic acid."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000517 ; owl:annotatedTarget "12 or 23 nucleotide spacer between the J-nonamer and the J-heptamer of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000518 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one DJ-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000519 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one J-gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000051 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Hybridization_probe"^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000520 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000521 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VDJ-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000522 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000053 ; owl:annotatedTarget "A sequence_variant_effect which changes the regulatory region of a gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000523 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000524 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VJ-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000525 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000054 ; owl:annotatedTarget "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000526 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one V-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000527 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one C-gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000054 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Aneuploid"^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000528 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000529 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000055 ; owl:annotatedTarget "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as extra chromosomes are present."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000530 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000531 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene and one C-gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000055 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Hyperploid"^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000532 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000533 ; owl:annotatedTarget "7 nucleotide recombination site (e.g. CACAGTG), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000534 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000535 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000056 ; owl:annotatedTarget "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as some chromosomes are missing."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000536 ; owl:annotatedTarget "9 nucleotide recombination site (e.g. ACAAAAACC), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000537 ; owl:annotatedTarget "12 or 23 nucleotide spacer between the V-heptamer and the V-nonamer of a V-gene recombination feature of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000538 ; owl:annotatedTarget "Recombination signal including V-heptamer, V-spacer and V-nonamer in 3' of V-region of a V-gene or V-sequence of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000539 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene and one C-gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000056 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Hypoploid"^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000540 ; owl:annotatedTarget "Genomic DNA in rearranged configuration including at least one D-J-GENE, one J-GENE and one C-GENE."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000541 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000542 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.pnas.org/cgi/content/full/100/11/6569"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000544 ; owl:annotatedTarget "A rolling circle transposon. Autonomous helitrons encode a 5'-to-3' DNA helicase and nuclease/ligase similar to those encoded by known rolling-circle replicons."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:gained ; owl:annotatedTarget "X gained Y if X is a variant_of X' and Y part of X but not X'."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000057 ; owl:annotatedTarget "A regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000544 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Helitron"^^xsd:string . [] oboInOwl:hasDbXref "http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=33937"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000545 ; owl:annotatedTarget "The pseudoknots involved in recoding are unique in that, as they play their role as a structure, they are immediately unfolded and their now linear sequence serves as a template for decoding."^^xsd:string . [] oboInOwl:hasDbXref "FB:km"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000547 ; owl:annotatedTarget "A chromosome generated by recombination between two inversions; there is a duplication at each end of the inversion."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000548 ; owl:annotatedTarget "A gene that encodes a transcript that is edited."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000057 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Operator_(biology)#Operator"^^xsd:string . [] oboInOwl:hasDbXref "FB:km"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000549 ; owl:annotatedTarget "A chromosome generated by recombination between two inversions; has a duplication at one end and presumed to have a deficiency or duplication at the other end of the inversion."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000550 ; owl:annotatedTarget "A chromosome structural variation whereby either a chromosome exists in addition to the normal chromosome complement or is lacking."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000551 ; owl:annotatedTarget "The recognition sequence necessary for endonuclease cleavage of an RNA transcript that is followed by polyadenylation; consensus=AATAAA."^^xsd:string . [] oboInOwl:hasDbXref "SO:jh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000552 ; owl:annotatedTarget "A region in the 5' UTR that pairs with the 16S rRNA during formation of the preinitiation complex."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000552 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Shine-Dalgarno_sequence"^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000553 ; owl:annotatedTarget "The site on an RNA transcript to which will be added adenine residues by post-transcriptional polyadenylation. The boundary between the UTR and the polyA sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000555 ; owl:annotatedTarget "5' most region of a precursor transcript that is clipped off during processing."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000556 ; owl:annotatedTarget "Recombination signal of an immunoglobulin/T-cell receptor gene, including the 5' D-nonamer (SO:0000497), 5' D-spacer (SO:0000498), and 5' D-heptamer (SO:0000396) in 5' of the D-region of a D-gene, or in 5' of the D-region of DJ-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000059 ; owl:annotatedTarget "A binding site that, of a nucleotide molecule, that interacts selectively and non-covalently with polypeptide residues of a nuclease."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000557 ; owl:annotatedTarget "3'-most region of a precursor transcript that is clipped off during processing."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000558 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene including more than one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000559 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one D-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000560 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000561 ; owl:annotatedTarget "Seven nucleotide recombination site (e.g. CACAGTG), part of V-gene, D-gene or J-gene recombination feature of an immunoglobulin or T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000061 ; owl:annotatedTarget "A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a restriction enzyme."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000564 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000565 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000566 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "FB:km"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000567 ; owl:annotatedTarget "A chromosome may be generated by recombination between two inversions; presumed to have a deficiency or duplication at each end of the inversion."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21601935"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000568 ; owl:annotatedTarget "A promoter that can allow for transcription in both directions."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000569 ; owl:annotatedTarget "An attribute of a feature that occurred as the product of a reverse transcriptase mediated event."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000569 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Retrotransposed"^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000570 ; owl:annotatedTarget "Recombination signal of an immunoglobulin/T-cell receptor gene, including the 3' D-heptamer (SO:0000493), 3' D-spacer, and 3' D-nonamer (SO:0000494) in 3' of the D-region of a D-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000572 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including D-J-region with 5' UTR and 3' UTR, also designated as D-J-segment."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000062 ; owl:annotatedTarget "An intrachromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000574 ; owl:annotatedTarget "Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-D-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205)."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000576 ; owl:annotatedTarget "Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000577 ; owl:annotatedTarget "A region of chromosome where the spindle fibers attach during mitosis and meiosis."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000577 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Centromere"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000579 ; owl:annotatedTarget "A locatable feature on a transcript that is edited."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000580 ; owl:annotatedTarget "A primary transcript encoding a methylation guide small nucleolar RNA."^^xsd:string . [] oboInOwl:hasDbXref "http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/mbglossary/mbgloss.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000581 ; owl:annotatedTarget "A structure consisting of a 7-methylguanosine in 5'-5' triphosphate linkage with the first nucleotide of an mRNA. It is added post-transcriptionally, and is not encoded in the DNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000581 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/5%27_cap"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000582 ; owl:annotatedTarget "A primary transcript encoding an rRNA cleavage snoRNA."^^xsd:string . [] oboInOwl:hasDbXref "http://dna.kdna.ucla.edu/rna/index.aspx"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000583 ; owl:annotatedTarget "The region of a transcript that will be edited."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000063 ; owl:annotatedTarget "An interchromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00023"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000584 ; owl:annotatedTarget "A tmRNA liberates a mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNAs genes have been found encoded in two parts. TmRNAs have been identified in eubacteria and some chloroplasts but are absent from archeal and Eukaryote nuclear genomes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000584 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/TmRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000586 ; owl:annotatedTarget "A primary transcript encoding a tmRNA (SO:0000584)."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00028"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000587 ; owl:annotatedTarget "Group I catalytic introns are large self-splicing ribozymes. They catalyze their own excision from mRNA, tRNA and rRNA precursors in a wide range of organisms. The core secondary structure consists of 9 paired regions (P1-P9). These fold to essentially two domains, the P4-P6 domain (formed from the stacking of P5, P4, P6 and P6a helices) and the P3-P9 domain (formed from the P8, P3, P7 and P9 helices). Group I catalytic introns often have long ORFs inserted in loop regions."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000587 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Group_I_intron"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000065 ; owl:annotatedTarget "A chromosome structure variation whereby an arm exists as an individual chromosome element."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000588 ; owl:annotatedTarget "A self spliced intron."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000589 ; owl:annotatedTarget "A primary transcript encoding a signal recognition particle RNA."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00017"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000590 ; owl:annotatedTarget "The signal recognition particle (SRP) is a universally conserved ribonucleoprotein. It is involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most eubacteria, the SRP consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Eukaryotic and archaeal 7S RNAs have very similar secondary structures, with eight helical elements. These fold into the Alu and S domains, separated by a long linker region. Eubacterial SRP is generally a simpler structure, with the M domain of Ffh bound to a region of the 4.5S RNA that corresponds to helix 8 of the eukaryotic and archaeal SRP S domain. Some Gram-positive bacteria (e.g. Bacillus subtilis), however, have a larger SRP RNA that also has an Alu domain. The Alu domain is thought to mediate the peptide chain elongation retardation function of the SRP. The universally conserved helix which interacts with the SRP54/Ffh M domain mediates signal sequence recognition. In eukaryotes and archaea, the SRP19-helix 6 complex is thought to be involved in SRP assembly and stabilizes helix 8 for SRP54 binding."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000591 ; owl:annotatedTarget "A tertiary structure in RNA where nucleotides in a loop form base pairs with a region of RNA downstream of the loop."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000591 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Pseudoknot"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=10334330&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000592 ; owl:annotatedTarget "A pseudoknot which contains two stems and at least two loops."^^xsd:string . [] oboInOwl:hasDbXref "http://www.bio.umass.edu/biochem/rna-sequence/Yeast_snoRNA_Database/snoRNA_DataBase.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000593 ; owl:annotatedTarget "Most box C/D snoRNAs also contain long (>10 nt) sequences complementary to rRNA. Boxes C and D, as well as boxes C' and D', are usually located in close proximity, and form a structure known as the box C/D motif. This motif is important for snoRNA stability, processing, nucleolar targeting and function. A small number of box C/D snoRNAs are involved in rRNA processing; most, however, are known or predicted to serve as guide RNAs in ribose methylation of rRNA. Targeting involves direct base pairing of the snoRNA at the rRNA site to be modified and selection of a rRNA nucleotide a fixed distance from box D or D'."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000068 ; owl:annotatedTarget "An attribute describing a gene that has a sequence that overlaps the sequence of another gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.bio.umass.edu/biochem/rna-sequence/Yeast_snoRNA_Database/snoRNA_DataBase.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000594 ; owl:annotatedTarget "Members of the box H/ACA family contain an ACA triplet, exactly 3 nt upstream from the 3' end and an H-box in a hinge region that links two structurally similar functional domains of the molecule. Both boxes are important for snoRNA biosynthesis and function. A few box H/ACA snoRNAs are involved in rRNA processing; most others are known or predicted to participate in selection of uridine nucleosides in rRNA to be converted to pseudouridines. Site selection is mediated by direct base pairing of the snoRNA with rRNA through one or both targeting domains."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000595 ; owl:annotatedTarget "A primary transcript encoding a small nucleolar RNA of the box C/D family."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000596 ; owl:annotatedTarget "A primary transcript encoding a small nucleolar RNA of the box H/ACA family."^^xsd:string . [] oboInOwl:hasDbXref "http://www.rna.ucla.edu/index.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000597 ; owl:annotatedTarget "The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa."^^xsd:string . [] oboInOwl:hasDbXref "http://www.rna.ucla.edu/index.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000602 ; owl:annotatedTarget "A short 3'-uridylated RNA that can form a duplex (except for its post-transcriptionally added oligo_U tail (SO:0000609)) with a stretch of mature edited mRNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000602 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Guide_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/Software/Rfam/browse/index.shtml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000603 ; owl:annotatedTarget "Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI). A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron to intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000603 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Group_II_intron"^^xsd:string . [] oboInOwl:hasDbXref "http://dna.kdna.ucla.edu/rna/index.aspx"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000604 ; owl:annotatedTarget "Edited mRNA sequence mediated by a single guide RNA (SO:0000602)."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000605 ; owl:annotatedTarget "A region containing or overlapping no genes that is bounded on either side by a gene, or bounded by a gene and the end of the chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000069 ; owl:annotatedTarget "An attribute to describe a gene when it is located within the intron of another gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000605 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Intergenic_region"^^xsd:string . [] oboInOwl:hasDbXref "http://dna.kdna.ucla.edu/rna/index.aspx"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000606 ; owl:annotatedTarget "Edited mRNA sequence mediated by two or more overlapping guide RNAs (SO:0000602)."^^xsd:string . [] oboInOwl:hasDbXref "http://dna.kdna.ucla.edu/rna/index.aspx"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000607 ; owl:annotatedTarget "The region of an edited transcript that will not be edited."^^xsd:string . [] oboInOwl:hasDbXref "http://www.rna.ucla.edu/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000609 ; owl:annotatedTarget "The string of non-encoded U's at the 3' end of a guide RNA (SO:0000602)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000610 ; owl:annotatedTarget "Sequence of about 100 nucleotides of A added to the 3' end of most eukaryotic mRNAs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000611 ; owl:annotatedTarget "A pyrimidine rich sequence near the 3' end of an intron to which the 5'end becomes covalently bound during nuclear splicing. The resulting structure resembles a lariat."^^xsd:string . [] oboInOwl:hasDbXref "http://nar.oupjournals.org/cgi/content/full/25/4/888"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000612 ; owl:annotatedTarget "The polypyrimidine tract is one of the cis-acting sequence elements directing intron removal in pre-mRNA splicing."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000612 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Polypyrimidine_tract"^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:has_integral_part ; owl:annotatedTarget "X has_integral_part Y if and only if: X has_part Y and Y part_of X."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000070 ; owl:annotatedTarget "An attribute to describe a gene when it is located within the intron of another gene and on the opposite strand."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000613 ; owl:annotatedTarget "A DNA sequence to which bacterial RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000614 ; owl:annotatedTarget "A terminator signal for bacterial transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000615 ; owl:annotatedTarget "A terminator signal for RNA polymerase III transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000616 ; owl:annotatedTarget "The base where transcription ends."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12381659"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000617 ; owl:annotatedTarget "This type of promoter recruits RNA pol III. This promoter is intragenic and includes an A box, an intermediate element, and a C box. This is well conserved in the 5s rRNA promoters across species."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12381659"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000618 ; owl:annotatedTarget "This type of promoter recruits RNA pol III to transcribe genes mainly for t-RNA. This promoter is intragenic and includes an A box and a B box."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000619 ; owl:annotatedTarget "A variably distant linear promoter region recognized by TFIIIC, with consensus sequence TGGCnnAGTGG."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000619 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/A-box"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000620 ; owl:annotatedTarget "A variably distant linear promoter region recognized by TFIIIC, with consensus sequence AGGTTCCAnnCC."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000071 ; owl:annotatedTarget "An attribute to describe a gene when it is located within the intron of another gene and on the same strand."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12381659"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000621 ; owl:annotatedTarget "This type of promoter recruits RNA pol III to transcribe predominantly noncoding RNAs. This promoter contains a proximal sequence element (PSE) and a TATA box upstream of the gene that it regulates. Transcription can also be activated by a distal sequence element (DSE), which is located further upstream. "^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000622 ; owl:annotatedTarget "An RNA polymerase III type 1 promoter with consensus sequence CAnnCCn."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000624 ; owl:annotatedTarget "A specific structure at the end of a linear chromosome, required for the integrity and maintenance of the end."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000624 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Telomere"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000625 ; owl:annotatedTarget "A regulatory region which upon binding of transcription factors, suppress the transcription of the gene or genes they control."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000625 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Silencer_(DNA)"^^xsd:string . [] oboInOwl:hasDbXref "NCBI:cf"^^xsd:string, "PMID:12154228"^^xsd:string, "SO:regcreative"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000627 ; owl:annotatedTarget "A regulatory region that 1) when located between a CRM and a gene's promoter prevents the CRM from modulating that genes expression and 2) acts as a chromatin boundary element or barrier that can block the encroachment of condensed chromatin from an adjacent region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000627 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Insulator_(genetics)"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000073 ; owl:annotatedTarget "An attribute to describe a gene when the five prime region overlaps with another gene's 3' region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12890013"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000629 ; owl:annotatedTarget "An open reading frame found within the 5' UTR that can be translated and stall the translation of the downstream open reading frame."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000630 ; owl:annotatedTarget "A start codon upstream of the ORF."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000631 ; owl:annotatedTarget "A primary transcript encoding for more than one gene product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000074 ; owl:annotatedTarget "An attribute to describe a gene when the five prime region overlaps with another gene's five prime region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000632 ; owl:annotatedTarget "A primary transcript encoding for one gene product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000075 ; owl:annotatedTarget "An attribute to describe a gene when the 3' region overlaps with another gene's 3' region."^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000633 ; owl:annotatedTarget "An mRNA with either a single protein product, or for which the regions encoding all its protein products overlap."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000633 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Monocistronic_mRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000634 ; owl:annotatedTarget "An mRNA that encodes multiple proteins from at least two non-overlapping regions."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000634 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Polycistronic_mRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000635 ; owl:annotatedTarget "A primary transcript that donates the spliced leader to other mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000076 ; owl:annotatedTarget "An attribute to describe a gene when the 3' region overlaps with another gene's 5' region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24130571"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000636 ; owl:annotatedTarget "Snall nuclear RNAs that are incorporated into the pre-mRNAs to replace the 5' end in some eukaryotes."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000637 ; owl:annotatedTarget "A plasmid that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "http://oregonstate.edu/instruction/bb492/general/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000638 ; owl:annotatedTarget "Part of an rRNA transcription unit that is transcribed but discarded during maturation, not giving rise to any part of rRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000639 ; owl:annotatedTarget "Non-coding regions of DNA sequence that separate genes coding for the 28S, 5.8S, and 18S ribosomal RNAs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000077 ; owl:annotatedTarget "A region sequence that is complementary to a sequence of messenger RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000640 ; owl:annotatedTarget "Non-coding regions of DNA that precede the sequence that codes for the ribosomal RNA."^^xsd:string . [] oboInOwl:hasDbXref "http://www.informatics.jax.org/silver/glossary.shtml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000643 ; owl:annotatedTarget "A repeat region containing tandemly repeated sequences having a unit length of 10 to 40 bp."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000643 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Minisatellite"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/books/NBK21126/def-item/A9655/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000643 ; owl:annotatedTarget "VNTR"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000644 ; owl:annotatedTarget "Antisense RNA is RNA that is transcribed from the coding, rather than the template, strand of DNA. It is therefore complementary to mRNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000644 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Antisense_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000645 ; owl:annotatedTarget "The reverse complement of the primary transcript."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12592000"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000646 ; owl:annotatedTarget "A small RNA molecule that is the product of a longer exogenous or endogenous dsRNA, which is either a bimolecular duplex or very long hairpin, processed (via the Dicer pathway) such that numerous siRNAs accumulate from both strands of the dsRNA. siRNAs trigger the cleavage of their target molecules."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000646 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/SiRNA"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000077 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Antisense"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000647 ; owl:annotatedTarget "A primary transcript encoding a micro RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000650 ; owl:annotatedTarget "Cytosolic SSU rRNA is an RNA component of the small subunit of cytosolic ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000651 ; owl:annotatedTarget "Cytosolic LSU rRNA is an RNA component of the large subunit of cytosolic ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00001"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000652 ; owl:annotatedTarget "Cytosolic 5S rRNA is an RNA component of the large subunit of cytosolic ribosomes in both prokaryotes and eukaryotes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000652 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/5S_ribosomal_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000653 ; owl:annotatedTarget "Cytosolic 28S rRNA is an RNA component of the large subunit of cytosolic ribosomes in metazoan eukaryotes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000653 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/28S_ribosomal_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000654 ; owl:annotatedTarget "A mitochondrial gene located in a maxicircle."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000655 ; owl:annotatedTarget "An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000655 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/NcRNA"^^xsd:string . [] a owl:Axiom ; rdfs:label "GENCODE"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000655 ; owl:annotatedTarget "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000657 ; owl:annotatedTarget "A region of sequence containing one or more repeat units."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000658 ; owl:annotatedTarget "A repeat that is located at dispersed sites in the genome."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000658 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Interspersed_repeat"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000662 ; owl:annotatedTarget "An intron which is spliced by the spliceosome."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11454782"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000664 ; owl:annotatedTarget "A region of a chromosome that has been introduced by backcrossing with a separate species."^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:has_part ; owl:annotatedTarget "Inverse of part_of."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000665 ; owl:annotatedTarget "A transcript that is monocistronic."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000666 ; owl:annotatedTarget "An intron (mitochondrial, chloroplast, nuclear or prokaryotic) that encodes a double strand sequence specific endonuclease allowing for mobility."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000667 ; owl:annotatedTarget "The sequence of one or more nucleotides added between two adjacent nucleotides in the sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "Insertion"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000667 ; owl:annotatedTarget "loinc:LA6687-3"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000667 ; owl:annotatedTarget "insertion"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000668 ; owl:annotatedTarget "A match against an EST sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000670 ; owl:annotatedTarget "A sequence within the micronuclear DNA of ciliates at which chromosome breakage and telomere addition occurs during nuclear differentiation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000671 ; owl:annotatedTarget "A sequence eliminated from the genome of ciliates during nuclear differentiation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000672 ; owl:annotatedTarget "A sequence that is conserved, although rearranged relative to the micronucleus, in the macronucleus of a ciliate genome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000673 ; owl:annotatedTarget "An RNA synthesized on a DNA or RNA template by an RNA polymerase."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000673 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000674 ; owl:annotatedTarget "A splice site where the donor and acceptor sites differ from the canonical form."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000675 ; owl:annotatedTarget "The major class of splice site with dinucleotides GT and AG for donor and acceptor sites, respectively."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000676 ; owl:annotatedTarget "The canonical 3' splice site has the sequence \"AG\"."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000677 ; owl:annotatedTarget "The canonical 5' splice site has the sequence \"GT\"."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000678 ; owl:annotatedTarget "A 3' splice site that does not have the sequence \"AG\"."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000679 ; owl:annotatedTarget "A 5' splice site which does not have the sequence \"GT\"."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000680 ; owl:annotatedTarget "A start codon that is not the usual AUG sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000681 ; owl:annotatedTarget "A transcript that has been processed \"incorrectly\", for example by the failure of splicing of one or more exons."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12403462&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000683 ; owl:annotatedTarget "Exonic splicing enhancers (ESEs) facilitate exon definition by assisting in the recruitment of splicing factors to the adjacent intron."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000684 ; owl:annotatedTarget "A region of nucleotide sequence targeted by a nuclease enzyme."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000686 ; owl:annotatedTarget "A chromosomal translocation whereby the chromosomes carrying non-homologous centromeres may be recovered independently. These chromosomes are described as translocation elements. This occurs for some translocations, particularly but not exclusively, reciprocal translocations."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000687 ; owl:annotatedTarget "The space between two bases in a sequence which marks the position where a deletion has occurred."^^xsd:string . [] oboInOwl:hasDbXref "SO:ls"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000688 ; owl:annotatedTarget "A set of subregions selected from sequence contigs which when concatenated form a nonredundant linear sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000078 ; owl:annotatedTarget "A transcript that is polycistronic."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000689 ; owl:annotatedTarget "A match against cDNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000690 ; owl:annotatedTarget "A gene that encodes a polycistronic transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000691 ; owl:annotatedTarget "The initiator methionine that has been cleaved from a mature polypeptide sequence."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0000691 ; owl:annotatedTarget "init_met"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000692 ; owl:annotatedTarget "A gene that encodes a dicistronic transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000693 ; owl:annotatedTarget "A gene that encodes an mRNA that is recoded."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000694 ; owl:annotatedTarget "SNPs are single base pair positions in genomic DNA at which different sequence alternatives exist in normal individuals in some population(s), wherein the least frequent variant has an abundance of 1% or greater."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000695 ; owl:annotatedTarget "A sequence used in experiment."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000696 ; owl:annotatedTarget "A short oligonucleotide sequence, of length on the order of 10's of bases; either single or double stranded."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000696 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Oligonucleotide"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000697 ; owl:annotatedTarget "A gene that encodes a transcript with stop codon readthrough."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000698 ; owl:annotatedTarget "A gene encoding an mRNA that has the stop codon redefined as pyrrolysine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000699 ; owl:annotatedTarget "A sequence_feature with an extent of zero."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000700 ; owl:annotatedTarget "A comment about the sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000701 ; owl:annotatedTarget "A region of sequence where the validity of the base calling is questionable."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000702 ; owl:annotatedTarget "A region of sequence where there may have been an error in the assembly."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000703 ; owl:annotatedTarget "A region of sequence implicated in an experimental result."^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000704 ; owl:annotatedTarget "A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000704 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Gene"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000705 ; owl:annotatedTarget "Two or more adjacent copies of a region (of length greater than 1)."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000705 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Tandem_repeat"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000706 ; owl:annotatedTarget "The 3' splice site of the acceptor primary transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000707 ; owl:annotatedTarget "The 5' five prime splice site region of the donor RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000708 ; owl:annotatedTarget "A trans_splicing_acceptor_site which appends the 22nt SL1 RNA leader sequence to the 5' end of most mRNAs."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000709 ; owl:annotatedTarget "A trans_splicing_acceptor_site which appends the 22nt SL2 RNA leader sequence to the 5' end of mRNAs. SL2 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000710 ; owl:annotatedTarget "A gene encoding an mRNA that has the stop codon redefined as selenocysteine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000079 ; owl:annotatedTarget "A transcript that is dicistronic."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000711 ; owl:annotatedTarget "A gene with mRNA recoded by translational bypass."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000712 ; owl:annotatedTarget "A gene encoding a transcript that has a translational frameshift."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000713 ; owl:annotatedTarget "A motif that is active in the DNA form of the sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:integral_part_of ; owl:annotatedTarget "X integral_part_of Y if and only if: X part_of Y and Y has_part X."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000713 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/DNA_motif"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000714 ; owl:annotatedTarget "A region of nucleotide sequence corresponding to a known motif."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000715 ; owl:annotatedTarget "A motif that is active in RNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000716 ; owl:annotatedTarget "An mRNA that has the quality dicistronic."^^xsd:string . [] oboInOwl:hasDbXref "SGD:rb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000717 ; owl:annotatedTarget "A nucleic acid sequence that when read as sequential triplets, has the potential of encoding a sequential string of amino acids. It need not contain the start or stop codon."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000717 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Reading_frame"^^xsd:string . [] oboInOwl:hasDbXref "SGD:rb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000718 ; owl:annotatedTarget "A reading_frame that is interrupted by one or more stop codons; usually identified through inter-genomic sequence comparisons."^^xsd:string . [] oboInOwl:hasDbXref "FB:WG"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000719 ; owl:annotatedTarget "An ordered and oriented set of scaffolds based on somewhat weaker sets of inferential evidence such as one set of mate pair reads together with supporting evidence from ESTs or location of markers from SNP or microsatellite maps, or cytogenetic localization of contained markers."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000720 ; owl:annotatedTarget "A transposable element that is foreign."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000721 ; owl:annotatedTarget "A gene that encodes a dicistronic primary transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000722 ; owl:annotatedTarget "A gene that encodes a polycistronic mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000723 ; owl:annotatedTarget "Genomic sequence removed from the genome, as a normal event, by a process of recombination."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000724 ; owl:annotatedTarget "A region of a DNA molecule where transfer is initiated during the process of conjugation or mobilization."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000724 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Origin_of_transfer"^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000725 ; owl:annotatedTarget "The transit_peptide is a short region at the N-terminus of the peptide that directs the protein to an organelle (chloroplast, mitochondrion, microbody or cyanelle)."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0000725 ; owl:annotatedTarget "transit"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000726 ; owl:annotatedTarget "The simplest repeated component of a repeat region. A single repeat."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19660565"^^xsd:string, "SO:SG"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000727 ; owl:annotatedTarget "A regulatory region where transcription factor binding sites are clustered to regulate various aspects of transcription activities. (CRMs can be located a few kb to hundreds of kb upstream of the core promoter, in the coding sequence, within introns, or in the untranslated regions (UTR) sequences, and even on a different chromosome). A single gene can be regulated by multiple CRMs to give precise control of its spatial and temporal expression. CRMs function as nodes in large, intertwined regulatory network. CRM DNA accessibility is subject to regulation by dbTFs and transcription co-TFs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000728 ; owl:annotatedTarget "A region of a peptide that is able to excise itself and rejoin the remaining portions with a peptide bond."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000728 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Intein"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000729 ; owl:annotatedTarget "An attribute of protein-coding genes where the initial protein product contains an intein."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000730 ; owl:annotatedTarget "A gap in the sequence of known length. The unknown bases are filled in with N's."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000731 ; owl:annotatedTarget "An attribute to describe a feature that is incomplete."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000732 ; owl:annotatedTarget "An attribute describing an unverified region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000732 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Predicted"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000733 ; owl:annotatedTarget "An attribute describing a located_sequence_feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000087 ; owl:annotatedTarget "A gene from nuclear sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://mged.sourceforge.net/ontologies/MGEDontology.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000734 ; owl:annotatedTarget "An exemplar is a representative cDNA sequence for each gene. The exemplar approach is a method that usually involves some initial clustering into gene groups and the subsequent selection of a representative from each gene group."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000087 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Nuclear_gene"^^xsd:string . [] oboInOwl:hasDbXref "PMID:8395055"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000741 ; owl:annotatedTarget "A kinetoplast is an interlocked network of thousands of minicircles and tens of maxicircles, located near the base of the flagellum of some protozoan species."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000741 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Kinetoplast"^^xsd:string . [] oboInOwl:hasDbXref "PMID:8395055"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000742 ; owl:annotatedTarget "A maxicircle is a replicon, part of a kinetoplast, that contains open reading frames and replicates via a rolling circle method."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000750 ; owl:annotatedTarget "An origin_of_replication that is used for the amplification of a chromosomal nucleic acid sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000753 ; owl:annotatedTarget "The region of sequence that has been inserted and is being propagated by the clone."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0-1767-2380-8"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000754 ; owl:annotatedTarget "The lambda bacteriophage is the vector for the linear lambda clone. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000755 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Plasmid_vector#Vectors"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000756 ; owl:annotatedTarget "DNA synthesized by reverse transcriptase using RNA as a template."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000756 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/CDNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000766 ; owl:annotatedTarget "A tRNA sequence that has a pyrrolysine anticodon, and a 3' pyrrolysine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000768 ; owl:annotatedTarget "A plasmid that may integrate with a chromosome."^^xsd:string . [] oboInOwl:hasDbXref "Indiana:kw"^^xsd:string, "doi:10.1093/nar/gkh795"^^xsd:string, "issn:1362-4962"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000769 ; owl:annotatedTarget "The region of a two-piece tmRNA that bears the reading frame encoding the proteolysis tag. The tmRNA gene undergoes circular permutation in some groups of bacteria. Processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together."^^xsd:string . [] oboInOwl:hasDbXref "Indiana:kw"^^xsd:string, "doi:10.1093/nar/gkh795"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000770 ; owl:annotatedTarget "The acceptor region of a two-piece tmRNA that when mature is charged at its 3' end with alanine. The tmRNA gene undergoes circular permutation in some groups of bacteria; processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together."^^xsd:string . [] oboInOwl:hasDbXref "http://rgd.mcw.edu/tu/qtls/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000771 ; owl:annotatedTarget "A quantitative trait locus (QTL) is a polymorphic locus which contains alleles that differentially affect the expression of a continuously distributed phenotypic trait. Usually it is a marker described by statistical association to quantitative variation in the particular phenotypic trait that is thought to be controlled by the cumulative action of alleles at multiple loci."^^xsd:string . [] oboInOwl:hasDbXref "Phigo:at"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000772 ; owl:annotatedTarget "A genomic island is an integrated mobile genetic element, characterized by size (over 10 Kb). It that has features that suggest a foreign origin. These can include nucleotide distribution (oligonucleotides signature, CG content etc.) that differs from the bulk of the chromosome and/or genes suggesting DNA mobility."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000772 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Genomic_island"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000773 ; owl:annotatedTarget "Mobile genetic elements that contribute to rapid changes in virulence potential. They are present on the genomes of pathogenic strains but absent from the genomes of non pathogenic members of the same or related species."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000774 ; owl:annotatedTarget "A transmissible element containing genes involved in metabolism, analogous to the pathogenicity islands of gram negative bacteria."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000775 ; owl:annotatedTarget "An adaptive island is a genomic island that provides an adaptive advantage to the host."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000776 ; owl:annotatedTarget "A transmissible element containing genes involved in symbiosis, analogous to the pathogenicity islands of gram negative bacteria."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000777 ; owl:annotatedTarget "A non functional descendant of an rRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000778 ; owl:annotatedTarget "A non functional descendent of a tRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000779 ; owl:annotatedTarget "An episome that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000781 ; owl:annotatedTarget "Attribute describing sequence that has been integrated with foreign sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000782 ; owl:annotatedTarget "An attribute describing a feature that occurs in nature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000783 ; owl:annotatedTarget "An attribute to describe a region that was modified in vitro."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:is_consecutive_sequence_of ; owl:annotatedTarget "R is_consecutive_sequence_of R iff every instance of R is equivalent to a collection of instances of U:u1, u2, un, such that no pair of ux uy is overlapping and for all ux, it is adjacent to ux-1 and ux+1, with the exception of the initial and terminal u1,and un (which may be identical)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000784 ; owl:annotatedTarget "An attribute to describe a region from another species."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000789 ; owl:annotatedTarget "An attribute to describe a feature that has been proven."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000790 ; owl:annotatedTarget "An attribute describing a feature that is invalidated."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000794 ; owl:annotatedTarget "A rescue region that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000795 ; owl:annotatedTarget "A mini_gene that rescues."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000088 ; owl:annotatedTarget "A gene located in mitochondrial sequence."^^xsd:string . [] oboInOwl:hasDbXref "FB:mc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000796 ; owl:annotatedTarget "TE that has been modified in vitro, including insertion of DNA derived from a source other than the originating TE."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000088 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Mitochondrial_gene"^^xsd:string . [] oboInOwl:hasDbXref "FB:mc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000797 ; owl:annotatedTarget "TE that exists (or existed) in nature."^^xsd:string . [] oboInOwl:hasDbXref "FB:mc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000798 ; owl:annotatedTarget "TE that has been modified by manipulations in vitro."^^xsd:string . [] oboInOwl:hasDbXref "FB:mc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000799 ; owl:annotatedTarget "A transposable_element that is engineered and foreign."^^xsd:string . [] oboInOwl:hasDbXref "FB:gm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000800 ; owl:annotatedTarget "A multi-chromosome duplication aberration generated by reassortment of other aberration components."^^xsd:string . [] oboInOwl:hasDbXref "FB:gm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000801 ; owl:annotatedTarget "A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency and a duplication."^^xsd:string . [] oboInOwl:hasDbXref "FB:gm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000802 ; owl:annotatedTarget "A multi-chromosome deficiency aberration generated by reassortment of other aberration components."^^xsd:string . [] oboInOwl:hasDbXref "FB:gm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000803 ; owl:annotatedTarget "A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency or a duplication."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000804 ; owl:annotatedTarget "A region that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000805 ; owl:annotatedTarget "A region that is engineered and foreign."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000807 ; owl:annotatedTarget "A tag that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000808 ; owl:annotatedTarget "A cDNA clone that has been validated."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000809 ; owl:annotatedTarget "A cDNA clone that is invalid."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000810 ; owl:annotatedTarget "A cDNA clone invalidated because it is chimeric."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000089 ; owl:annotatedTarget "A gene located in kinetoplast sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000811 ; owl:annotatedTarget "A cDNA clone invalidated by genomic contamination."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:lost ; owl:annotatedTarget "X lost Y if X is a variant_of X' and Y part of X' but not X."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000812 ; owl:annotatedTarget "A cDNA clone invalidated by polyA priming."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000813 ; owl:annotatedTarget "A cDNA invalidated clone by partial processing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000814 ; owl:annotatedTarget "An attribute describing a region's ability, when introduced to a mutant organism, to re-establish (rescue) a phenotype."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15992143"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000815 ; owl:annotatedTarget "By definition, minigenes are short open-reading frames (ORF), usually encoding approximately 9 to 20 amino acids, which are expressed in vivo (as distinct from being synthesized as peptide or protein ex vivo and subsequently injected). The in vivo synthesis confers a distinct advantage: the expressed sequences can enter both antigen presentation pathways, MHC I (inducing CD8+ T- cells, which are usually cytotoxic T-lymphocytes (CTL)) and MHC II (inducing CD4+ T-cells, usually 'T-helpers' (Th)); and can encounter B-cells, inducing antibody responses. Three main vector approaches have been used to deliver minigenes: viral vectors, bacterial vectors and plasmid DNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000816 ; owl:annotatedTarget "A gene that rescues."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000817 ; owl:annotatedTarget "An attribute describing sequence with the genotype found in nature and/or standard laboratory stock."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000817 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Wild_type"^^xsd:string . [] a owl:Axiom ; rdfs:label "wild type"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000817 ; owl:annotatedTarget "loinc:LA9658-1"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000818 ; owl:annotatedTarget "A gene that rescues."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000819 ; owl:annotatedTarget "A chromosome originating in a mitochondria."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000820 ; owl:annotatedTarget "A chromosome originating in a chloroplast."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000821 ; owl:annotatedTarget "A chromosome originating in a chromoplast."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000822 ; owl:annotatedTarget "A chromosome originating in a cyanelle."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000090 ; owl:annotatedTarget "A gene from plastid sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000823 ; owl:annotatedTarget "A chromosome with origin in a leucoplast."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000824 ; owl:annotatedTarget "A chromosome originating in a macronucleus."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000825 ; owl:annotatedTarget "A chromosome originating in a micronucleus."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000828 ; owl:annotatedTarget "A chromosome originating in a nucleus."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000829 ; owl:annotatedTarget "A chromosome originating in a nucleomorph."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000830 ; owl:annotatedTarget "A region of a chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000831 ; owl:annotatedTarget "A region of a gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000832 ; owl:annotatedTarget "A region of sequence which is part of a promoter."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000833 ; owl:annotatedTarget "A region of a transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000834 ; owl:annotatedTarget "A region of a mature transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000835 ; owl:annotatedTarget "A part of a primary transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000836 ; owl:annotatedTarget "A region of an mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000837 ; owl:annotatedTarget "A region of UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000838 ; owl:annotatedTarget "A region of an rRNA primary transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:GAR"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000839 ; owl:annotatedTarget "Biological sequence region that can be assigned to a specific subsequence of a polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0000839 ; owl:annotatedTarget "region"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0000839 ; owl:annotatedTarget "site"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000840 ; owl:annotatedTarget "A region of a repeated sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000841 ; owl:annotatedTarget "A region within an intron."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:maximally_overlaps ; owl:annotatedTarget "A maximally_overlaps X iff all parts of A (including A itself) overlap both A and Y."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000843 ; owl:annotatedTarget "A region which is part of a bacterial RNA polymerase promoter."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000844 ; owl:annotatedTarget "A region of sequence which is a promoter for RNA polymerase II."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000845 ; owl:annotatedTarget "A region of sequence which is a promoter for RNA polymerase III type 1."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000846 ; owl:annotatedTarget "A region of sequence which is a promoter for RNA polymerase III type 2."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000847 ; owl:annotatedTarget "A region of a tmRNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8649407"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000849 ; owl:annotatedTarget "A component of the three-prime long terminal repeat."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000091 ; owl:annotatedTarget "A gene from apicoplast sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8649407"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000850 ; owl:annotatedTarget "A component of the five-prime long terminal repeat."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000851 ; owl:annotatedTarget "A region of a CDS."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000852 ; owl:annotatedTarget "A region of an exon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000853 ; owl:annotatedTarget "A region that is homologous to another region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000853 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Homology_(biology)"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000854 ; owl:annotatedTarget "A homologous_region that is paralogous to another region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000854 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Paralog#Paralogy"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000855 ; owl:annotatedTarget "A homologous_region that is orthologous to another region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000855 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Ortholog#Orthology"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000857 ; owl:annotatedTarget "Similarity due to common ancestry."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000858 ; owl:annotatedTarget "An attribute describing a kind of homology where divergence occurred after a speciation event."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000859 ; owl:annotatedTarget "An attribute describing a kind of homology where divergence occurred after a duplication event."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000860 ; owl:annotatedTarget "Attribute describing sequence regions occurring in same order on chromosome of different species."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000860 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Syntenic"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000861 ; owl:annotatedTarget "A primary transcript that is capped."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000862 ; owl:annotatedTarget "An mRNA that is capped."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000863 ; owl:annotatedTarget "An attribute describing an mRNA feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000864 ; owl:annotatedTarget "An attribute describing a sequence is representative of a class of similar sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000865 ; owl:annotatedTarget "An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is not divisible by 3."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000865 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Frameshift"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000866 ; owl:annotatedTarget "A frameshift caused by deleting one base."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000867 ; owl:annotatedTarget "A frameshift caused by deleting two bases."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000868 ; owl:annotatedTarget "A frameshift caused by inserting one base."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000869 ; owl:annotatedTarget "A frameshift caused by inserting two bases."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000870 ; owl:annotatedTarget "An attribute describing transcript sequence that is created by splicing exons from diferent genes."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000092 ; owl:annotatedTarget "A gene from chloroplast sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000871 ; owl:annotatedTarget "An mRNA that is polyadenylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000872 ; owl:annotatedTarget "An mRNA that is trans-spliced."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000873 ; owl:annotatedTarget "A transcript that is edited."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000874 ; owl:annotatedTarget "A transcript that has been edited by A to I substitution."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000875 ; owl:annotatedTarget "An attribute describing a sequence that is bound by a protein."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000876 ; owl:annotatedTarget "An attribute describing a sequence that is bound by a nucleic acid."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000877 ; owl:annotatedTarget "An attribute describing a situation where a gene may encode for more than 1 transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000878 ; owl:annotatedTarget "An attribute describing a sequence that contains the code for one gene product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:non_functional_homolog_of ; owl:annotatedTarget "A relationship between a pseudogenic feature and its functional ancestor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000879 ; owl:annotatedTarget "An attribute describing a sequence that contains the code for two gene products."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000880 ; owl:annotatedTarget "An attribute describing a sequence that contains the code for more than one gene product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000881 ; owl:annotatedTarget "An attribute describing an mRNA sequence that has been reprogrammed at translation, causing localized alterations."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000882 ; owl:annotatedTarget "An attribute describing the alteration of codon meaning."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000883 ; owl:annotatedTarget "A stop codon redefined to be a new amino acid."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000884 ; owl:annotatedTarget "A stop codon redefined to be the new amino acid, pyrrolysine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000885 ; owl:annotatedTarget "A stop codon redefined to be the new amino acid, selenocysteine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000886 ; owl:annotatedTarget "Recoded mRNA where a block of nucleotides is not translated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000887 ; owl:annotatedTarget "Recoding by frameshifting a particular site."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000888 ; owl:annotatedTarget "A gene that is maternally_imprinted."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000889 ; owl:annotatedTarget "A gene that is paternally imprinted."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000890 ; owl:annotatedTarget "A gene that is post translationally regulated."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000093 ; owl:annotatedTarget "A gene from chromoplast_sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000891 ; owl:annotatedTarget "A gene that is negatively autoreguated."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000892 ; owl:annotatedTarget "A gene that is positively autoregulated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000893 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated at transcriptional or translational level."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000893 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Silenced"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000894 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated by DNA modifications, resulting in repression of transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000895 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated by DNA methylation, resulting in repression of transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000896 ; owl:annotatedTarget "A gene that is translationally regulated."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000897 ; owl:annotatedTarget "A gene that is allelically_excluded."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000898 ; owl:annotatedTarget "A gene that is epigenetically modified."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000899 ; owl:annotatedTarget "An attribute describing a nuclear pseudogene of a mitochndrial gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000900 ; owl:annotatedTarget "An attribute describing a pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promotors, but often including a polyA tail."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000901 ; owl:annotatedTarget "An attribute describing a pseudogene that was created by tandem duplication and unequal crossing over during recombination."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000902 ; owl:annotatedTarget "A transgene is a gene that has been transferred naturally or by any of a number of genetic engineering techniques from one organism to another."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000902 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Transgene"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000904 ; owl:annotatedTarget "An attribute to describe the sequence of a feature, where the DNA is rearranged."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000905 ; owl:annotatedTarget "An attribute describing the status of a feature, based on the available evidence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000906 ; owl:annotatedTarget "Attribute to describe a feature that is independently known - not predicted."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000907 ; owl:annotatedTarget "An attribute to describe a feature that has been predicted using sequence similarity techniques."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000908 ; owl:annotatedTarget "An attribute to describe a feature that has been predicted using sequence similarity of a known domain."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000909 ; owl:annotatedTarget "An attribute to describe a feature that has been predicted using sequence similarity to EST or cDNA data."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000911 ; owl:annotatedTarget "An attribute describing a feature that is predicted by a computer program that did not rely on sequence similarity."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000912 ; owl:annotatedTarget "A motif of three consecutive residues and one H-bond in which: residue(i) is Aspartate or Asparagine (Asx), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2)."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000913 ; owl:annotatedTarget "A clone insert made from cDNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000094 ; owl:annotatedTarget "A gene from cyanelle sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000914 ; owl:annotatedTarget "A clone insert made from genomic DNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000915 ; owl:annotatedTarget "A clone insert that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000917 ; owl:annotatedTarget "An edit to insert a U."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000918 ; owl:annotatedTarget "An edit to delete a uridine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000919 ; owl:annotatedTarget "An edit to substitute an I for an A."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:overlaps ; owl:annotatedTarget "X overlaps Y iff there exists some Z such that Z contained_by X and Z contained_by Y."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000920 ; owl:annotatedTarget "An edit to insert a cytidine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000921 ; owl:annotatedTarget "An edit to insert a dinucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000922 ; owl:annotatedTarget "An edit to substitute an U for a C."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000923 ; owl:annotatedTarget "An edit to insert a G."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000924 ; owl:annotatedTarget "An edit to insert a GC dinucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000925 ; owl:annotatedTarget "An edit to insert a GU dinucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000926 ; owl:annotatedTarget "An edit to insert a CU dinucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000927 ; owl:annotatedTarget "An edit to insert a AU dinucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000928 ; owl:annotatedTarget "An edit to insert a AA dinucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000929 ; owl:annotatedTarget "An mRNA that is edited."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000930 ; owl:annotatedTarget "A region of guide RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:jk"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000931 ; owl:annotatedTarget "A region of a guide_RNA that base-pairs to a target mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000933 ; owl:annotatedTarget "An attribute to describe a feature between stages of processing."^^xsd:string . [] oboInOwl:hasDbXref "FB:cds"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000934 ; owl:annotatedTarget "A miRNA target site is a binding site where the molecule is a micro RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000935 ; owl:annotatedTarget "A CDS that is edited."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000941 ; owl:annotatedTarget "A recombinationally rearranged gene of the vertebrate immune system."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000942 ; owl:annotatedTarget "An integration/excision site of a phage chromosome at which a recombinase acts to insert the phage DNA at a cognate integration/excision site on a bacterial chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000943 ; owl:annotatedTarget "An integration/excision site of a bacterial chromosome at which a recombinase acts to insert foreign DNA containing a cognate integration/excision site."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000944 ; owl:annotatedTarget "A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attB_site and the 3' portion of attP_site."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000945 ; owl:annotatedTarget "A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attP_site and the 3' portion of attB_site."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000946 ; owl:annotatedTarget "A region specifically recognised by a recombinase, which inserts or removes another region marked by a distinct cognate integration/excision site."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000947 ; owl:annotatedTarget "A region specifically recognized by a recombinase, which separates a physically contiguous circle of DNA into two physically separate circles."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000948 ; owl:annotatedTarget "A region specifically recognised by a recombinase, which inverts the region flanked by a pair of sites."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000949 ; owl:annotatedTarget "A site at which replicated bacterial circular chromosomes are decatenated by site specific resolvase."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000950 ; owl:annotatedTarget "An attC site is a sequence required for the integration of a DNA of an integron."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000952 ; owl:annotatedTarget "An origin of vegetative replication in plasmids and phages."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000953 ; owl:annotatedTarget "An origin of bacterial chromosome replication."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000954 ; owl:annotatedTarget "Structural unit composed of a self-replicating, DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000095 ; owl:annotatedTarget "A plastid gene from leucoplast sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000955 ; owl:annotatedTarget "Structural unit composed of a self-replicating, double-stranded DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000956 ; owl:annotatedTarget "Structural unit composed of a self-replicating, single-stranded DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000957 ; owl:annotatedTarget "Structural unit composed of a self-replicating, double-stranded, linear DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000958 ; owl:annotatedTarget "Structural unit composed of a self-replicating, double-stranded, circular DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000959 ; owl:annotatedTarget "Structural unit composed of a self-replicating, single-stranded, linear DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000960 ; owl:annotatedTarget "Structural unit composed of a self-replicating, single-stranded, circular DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000961 ; owl:annotatedTarget "Structural unit composed of a self-replicating, RNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000962 ; owl:annotatedTarget "Structural unit composed of a self-replicating, single-stranded RNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000963 ; owl:annotatedTarget "Structural unit composed of a self-replicating, single-stranded, linear RNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:complete_evidence_for_feature ; owl:annotatedTarget "B is complete_evidence_for_feature A if the extent (5' and 3' boundaries) and internal boundaries of B fully support the extent and internal boundaries of A."^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:part_of ; owl:annotatedTarget "X part_of Y if X is a subregion of Y."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000964 ; owl:annotatedTarget "Structural unit composed of a self-replicating, double-stranded, linear RNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000096 ; owl:annotatedTarget "A gene from proplastid sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000965 ; owl:annotatedTarget "Structural unit composed of a self-replicating, double-stranded RNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000966 ; owl:annotatedTarget "Structural unit composed of a self-replicating, single-stranded, circular DNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000967 ; owl:annotatedTarget "Structural unit composed of a self-replicating, double-stranded, circular RNA molecule."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000969 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Rolling_circle"^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000973 ; owl:annotatedTarget "A terminal_inverted_repeat_element that is bacterial and only encodes the functions required for its transposition between these inverted repeats."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000973 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Insertion_sequence"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000976 ; owl:annotatedTarget "A feature_attribute describing a feature that is not manifest under normal conditions."^^xsd:string . [] oboInOwl:hasDbXref "SO:jk"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000978 ; owl:annotatedTarget "A region of a guide_RNA that specifies the insertions and deletions of bases in the editing of a target mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000979 ; owl:annotatedTarget "A non-protein_coding gene that encodes a guide_RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8395055"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000980 ; owl:annotatedTarget "A minicircle is a replicon, part of a kinetoplast, that encodes for guide RNAs."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000980 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Minicircle"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000987 ; owl:annotatedTarget "A quality of a nucleotide polymer that has a 3'-terminal residue and a 5'-terminal residue."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000988 ; owl:annotatedTarget "A quality of a nucleotide polymer that has no terminal nucleotide residues."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15333696"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000989 ; owl:annotatedTarget "Small non-coding RNA (59-60 nt long) containing 5' and 3' ends that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15333696"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000990 ; owl:annotatedTarget "Small non-coding RNA (55-65 nt long) containing highly conserved 5' and 3' ends (16 and 8 nt, respectively) that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm."^^xsd:string . [] oboInOwl:hasDbXref "BCS:etrwz"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000991 ; owl:annotatedTarget "DNA located in the genome and able to be transmitted to the offspring."^^xsd:string . [] oboInOwl:hasDbXref "http://www.genetics.org/cgi/content/full/170/2/661"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000998 ; owl:annotatedTarget "A recursive splice site is a splice site which subdivides a large intron. Recursive splicing is a mechanism that splices large introns by sub dividing the intron at non exonic elements and alternate exons."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000999 ; owl:annotatedTarget "A region of sequence from the end of a BAC clone that may provide a highly specific marker."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000097 ; owl:annotatedTarget "A gene from nucleomorph sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001000 ; owl:annotatedTarget "Cytosolic 16S rRNA is an RNA component of the small subunit of cytosolic ribosomes in prokaryotes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001000 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/16S_ribosomal_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001001 ; owl:annotatedTarget "Cytosolic 23S rRNA is an RNA component of the large subunit of cytosolic ribosomes in prokaryotes."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15493135"^^xsd:string, "PMID:2100998"^^xsd:string, "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001002 ; owl:annotatedTarget "Cytosolic 25S rRNA is an RNA component of the large subunit of cytosolic ribosomes most eukaryotes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001003 ; owl:annotatedTarget "A recombination product between the 2 LTR of the same element."^^xsd:string . [] oboInOwl:hasDbXref "GOC:jl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001006 ; owl:annotatedTarget "A phage genome after it has established in the host genome in a latent/immune state either as a plasmid or as an integrated \"island\"."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001006 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Prophage"^^xsd:string . [] oboInOwl:hasDbXref "GOC:jl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001007 ; owl:annotatedTarget "A remnant of an integrated prophage in the host genome or an \"island\" in the host genome that includes phage like-genes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001008 ; owl:annotatedTarget "A base-paired stem with loop of 4 non-hydrogen bonded nucleotides."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001008 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Tetraloop"^^xsd:string . [] oboInOwl:hasDbXref "http:/www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=search&db=pubmed&term=SILVERMAN+SK[au]&dispmax=50"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001009 ; owl:annotatedTarget "A double-stranded DNA used to control macromolecular structure and function."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9753739"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001010 ; owl:annotatedTarget "A cytosine rich domain whereby strands associate both inter- and intramolecularly at moderately acidic pH."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001011 ; owl:annotatedTarget "Peptide nucleic acid, is a chemical not known to occur naturally but is artificially synthesized and used in some biological research and medical treatments. The PNA backbone is composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001011 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Peptide_nucleic_acid"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001012 ; owl:annotatedTarget "A DNA sequence with catalytic activity."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:partial_evidence_for_feature ; owl:annotatedTarget "B is partial_evidence_for_feature A if the extent of B supports part_of but not all of A."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?rs=rs2067431"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001013 ; owl:annotatedTarget "A multiple nucleotide polymorphism with alleles of common length > 1, for example AAA/TTT."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11256617"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001015 ; owl:annotatedTarget "A type of non-canonical base pairing, most commonly between G and U, which is important for the secondary structure of RNAs. It has similar thermodynamic stability to the Watson-Crick pairing. Wobble base pairs only have two hydrogen bonds. Other wobble base pair possibilities are I-A, I-U and I-C."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001015 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Wobble_base_pair"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001016 ; owl:annotatedTarget "A purine-rich sequence in the group I introns which determines the locations of the splice sites in group I intron splicing and has catalytic activity."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001017 ; owl:annotatedTarget "A sequence variant that does not affect protein function. Silent mutations may occur in genic ( CDS, UTR, intron etc) and intergenic regions. Silent mutations may have affects on processes such as splicing and regulation."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001017 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Silent_mutation"^^xsd:string . [] a owl:Axiom ; rdfs:label "Silent"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001017 ; owl:annotatedTarget "loinc:LA6700-4"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string, "http://en.wikipedia.org/wiki/Epitope"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001018 ; owl:annotatedTarget "A binding site that, in the molecule, interacts selectively and non-covalently with antibodies, B cells or T cells."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001018 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Epitope"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001019 ; owl:annotatedTarget "A variation that increases or decreases the copy number of a given region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001019 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Copy_number_variation"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001022 ; owl:annotatedTarget "The point within a chromosome where an inversion begins or ends."^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001023 ; owl:annotatedTarget "An allele is one of a set of coexisting sequence variants of a gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001023 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Allele"^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001024 ; owl:annotatedTarget "A haplotype is one of a set of coexisting sequence variants of a haplotype block."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001024 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Haplotype"^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001025 ; owl:annotatedTarget "A sequence variant that is segregating in one or more natural populations of a species."^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001026 ; owl:annotatedTarget "A genome is the sum of genetic material within a cell or virion."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001026 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Genome"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000098 ; owl:annotatedTarget "A gene from plasmid sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001027 ; owl:annotatedTarget "A genotype is a variant genome, complete or incomplete."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001027 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Genotype"^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001028 ; owl:annotatedTarget "A diplotype is a pair of haplotypes from a given individual. It is a genotype where the phase is known."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001030 ; owl:annotatedTarget "Forward is an attribute of the feature, where the feature is in the 5' to 3' direction."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001031 ; owl:annotatedTarget "Reverse is an attribute of the feature, where the feature is in the 3' to 5' direction. Again could be applied to primer."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001032 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Mitochondrial_DNA"^^xsd:string . [] oboInOwl:hasDbXref "PMID:17589500"^^xsd:string, "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001034 ; owl:annotatedTarget "A de-branched intron which mimics the structure of pre-miRNA and enters the miRNA processing pathway without Drosha mediated cleavage."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001035 ; owl:annotatedTarget "A small non coding RNA, part of a silencing system that prevents the spreading of selfish genetic elements."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001035 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/PiRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001036 ; owl:annotatedTarget "A tRNA sequence that has an arginine anticodon, and a 3' arginine binding region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:14681355"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001037 ; owl:annotatedTarget "A nucleotide region with either intra-genome or intracellular mobility, of varying length, which often carry the information necessary for transfer and recombination with the host genome."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001037 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Mobile_genetic_element"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001038 ; owl:annotatedTarget "An MGE that is not integrated into the host chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001039 ; owl:annotatedTarget "An MGE that is integrated into the host chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001040 ; owl:annotatedTarget "A plasmid sequence that is integrated within the host chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001041 ; owl:annotatedTarget "The region of nucleotide sequence of a virus, a submicroscopic particle that replicates by infecting a host cell."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001042 ; owl:annotatedTarget "The nucleotide sequence of a virus that infects bacteria."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001042 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Bacteriophage"^^xsd:string . [] oboInOwl:hasDbXref "Phigo:at"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001043 ; owl:annotatedTarget "An attachment site located on a conjugative transposon and used for site-specific integration of a conjugative transposon."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001044 ; owl:annotatedTarget "A nuclear pseudogene of either coding or non-coding mitochondria derived sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001044 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Numt"^^xsd:string . [] oboInOwl:hasDbXref "phigo:at"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001045 ; owl:annotatedTarget "A MGE region consisting of two fused plasmids resulting from a replicative transposition event."^^xsd:string . [] oboInOwl:hasDbXref "Phigo:at"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001046 ; owl:annotatedTarget "Component of the inversion site located at the left of a region susceptible to site-specific inversion."^^xsd:string . [] oboInOwl:hasDbXref "Phigo:at"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001047 ; owl:annotatedTarget "Component of the inversion site located at the right of a region susceptible to site-specific inversion."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001048 ; owl:annotatedTarget "A region located within an inversion site."^^xsd:string . [] oboInOwl:hasDbXref "Phigo:ariane"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001049 ; owl:annotatedTarget "An island that contains genes for integration/excision and the gene and site for the initiation of intercellular transfer by conjugation. It can be complemented for transfer by a conjugative transposon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001050 ; owl:annotatedTarget "A portion of a repeat, interrupted by the insertion of another element."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001054 ; owl:annotatedTarget "A portion of a transposon, interrupted by the insertion of another element."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9679020"^^xsd:string, "SO:regcreative"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001055 ; owl:annotatedTarget "A regulatory_region that modulates the transcription of a gene or genes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001056 ; owl:annotatedTarget "A regulatory_region that modulates splicing."^^xsd:string . [] oboInOwl:hasDbXref "SO:regcreative"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001058 ; owl:annotatedTarget "A transcriptional_cis_regulatory_region that restricts the activity of a CRM to a single promoter and which functions only when both itself and an insulator are located between the CRM and the promoter."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001059 ; owl:annotatedTarget "A sequence_alteration is a sequence_feature whose extent is the deviation from another sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001060 ; owl:annotatedTarget "A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000099 ; owl:annotatedTarget "A gene from proviral sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001060 ; owl:annotatedTarget "Jannovar:sequence_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001060 ; owl:annotatedTarget "VAAST:sequence_variant"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001060 ; owl:annotatedTarget "ANNOVAR:unknown"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001061 ; owl:annotatedTarget "The propeptide_cleavage_site is the arginine/lysine boundary on a propeptide where cleavage occurs."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001062 ; owl:annotatedTarget "Part of a peptide chain which is cleaved off during the formation of the mature protein."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001062 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Propeptide"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001062 ; owl:annotatedTarget "propep"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001063 ; owl:annotatedTarget "An immature_peptide_region is the extent of the peptide after it has been translated and before any processing occurs."^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:processed_from ; owl:annotatedTarget "Inverse of processed_into."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001064 ; owl:annotatedTarget "Active peptides are proteins which are biologically active, released from a precursor molecule."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasBroadSynonym ; owl:annotatedSource obo:SO_0001064 ; owl:annotatedTarget "peptide"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001064 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Peptide"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001066 ; owl:annotatedTarget "Polypeptide region that is rich in a particular amino acid or homopolymeric and greater than three residues in length."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001066 ; owl:annotatedTarget "compbias"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001067 ; owl:annotatedTarget "A sequence motif is a short (up to 20 amino acids) region of biological interest. Such motifs, although they are too short to constitute functional domains, share sequence similarities and are conserved in different proteins. They display a common function (protein-binding, subcellular location etc.)."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasBroadSynonym ; owl:annotatedSource obo:SO_0001067 ; owl:annotatedTarget "motif"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001068 ; owl:annotatedTarget "A polypeptide_repeat is a single copy of an internal sequence repetition."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001068 ; owl:annotatedTarget "repeat"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001070 ; owl:annotatedTarget "Region of polypeptide with a given structural property."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001071 ; owl:annotatedTarget "Arrangement of the polypeptide with respect to the lipid bilayer."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001072 ; owl:annotatedTarget "Polypeptide region that is localized outside of a lipid bilayer."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001072 ; owl:annotatedTarget "extramembrane"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001072 ; owl:annotatedTarget "extramembrane_region"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001072 ; owl:annotatedTarget "topo_dom"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001073 ; owl:annotatedTarget "Polypeptide region that is localized inside the cytoplasm."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001073 ; owl:annotatedTarget "cytoplasm_location"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001073 ; owl:annotatedTarget "inside"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001074 ; owl:annotatedTarget "Polypeptide region that is localized outside of a lipid bilayer and outside of the cytoplasm."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001074 ; owl:annotatedTarget "non_cytoplasm_location"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001074 ; owl:annotatedTarget "outside"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001075 ; owl:annotatedTarget "Polypeptide region present in the lipid bilayer."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001075 ; owl:annotatedTarget "intramembrane"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001076 ; owl:annotatedTarget "Polypeptide region localized within the lipid bilayer where both ends traverse the same membrane."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001076 ; owl:annotatedTarget "membrane_loop"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curator_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001077 ; owl:annotatedTarget "Polypeptide region traversing the lipid bilayer."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001077 ; owl:annotatedTarget "transmem"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001077 ; owl:annotatedTarget "transmembrane"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001078 ; owl:annotatedTarget "A region of peptide with secondary structure has hydrogen bonding along the peptide chain that causes a defined conformation of the chain."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001078 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Secondary_structure"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001078 ; owl:annotatedTarget "2nary structure"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001078 ; owl:annotatedTarget "secondary structure"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001078 ; owl:annotatedTarget "secondary structure region"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001078 ; owl:annotatedTarget "secondary_structure"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001079 ; owl:annotatedTarget "Motif is a three-dimensional structural element within the chain, which appears also in a variety of other molecules. Unlike a domain, a motif does not need to form a stable globular unit."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001079 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Structural_motif"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001079 ; owl:annotatedTarget "structural_motif"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001080 ; owl:annotatedTarget "A coiled coil is a structural motif in proteins, in which alpha-helices are coiled together like the strands of a rope."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001080 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Coiled_coil"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001080 ; owl:annotatedTarget "coiled"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001081 ; owl:annotatedTarget "A motif comprising two helices separated by a turn."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001081 ; owl:annotatedTarget "HTH"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001082 ; owl:annotatedTarget "Incompatibility in the sequence due to some experimental problem."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001083 ; owl:annotatedTarget "Indicates that two consecutive residues in a fragment sequence are not consecutive in the full-length protein and that there are a number of unsequenced residues between them."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001083 ; owl:annotatedTarget "non_cons"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001084 ; owl:annotatedTarget "The residue at an extremity of the sequence is not the terminal residue."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000100 ; owl:annotatedTarget "A proviral gene with origin endogenous retrovirus."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001084 ; owl:annotatedTarget "non_ter"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001085 ; owl:annotatedTarget "Different sources report differing sequences."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001085 ; owl:annotatedTarget "conflict"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001086 ; owl:annotatedTarget "Describes the positions in a sequence where the authors are unsure about the sequence assignment."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001086 ; owl:annotatedTarget "unsure"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001087 ; owl:annotatedTarget "Posttranslationally formed amino acid bonds."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001088 ; owl:annotatedTarget "The covalent bond between sulfur atoms that binds two peptide chains or different parts of one peptide chain and is a structural determinant in many protein molecules."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001089 ; owl:annotatedTarget "A region where a transformation occurs in a protein after it has been synthesized. This which may regulate, stabilize, crosslink or introduce new chemical functionalities in the protein."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001089 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Post_translational_modification"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001089 ; owl:annotatedTarget "mod_res"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sci.sdsu.edu/~smaloy/Glossary/T.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000101 ; owl:annotatedTarget "A transposon or insertion sequence. An element that can insert in a variety of DNA sequences."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001090 ; owl:annotatedTarget "Binding involving a covalent bond."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001091 ; owl:annotatedTarget "Binding site for any chemical group (co-enzyme, prosthetic group, etc.)."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:curation"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001091 ; owl:annotatedTarget "binding"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001092 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with metal ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:Curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001093 ; owl:annotatedTarget "A binding site that, in the protein molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001093 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Protein_protein_interaction"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001094 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with calcium ions."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001094 ; owl:annotatedTarget "ca_bind"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001095 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with cobalt ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001096 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with copper ions."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000101 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Transposable_element"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001097 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with iron ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001098 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with magnesium ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001099 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with manganese ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001100 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with molybdenum ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001101 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with nickel ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001102 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with tungsten ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001103 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with zinc ions."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001104 ; owl:annotatedTarget "Amino acid involved in the activity of an enzyme."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001104 ; owl:annotatedTarget "act_site"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000102 ; owl:annotatedTarget "A match to an EST or cDNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001105 ; owl:annotatedTarget "Residues which interact with a ligand."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001106 ; owl:annotatedTarget "A motif of five consecutive residues and two H-bonds in which: Residue(i) is Aspartate or Asparagine (Asx), side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3), main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001107 ; owl:annotatedTarget "A motif of three residues within a beta-sheet in which the main chains of two consecutive residues are H-bonded to that of the third, and in which the dihedral angles are as follows: Residue(i): -140 degrees < phi(l) -20 degrees , -90 degrees < psi(l) < 40 degrees. Residue (i+1): -180 degrees < phi < -25 degrees or +120 degrees < phi < +180 degrees, +40 degrees < psi < +180 degrees or -180 degrees < psi < -120 degrees."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001107 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Beta_bulge"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "Http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001108 ; owl:annotatedTarget "A motif of three residues within a beta-sheet consisting of two H-bonds. Beta bulge loops often occur at the loop ends of beta-hairpins."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001109 ; owl:annotatedTarget "A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+4), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+3), these loops have an RL nest at residues i+2 and i+3."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001110 ; owl:annotatedTarget "A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+5), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+4), these loops have an RL nest at residues i+3 and i+4."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001111 ; owl:annotatedTarget "A beta strand describes a single length of polypeptide chain that forms part of a beta sheet. A single continuous stretch of amino acids adopting an extended conformation of hydrogen bonds between the N-O and the C=O of another part of the peptide. This forms a secondary protein structure in which two or more extended polypeptide regions are hydrogen-bonded to one another in a planar array."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001111 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Beta_sheet"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001111 ; owl:annotatedTarget "strand"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001112 ; owl:annotatedTarget "A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (one running N-terminal to C-terminal and one running C-terminal to N-terminal). Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i) and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they form two mutual backbone hydrogen bonds to each other's flanking peptide groups; this is known as a close pair of hydrogen bonds. The peptide backbone dihedral angles (phi, psi) are about (-140 degrees, 135 degrees) in antiparallel sheets."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001113 ; owl:annotatedTarget "A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (both running N-terminal to C-terminal). This orientation is slightly less stable because it introduces nonplanarity in the inter-strand hydrogen bonding pattern. Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i)and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they do not hydrogen bond to each other; rather, one residue forms hydrogen bonds to the residues that flank the other (but not vice versa). For example, residue i may form hydrogen bonds to residues j - 1 and j + 1; this is known as a wide pair of hydrogen bonds. By contrast, residue j may hydrogen-bond to different residues altogether, or to none at all. The dihedral angles (phi, psi) are about (-120 degrees, 115 degrees) in parallel sheets."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001114 ; owl:annotatedTarget "A helix is a secondary_structure conformation where the peptide backbone forms a coil."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001114 ; owl:annotatedTarget "helix"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001115 ; owl:annotatedTarget "A left handed helix is a region of peptide where the coiled conformation turns in an anticlockwise, left handed screw."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001116 ; owl:annotatedTarget "A right handed helix is a region of peptide where the coiled conformation turns in a clockwise, right handed screw."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001116 ; owl:annotatedTarget "helix"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001117 ; owl:annotatedTarget "The helix has 3.6 residues per turn which corresponds to a translation of 1.5 angstroms (= 0.15 nm) along the helical axis. Every backbone N-H group donates a hydrogen bond to the backbone C=O group of the amino acid four residues earlier."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001117 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Alpha_helix"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001117 ; owl:annotatedTarget "a-helix"^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:processed_into ; owl:annotatedTarget "X is processed_into Y if a region X is modified to create Y."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000103 ; owl:annotatedTarget "The end of the clone insert."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001117 ; owl:annotatedTarget "helix"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001118 ; owl:annotatedTarget "The pi helix has 4.1 residues per turn and a translation of 1.15 (=0.115 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid five residues earlier."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001118 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Pi_helix"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001119 ; owl:annotatedTarget "The 3-10 helix has 3 residues per turn with a translation of 2.0 angstroms (=0.2 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid three residues earlier."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001119 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/310_helix"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001120 ; owl:annotatedTarget "A motif of two consecutive residues with dihedral angles. Nest should not have Proline as any residue. Nests frequently occur as parts of other motifs such as Schellman loops."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001120 ; owl:annotatedTarget "nest"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001121 ; owl:annotatedTarget "A motif of two consecutive residues with dihedral angles: Residue(i): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001122 ; owl:annotatedTarget "A motif of two consecutive residues with dihedral angles: Residue(i): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001123 ; owl:annotatedTarget "A motif of six or seven consecutive residues that contains two H-bonds."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001123 ; owl:annotatedTarget "paperclip"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001124 ; owl:annotatedTarget "Wild type: A motif of seven consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+6), the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+5)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001125 ; owl:annotatedTarget "Common Type: A motif of six consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+5) the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+4)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001126 ; owl:annotatedTarget "A motif of five consecutive residues and two hydrogen bonds in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3) , the main-chain CO group of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001127 ; owl:annotatedTarget "A motif of four or five consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain OH of residue(i) is H-bonded to the main-chain CO of residue(i3) or (i4), Phi angles of residues(i1), (i2) and (i3) are negative."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001128 ; owl:annotatedTarget "A reversal in the direction of the backbone of a protein that is stabilized by hydrogen bond between backbone NH and CO groups, involving no more than 4 amino acid residues."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001128 ; owl:annotatedTarget "turn"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001129 ; owl:annotatedTarget "Left handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001130 ; owl:annotatedTarget "Left handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001131 ; owl:annotatedTarget "Right handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000104 ; owl:annotatedTarget "A sequence of amino acids linked by peptide bonds which may lack appreciable tertiary structure and may not be liable to irreversible denaturation."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001132 ; owl:annotatedTarget "Right handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001133 ; owl:annotatedTarget "A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles of the second and third residues, which are the basis for sub-categorization."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001134 ; owl:annotatedTarget "Left handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles:- Residue(i+1): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. Residue(i+2): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001135 ; owl:annotatedTarget "Left handed type II: A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees > phi > -20 degrees, +80 degrees > psi > +180 degrees. Residue(i+2): +20 degrees > phi > +140 degrees, -40 degrees > psi > +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001136 ; owl:annotatedTarget "Right handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+2): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001137 ; owl:annotatedTarget "Right handed type II:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, +80 degrees < psi < +180 degrees. Residue(i+2): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001138 ; owl:annotatedTarget "Gamma turns, defined for 3 residues i,( i+1),( i+2) if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001139 ; owl:annotatedTarget "Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=75.0 - psi(i+1)=-64.0."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001140 ; owl:annotatedTarget "Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=-79.0 - psi(i+1)=69.0."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001141 ; owl:annotatedTarget "A motif of three consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2)."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000104 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Polypeptide"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001142 ; owl:annotatedTarget "The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001143 ; owl:annotatedTarget "The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001144 ; owl:annotatedTarget "The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001145 ; owl:annotatedTarget "The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001146 ; owl:annotatedTarget "A site of sequence variation (alteration). Alternative sequence due to naturally occurring events such as polymorphisms and alternative splicing or experimental methods such as site directed mutagenesis."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001147 ; owl:annotatedTarget "Describes the natural sequence variants due to polymorphisms, disease-associated mutations, RNA editing and variations between strains, isolates or cultivars."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasBroadSynonym ; owl:annotatedSource obo:SO_0001147 ; owl:annotatedTarget "variant"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001148 ; owl:annotatedTarget "Site which has been experimentally altered."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001148 ; owl:annotatedTarget "mutagen"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "UniProt:curation_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001149 ; owl:annotatedTarget "Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting."^^xsd:string . [] oboInOwl:hasDbXref "http://www.medterms.com/script/main/art.asp?articlekey=5152"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000105 ; owl:annotatedTarget "A region of the chromosome between the centromere and the telomere. Human chromosomes have two arms, the p arm (short) and the q arm (long) which are separated from each other by the centromere."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001149 ; owl:annotatedTarget "var_seq"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001150 ; owl:annotatedTarget "A motif of four consecutive peptide resides of type VIa or type VIb and where the i+2 residue is cis-proline."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2371257"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001151 ; owl:annotatedTarget "A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -90 degrees, psi ~ 0 degrees."^^xsd:string . [] oboInOwl:hasDbXref "PMID:27428516"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001152 ; owl:annotatedTarget "A type VIa beta turn with the following phi and psi sngles on amino acid residues 2 and 3: phi-2 = -60 degrees, psi-2 = 120 degrees, phi-3 = -90 degrees, psi-3 = 0 degrees."^^xsd:string . [] oboInOwl:hasDbXref "PMID:27428516"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001153 ; owl:annotatedTarget "A type VIa beta turn with the following phi and psi sngles on amino acid residues 2 and 3: phi-2 = -120 degrees, psi-2 = 120 degrees, phi-3 = -60 degrees, psi-3 = 0 degrees."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2371257"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001154 ; owl:annotatedTarget "A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -120 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -60 degrees, psi ~ 0 degrees."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2371257"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001155 ; owl:annotatedTarget "A motif of four consecutive peptide residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ -30 degrees. Residue(i+2): phi ~ -120 degrees, psi ~ 120 degrees."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12537576"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001156 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, usually located between -10 and -60 relative to the TSS. Consensus sequence is WATCGATW."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941:12537576"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001157 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements with respect to the TSS (+1). Consensus sequence is YGGTCACACTR. Marked spatial preference within core promoter; tend to occur near the TSS, although not as tightly as INR (SO:0000014)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12537576:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001158 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and +1 relative to the TSS. Consensus sequence is AWCAGCTGWT. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12537576:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001159 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, usually located between -50 and -10 relative to the TSS. Consensus sequence is KTYRGTATWTTT. Tends to co-occur with DMv4 (SO:0001157) . Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12537576:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001160 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, usually located between -30 and +15 relative to the TSS. Consensus sequence is KNNCAKCNCTRNY. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015) or MTE (0001162)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12537576:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001161 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and -45 relative to the TSS. Consensus sequence is MKSYGGCARCGSYSS. Tends to co-occur with DMv3 (SO:0001160). Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12537576:15231738"^^xsd:string, "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001162 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, usually located between +20 and +30 relative to the TSS. Consensus sequence is CSARCSSAACGS. Tends to co-occur with INR motif (SO:0000014). Tends to not occur with DPE motif (SO:0000015) or DMv5 (SO:0001159)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001163 ; owl:annotatedTarget "A promoter motif with consensus sequence TCATTCG."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001164 ; owl:annotatedTarget "A promoter motif with consensus sequence CGGACGT."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001165 ; owl:annotatedTarget "A promoter motif with consensus sequence CARCCCT."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001166 ; owl:annotatedTarget "A non directional promoter motif with consensus sequence GAGAGCG."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001167 ; owl:annotatedTarget "A non directional promoter motif with consensus CGMYGYCR."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16827941"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001168 ; owl:annotatedTarget "A non directional promoter motif with consensus sequence GAAAGCT."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001169 ; owl:annotatedTarget "A ds_RNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16537396"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001170 ; owl:annotatedTarget "A kind of DNA transposon that populates the genomes of protists, fungi, and animals, characterized by a unique set of proteins necessary for their transposition, including a protein-primed DNA polymerase B, retroviral integrase, cysteine protease, and ATPase. Polintons are characterized by 6-bp target site duplications, terminal-inverted repeats that are several hundred nucleotides long, and 5'-AG and TC-3' termini. Polintons exist as autonomous and nonautonomous elements."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001171 ; owl:annotatedTarget "A component of the large ribosomal subunit in mitochondrial rRNA."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001172 ; owl:annotatedTarget "A region of a tRNA."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0716719207"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001173 ; owl:annotatedTarget "A sequence of seven nucleotide bases in tRNA which contains the anticodon. It has the sequence 5'-pyrimidine-purine-anticodon-modified purine-any base-3."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001174 ; owl:annotatedTarget "A sequence of three nucleotide bases in tRNA which recognizes a codon in mRNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001174 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Anticodon"^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0716719207"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001175 ; owl:annotatedTarget "Base sequence at the 3' end of a tRNA. The 3'-hydroxyl group on the terminal adenosine is the attachment point for the amino acid."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:071671920"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001176 ; owl:annotatedTarget "Non-base-paired sequence of nucleotide bases in tRNA. It contains several dihydrouracil residues."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0716719207"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001177 ; owl:annotatedTarget "Non-base-paired sequence of three nucleotide bases in tRNA. It has sequence T-Psi-C."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001178 ; owl:annotatedTarget "A primary transcript encoding pyrrolysyl tRNA (SO:0000766)."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00012"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001179 ; owl:annotatedTarget "U3 snoRNA is a member of the box C/D class of small nucleolar RNAs. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localization, stability and hypermethylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001179 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Small_nucleolar_RNA_U3"^^xsd:string . [] oboInOwl:hasDbXref "PMID:7892223"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001180 ; owl:annotatedTarget "A cis-acting element found in the 3' UTR of some mRNA which is rich in AUUUA pentamers. Messenger RNAs bearing multiple AU-rich elements are often unstable."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001180 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/AU-rich_element"^^xsd:string . [] oboInOwl:hasDbXref "PMID:10893231"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001181 ; owl:annotatedTarget "A cis-acting element found in the 3' UTR of some mRNA which is bound by the Drosophila Bruno protein and its homologs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:3198610"^^xsd:string, "PMID:8710843"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001182 ; owl:annotatedTarget "A regulatory sequence found in the 5' and 3' UTRs of many mRNAs which encode iron-binding proteins. It has a hairpin structure and is recognized by trans-acting proteins known as iron-regulatory proteins."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001182 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Iron_responsive_element"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001183 ; owl:annotatedTarget "An attribute describing a sequence composed of nucleobases bound to a morpholino backbone. A morpholino backbone consists of morpholine (CHEBI:34856) rings connected by phosphorodiamidate linkages."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001183 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Morpholino"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001184 ; owl:annotatedTarget "An attribute describing a sequence composed of peptide nucleic acid (CHEBI:48021), a chemical consisting of nucleobases bound to a backbone composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001185 ; owl:annotatedTarget "An attribute describing the sequence of a transcript that has catalytic activity with or without an associated ribonucleoprotein."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001186 ; owl:annotatedTarget "An attribute describing the sequence of a transcript that has catalytic activity even without an associated ribonucleoprotein."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:started_by ; owl:annotatedTarget "X is strted_by Y if Y is part_of X and X and Y share a 5' boundary."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000108 ; owl:annotatedTarget "An mRNA with a frameshift."^^xsd:string . [] oboInOwl:hasDbXref "GOC:mah"^^xsd:string, "PMID:12457565"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001187 ; owl:annotatedTarget "A snoRNA that specifies the site of pseudouridylation in an RNA molecule by base pairing with a short sequence around the target residue."^^xsd:string . [] oboInOwl:hasDbXref "CHEBI:48010"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001188 ; owl:annotatedTarget "An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of 'locked' deoxyribose rings connected to a phosphate backbone. The deoxyribose unit's conformation is 'locked' by a 2'-C,4'-C-oxymethylene link."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001189 ; owl:annotatedTarget "An oligo composed of LNA residues."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001189 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Locked_nucleic_acid"^^xsd:string . [] oboInOwl:hasDbXref "CHEBI:48019"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001190 ; owl:annotatedTarget "An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of threose rings connected to a phosphate backbone."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000109 ; owl:annotatedTarget "A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001191 ; owl:annotatedTarget "An oligo composed of TNA residues."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001191 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Threose_nucleic_acid"^^xsd:string . [] oboInOwl:hasDbXref "CHEBI:48015"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001192 ; owl:annotatedTarget "An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of an acyclic three-carbon propylene glycol connected to a phosphate backbone. It has two enantiomeric forms, (R)-GNA and (S)-GNA."^^xsd:string . [] oboInOwl:hasDbXref "LAMHDI:mb"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000110 ; owl:annotatedTarget "Any extent of continuous biological sequence."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001193 ; owl:annotatedTarget "An oligo composed of GNA residues."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001193 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Glycerol_nucleic_acid"^^xsd:string . [] oboInOwl:hasDbXref "CHEBI:48016"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001194 ; owl:annotatedTarget "An attribute describing a GNA sequence in the (R)-GNA enantiomer."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001195 ; owl:annotatedTarget "An oligo composed of (R)-GNA residues."^^xsd:string . [] oboInOwl:hasDbXref "CHEBI:48017"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001196 ; owl:annotatedTarget "An attribute describing a GNA sequence in the (S)-GNA enantiomer."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001197 ; owl:annotatedTarget "An oligo composed of (S)-GNA residues."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001198 ; owl:annotatedTarget "A ds_DNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded DNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001199 ; owl:annotatedTarget "A ss_RNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as single stranded RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001200 ; owl:annotatedTarget "A negative_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that is complementary to mRNA and must be converted to positive sense RNA by RNA polymerase before translation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001201 ; owl:annotatedTarget "A positive_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that can be immediately translated by the host."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001202 ; owl:annotatedTarget "A ambisense_RNA_virus is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus with both messenger and anti messenger polarity."^^xsd:string . [] oboInOwl:hasDbXref "xenbase:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001203 ; owl:annotatedTarget "A region (DNA) to which RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "xenbase:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001204 ; owl:annotatedTarget "A region (DNA) to which Bacteriophage RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "xenbase:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001205 ; owl:annotatedTarget "A region (DNA) to which the SP6 RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "xenbase:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001206 ; owl:annotatedTarget "A DNA sequence to which the T3 RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "xenbase:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001207 ; owl:annotatedTarget "A region (DNA) to which the T7 RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/About/primer/est.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001208 ; owl:annotatedTarget "An EST read from the 5' end of a transcript that usually codes for a protein. These regions tend to be conserved across species and do not change much within a gene family."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/About/primer/est.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001209 ; owl:annotatedTarget "An EST read from the 3' end of a transcript. They are more likely to fall within non-coding, or untranslated regions(UTRs)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string, "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001210 ; owl:annotatedTarget "The region of mRNA (not divisible by 3 bases) that is skipped or added during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001210 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Translational_frameshift"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001211 ; owl:annotatedTarget "The region of mRNA 1 base long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001212 ; owl:annotatedTarget "The region of mRNA 2 bases long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11377794"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001213 ; owl:annotatedTarget "Group III introns are introns found in the mRNA of the plastids of euglenoid protists. They are spliced by a two step transesterification with bulged adenosine as initiating nucleophile."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001213 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Group_III_intron"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001214 ; owl:annotatedTarget "The maximal intersection of exon and UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001215 ; owl:annotatedTarget "The region of an exon that encodes for protein sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001216 ; owl:annotatedTarget "An intron that spliced via endonucleolytic cleavage and ligation rather than transesterification."^^xsd:string . [] oboInOwl:hasDbXref "SO:bm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001218 ; owl:annotatedTarget "An insertion that derives from another organism, via the use of recombinant DNA technology."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001220 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated by RNA interference."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001221 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated by histone modification."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001222 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated by histone methylation."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001223 ; owl:annotatedTarget "An attribute describing an epigenetic process where a gene is inactivated by histone deacetylation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000111 ; owl:annotatedTarget "A gene encoded within a transposable element. For example gag, int, env and pol are the transposable element genes of the TY element in yeast."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001224 ; owl:annotatedTarget "A gene that is silenced by RNA interference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000112 ; owl:annotatedTarget "An oligo to which new deoxyribonucleotides can be added by DNA polymerase."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001225 ; owl:annotatedTarget "A gene that is silenced by histone modification."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001226 ; owl:annotatedTarget "A gene that is silenced by histone methylation."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:starts ; owl:annotatedTarget "X starts Y if X is part of Y, and A and Y share a 5' or N-terminal boundary."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000112 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Primer_(molecular_biology)"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001227 ; owl:annotatedTarget "A gene that is silenced by histone deacetylation."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001228 ; owl:annotatedTarget "A modified RNA base in which the 5,6-dihydrouracil is bound to the ribose ring."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001228 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Dihydrouridine"^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001228 ; owl:annotatedTarget " D"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001229 ; owl:annotatedTarget "A modified RNA base in which the 5- position of the uracil is bound to the ribose ring instead of the 4- position."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001229 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Pseudouridine"^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001229 ; owl:annotatedTarget " Y"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000113 ; owl:annotatedTarget "A viral sequence which has integrated into a host genome."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string, "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001230 ; owl:annotatedTarget "A modified RNA base in which hypoxanthine is bound to the ribose ring."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001230 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Inosine"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001231 ; owl:annotatedTarget "A modified RNA base in which guanine is methylated at the 7- position."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001232 ; owl:annotatedTarget "A modified RNA base in which thymine is bound to the ribose ring."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001233 ; owl:annotatedTarget "A modified RNA base in which methylhypoxanthine is bound to the ribose ring."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001234 ; owl:annotatedTarget "An attribute describing a feature that has either intra-genome or intracellular mobility."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001234 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Mobile"^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0716719207"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001235 ; owl:annotatedTarget "A region containing at least one unique origin of replication and a unique termination site."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001235 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Replicon_(genetics)"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001236 ; owl:annotatedTarget "A base is a sequence feature that corresponds to a single unit of a nucleotide polymer."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000114 ; owl:annotatedTarget "A methylated deoxy-cytosine."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001236 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Nucleobase"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001237 ; owl:annotatedTarget "A sequence feature that corresponds to a single amino acid residue in a polypeptide."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001237 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Amino_acid"^^xsd:string . [] oboInOwl:hasDbXref "BBOP:nw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001240 ; owl:annotatedTarget "The region of a gene from the 5' most TSS to the 3' TSS."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001243 ; owl:annotatedTarget "A part of an miRNA primary_transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001244 ; owl:annotatedTarget "The 60-70 nucleotide region remain after Drosha processing of the primary transcript, that folds back upon itself to form a hairpin structure."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001245 ; owl:annotatedTarget "The stem of the hairpin loop formed by folding of the pre-miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000116 ; owl:annotatedTarget "An attribute describing a sequence that is modified by editing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001246 ; owl:annotatedTarget "The loop of the hairpin loop formed by folding of the pre-miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001247 ; owl:annotatedTarget "An oligo composed of synthetic nucleotides."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001248 ; owl:annotatedTarget "A region of the genome of known length that is composed by ordering and aligning two or more different regions."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001248 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Genome_assembly#Genome_assembly"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001249 ; owl:annotatedTarget "A fragment assembly is a genome assembly that orders overlapping fragments of the genome based on landmark sequences. The base pair distance between the landmarks is known allowing additivity of lengths."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001250 ; owl:annotatedTarget "A fingerprint_map is a physical map composed of restriction fragments."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001251 ; owl:annotatedTarget "An STS map is a physical map organized by the unique STS landmarks."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001252 ; owl:annotatedTarget "A radiation hybrid map is a physical map."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001253 ; owl:annotatedTarget "A DNA fragment generated by sonication. Sonication is a technique used to sheer DNA into smaller fragments."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001254 ; owl:annotatedTarget "A kind of chromosome variation where the chromosome complement is an exact multiple of the haploid number and is greater than the diploid number."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001254 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Polyploid"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001255 ; owl:annotatedTarget "A polyploid where the multiple chromosome set was derived from the same organism."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001255 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Autopolyploid"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001256 ; owl:annotatedTarget "A polyploid where the multiple chromosome set was derived from a different organism."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001256 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Allopolyploid"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001257 ; owl:annotatedTarget "The binding site (recognition site) of a homing endonuclease. The binding site is typically large."^^xsd:string . [] oboInOwl:hasDbXref "GOC:dh"^^xsd:string, "PMID:3095662"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001258 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters with sequence ATTGCAT that binds Pou-domain transcription factors."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001259 ; owl:annotatedTarget "A chromosome originating in an apicoplast."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001260 ; owl:annotatedTarget "A collection of discontinuous sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001261 ; owl:annotatedTarget "A continuous region of sequence composed of the overlapping of multiple sequence_features, which ultimately provides evidence for another sequence_feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001262 ; owl:annotatedTarget "A continous experimental result region extending the length of multiple overlapping EST's."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Small_nuclear_RNA"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001268 ; owl:annotatedTarget "A gene that encodes a small nuclear RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000118 ; owl:annotatedTarget "A transcript with a translational frameshift."^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:transcribed_from ; owl:annotatedTarget "X is transcribed_from Y if X is synthesized from template Y."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000119 ; owl:annotatedTarget "An attribute to describe a sequence that is regulated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001273 ; owl:annotatedTarget "A modified adenine is an adenine base feature that has been altered."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001274 ; owl:annotatedTarget "A modified inosine is an inosine base feature that has been altered."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001275 ; owl:annotatedTarget "A modified cytidine is a cytidine base feature which has been altered."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001278 ; owl:annotatedTarget "1-methylinosine is a modified inosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001278 ; owl:annotatedTarget "m1I"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001279 ; owl:annotatedTarget "1,2'-O-dimethylinosine is a modified inosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001279 ; owl:annotatedTarget "m'Im"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001280 ; owl:annotatedTarget "2'-O-methylinosine is a modified inosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001280 ; owl:annotatedTarget "Im"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001281 ; owl:annotatedTarget "3-methylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000120 ; owl:annotatedTarget "A primary transcript that, at least in part, encodes one or more proteins."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001281 ; owl:annotatedTarget "m3C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001282 ; owl:annotatedTarget "5-methylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001282 ; owl:annotatedTarget "m5C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001283 ; owl:annotatedTarget "2'-O-methylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001283 ; owl:annotatedTarget "Cm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001284 ; owl:annotatedTarget "2-thiocytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001284 ; owl:annotatedTarget "s2C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001285 ; owl:annotatedTarget "N4-acetylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001285 ; owl:annotatedTarget "ac4C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001286 ; owl:annotatedTarget "5-formylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001286 ; owl:annotatedTarget "f5C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001287 ; owl:annotatedTarget "5,2'-O-dimethylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001287 ; owl:annotatedTarget "m5Cm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001288 ; owl:annotatedTarget "N4-acetyl-2'-O-methylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001288 ; owl:annotatedTarget "ac4Cm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001289 ; owl:annotatedTarget "Lysidine is a modified cytidine."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001289 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Lysidine"^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001289 ; owl:annotatedTarget "k2C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001290 ; owl:annotatedTarget "N4-methylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001290 ; owl:annotatedTarget "m4C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001291 ; owl:annotatedTarget "N4,2'-O-dimethylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001291 ; owl:annotatedTarget "m4Cm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001292 ; owl:annotatedTarget "5-hydroxymethylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001292 ; owl:annotatedTarget "hm5C"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001293 ; owl:annotatedTarget "5-formyl-2'-O-methylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001293 ; owl:annotatedTarget "f5Cm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001294 ; owl:annotatedTarget "N4_N4_2_prime_O_trimethylcytidine is a modified cytidine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001294 ; owl:annotatedTarget "m42Cm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001295 ; owl:annotatedTarget "1_methyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001295 ; owl:annotatedTarget "m1A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001296 ; owl:annotatedTarget "2_methyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001296 ; owl:annotatedTarget "m2A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001297 ; owl:annotatedTarget "N6_methyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001297 ; owl:annotatedTarget "m6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001298 ; owl:annotatedTarget "2prime_O_methyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001298 ; owl:annotatedTarget "Am"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001299 ; owl:annotatedTarget "2_methylthio_N6_methyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001299 ; owl:annotatedTarget "ms2m6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001300 ; owl:annotatedTarget "N6_isopentenyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001300 ; owl:annotatedTarget "i6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001301 ; owl:annotatedTarget "2_methylthio_N6_isopentenyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001301 ; owl:annotatedTarget "ms2i6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001302 ; owl:annotatedTarget "N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001302 ; owl:annotatedTarget "io6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001303 ; owl:annotatedTarget "2_methylthio_N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001303 ; owl:annotatedTarget "ms2io6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001304 ; owl:annotatedTarget "N6_glycinylcarbamoyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001304 ; owl:annotatedTarget "g6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001305 ; owl:annotatedTarget "N6_threonylcarbamoyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001305 ; owl:annotatedTarget "t6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001306 ; owl:annotatedTarget "2_methylthio_N6_threonyl_carbamoyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001306 ; owl:annotatedTarget "ms2t6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001307 ; owl:annotatedTarget "N6_methyl_N6_threonylcarbamoyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001307 ; owl:annotatedTarget "m6t6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001308 ; owl:annotatedTarget "N6_hydroxynorvalylcarbamoyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001308 ; owl:annotatedTarget "hn6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001309 ; owl:annotatedTarget "2_methylthio_N6_hydroxynorvalyl_carbamoyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001309 ; owl:annotatedTarget "ms2hn6A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001310 ; owl:annotatedTarget "2prime_O_ribosyladenosine_phosphate is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001310 ; owl:annotatedTarget "Ar(p)"^^xsd:string . [] oboInOwl:hasDbXref "http://mged.sourceforge.net/ontologies/MGEDontology.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000121 ; owl:annotatedTarget "A single stranded oligo used for polymerase chain reaction."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001311 ; owl:annotatedTarget "N6_N6_dimethyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001311 ; owl:annotatedTarget "m62A"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001312 ; owl:annotatedTarget "N6_2prime_O_dimethyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001312 ; owl:annotatedTarget "m6Am"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001313 ; owl:annotatedTarget "N6_N6_2prime_O_trimethyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001313 ; owl:annotatedTarget "m62Am"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001314 ; owl:annotatedTarget "1,2'-O-dimethyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001314 ; owl:annotatedTarget "m1Am"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001315 ; owl:annotatedTarget "N6_acetyladenosine is a modified adenosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001315 ; owl:annotatedTarget "ac6A"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000122 ; owl:annotatedTarget "A folded RNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001316 ; owl:annotatedTarget "7-deazaguanosine is a modified guanosine."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001317 ; owl:annotatedTarget "Queuosine is a modified 7-deazoguanosine."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001317 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Queuosine"^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001317 ; owl:annotatedTarget " Q"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001318 ; owl:annotatedTarget "Epoxyqueuosine is a modified 7-deazoguanosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001318 ; owl:annotatedTarget "eQ"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001319 ; owl:annotatedTarget "Galactosyl_queuosine is a modified 7-deazoguanosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001319 ; owl:annotatedTarget "galQ"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001320 ; owl:annotatedTarget "Mannosyl_queuosine is a modified 7-deazoguanosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001320 ; owl:annotatedTarget "manQ"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000123 ; owl:annotatedTarget "An attribute describing a gene that is regulated at transcription."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001321 ; owl:annotatedTarget "7_cyano_7_deazaguanosine is a modified 7-deazoguanosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001321 ; owl:annotatedTarget "preQ0"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001322 ; owl:annotatedTarget "7_aminomethyl_7_deazaguanosine is a modified 7-deazoguanosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001322 ; owl:annotatedTarget "preQ1"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001323 ; owl:annotatedTarget "Archaeosine is a modified 7-deazoguanosine."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001323 ; owl:annotatedTarget "G+"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001324 ; owl:annotatedTarget "1_methylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001324 ; owl:annotatedTarget "m1G"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001325 ; owl:annotatedTarget "N2_methylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001325 ; owl:annotatedTarget "m2G"^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:transcribed_to ; owl:annotatedTarget "Inverse of transcribed_from."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000124 ; owl:annotatedTarget "Expressed in relatively constant amounts without regard to cellular environmental conditions such as the concentration of a particular substrate."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001326 ; owl:annotatedTarget "7_methylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001326 ; owl:annotatedTarget "m7G"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001327 ; owl:annotatedTarget "2prime_O_methylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001327 ; owl:annotatedTarget "Gm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001328 ; owl:annotatedTarget "N2_N2_dimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001328 ; owl:annotatedTarget "m22G"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001329 ; owl:annotatedTarget "N2_2prime_O_dimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001329 ; owl:annotatedTarget "m2Gm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001330 ; owl:annotatedTarget "N2_N2_2prime_O_trimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001330 ; owl:annotatedTarget "m22Gmv"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000125 ; owl:annotatedTarget "An inducer molecule is required for transcription to occur."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001331 ; owl:annotatedTarget "2prime_O_ribosylguanosine_phosphate is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001331 ; owl:annotatedTarget "Gr(p)"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001332 ; owl:annotatedTarget "Wybutosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001332 ; owl:annotatedTarget "yW"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001333 ; owl:annotatedTarget "Peroxywybutosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001333 ; owl:annotatedTarget "o2yW"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001334 ; owl:annotatedTarget "Hydroxywybutosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001334 ; owl:annotatedTarget "OHyW"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001335 ; owl:annotatedTarget "Undermodified_hydroxywybutosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001335 ; owl:annotatedTarget "OHyW*"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000126 ; owl:annotatedTarget "A repressor molecule is required for transcription to stop."^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001336 ; owl:annotatedTarget "Wyosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001336 ; owl:annotatedTarget "IMG"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001337 ; owl:annotatedTarget "Methylwyosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001337 ; owl:annotatedTarget "mimG"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001338 ; owl:annotatedTarget "N2_7_dimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001338 ; owl:annotatedTarget "m2,7G"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001339 ; owl:annotatedTarget "N2_N2_7_trimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001339 ; owl:annotatedTarget "m2,2,7G"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001340 ; owl:annotatedTarget "1_2prime_O_dimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001340 ; owl:annotatedTarget "m1Gm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001341 ; owl:annotatedTarget "4_demethylwyosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001341 ; owl:annotatedTarget "imG-14"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001342 ; owl:annotatedTarget "Isowyosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001342 ; owl:annotatedTarget "imG2"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001343 ; owl:annotatedTarget "N2_7_2prirme_O_trimethylguanosine is a modified guanosine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001343 ; owl:annotatedTarget "m2,7Gm"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001344 ; owl:annotatedTarget "5_methyluridine is a modified uridine base feature."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001344 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/5-methyluridine"^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001344 ; owl:annotatedTarget "m5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001345 ; owl:annotatedTarget "2prime_O_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001345 ; owl:annotatedTarget "Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001346 ; owl:annotatedTarget "5_2_prime_O_dimethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001346 ; owl:annotatedTarget "m5Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001347 ; owl:annotatedTarget "1_methylpseudouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001347 ; owl:annotatedTarget "m1Y"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001348 ; owl:annotatedTarget "2prime_O_methylpseudouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001348 ; owl:annotatedTarget "Ym"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001349 ; owl:annotatedTarget "2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001349 ; owl:annotatedTarget "s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001350 ; owl:annotatedTarget "4_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001350 ; owl:annotatedTarget "s4U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001351 ; owl:annotatedTarget "5_methyl_2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001351 ; owl:annotatedTarget "m5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001352 ; owl:annotatedTarget "2_thio_2prime_O_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001352 ; owl:annotatedTarget "s2Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001353 ; owl:annotatedTarget "3_3_amino_3_carboxypropyl_uridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001353 ; owl:annotatedTarget "acp3U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001354 ; owl:annotatedTarget "5_hydroxyuridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001354 ; owl:annotatedTarget "ho5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001355 ; owl:annotatedTarget "5_methoxyuridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001355 ; owl:annotatedTarget "mo5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001356 ; owl:annotatedTarget "Uridine_5_oxyacetic_acid is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001356 ; owl:annotatedTarget "cmo5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001357 ; owl:annotatedTarget "Uridine_5_oxyacetic_acid_methyl_ester is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001357 ; owl:annotatedTarget "mcmo5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001358 ; owl:annotatedTarget "5_carboxyhydroxymethyl_uridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001358 ; owl:annotatedTarget "chm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001359 ; owl:annotatedTarget "5_carboxyhydroxymethyl_uridine_methyl_ester is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001359 ; owl:annotatedTarget "mchm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001360 ; owl:annotatedTarget "Five_methoxycarbonylmethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001360 ; owl:annotatedTarget "mcm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001361 ; owl:annotatedTarget "Five_methoxycarbonylmethyl_2_prime_O_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001361 ; owl:annotatedTarget "mcm5Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001362 ; owl:annotatedTarget "5_methoxycarbonylmethyl_2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001362 ; owl:annotatedTarget "mcm5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001363 ; owl:annotatedTarget "5_aminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001363 ; owl:annotatedTarget "nm5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001364 ; owl:annotatedTarget "5_methylaminomethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001364 ; owl:annotatedTarget "mnm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001365 ; owl:annotatedTarget "5_methylaminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000127 ; owl:annotatedTarget "A gene that is silenced."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001365 ; owl:annotatedTarget "mnm5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001366 ; owl:annotatedTarget "5_methylaminomethyl_2_selenouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001366 ; owl:annotatedTarget "mnm5se2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001367 ; owl:annotatedTarget "5_carbamoylmethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001367 ; owl:annotatedTarget "ncm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001368 ; owl:annotatedTarget "5_carbamoylmethyl_2_prime_O_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001368 ; owl:annotatedTarget "ncm5Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001369 ; owl:annotatedTarget "5_carboxymethylaminomethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001369 ; owl:annotatedTarget "cmnm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001370 ; owl:annotatedTarget "5_carboxymethylaminomethyl_2_prime_O_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001370 ; owl:annotatedTarget "cmnm5Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001371 ; owl:annotatedTarget "5_carboxymethylaminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001371 ; owl:annotatedTarget "cmnm5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001372 ; owl:annotatedTarget "3_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001372 ; owl:annotatedTarget "m3U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001373 ; owl:annotatedTarget "1_methyl_3_3_amino_3_carboxypropyl_pseudouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001373 ; owl:annotatedTarget "m1acp3Y"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001374 ; owl:annotatedTarget "5_carboxymethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001374 ; owl:annotatedTarget "cm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001375 ; owl:annotatedTarget "3_2prime_O_dimethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:translates_to ; owl:annotatedTarget "Inverse of translation _of."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001375 ; owl:annotatedTarget "m3Um"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001376 ; owl:annotatedTarget "5_methyldihydrouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001376 ; owl:annotatedTarget "m5D"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001377 ; owl:annotatedTarget "3_methylpseudouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001377 ; owl:annotatedTarget "m3Y"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001378 ; owl:annotatedTarget "5_taurinomethyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001378 ; owl:annotatedTarget "tm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001379 ; owl:annotatedTarget "5_taurinomethyl_2_thiouridineis a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001379 ; owl:annotatedTarget "tm5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001380 ; owl:annotatedTarget "5_isopentenylaminomethyl_uridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001380 ; owl:annotatedTarget "inm5U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001381 ; owl:annotatedTarget "5_isopentenylaminomethyl_2_thiouridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001381 ; owl:annotatedTarget "inm5s2U"^^xsd:string . [] oboInOwl:hasDbXref "http://library.med.utah.edu/RNAmods/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001382 ; owl:annotatedTarget "5_isopentenylaminomethyl_2prime_O_methyluridine is a modified uridine base feature."^^xsd:string . [] oboInOwl:hasSynonymType so:RNAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001382 ; owl:annotatedTarget "inm5Um"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001383 ; owl:annotatedTarget "A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a histone."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001385 ; owl:annotatedTarget "A post translationally modified amino acid feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001386 ; owl:annotatedTarget "A post translationally modified glycine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001386 ; owl:annotatedTarget "ModGly"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001387 ; owl:annotatedTarget "A post translationally modified alanine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001387 ; owl:annotatedTarget "ModAla"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001388 ; owl:annotatedTarget "A post translationally modified asparagine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001388 ; owl:annotatedTarget "ModAsn"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001389 ; owl:annotatedTarget "A post translationally modified aspartic acid amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001389 ; owl:annotatedTarget "ModAsp"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001390 ; owl:annotatedTarget "A post translationally modified cysteine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001390 ; owl:annotatedTarget "ModCys"^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001391 ; owl:annotatedTarget "ModGlu"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001392 ; owl:annotatedTarget "A post translationally modified threonine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001392 ; owl:annotatedTarget "ModThr"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001393 ; owl:annotatedTarget "A post translationally modified tryptophan amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001393 ; owl:annotatedTarget "ModTrp"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001394 ; owl:annotatedTarget "A post translationally modified glutamine amino acid feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001395 ; owl:annotatedTarget "A post translationally modified methionine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001395 ; owl:annotatedTarget "ModMet"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000128 ; owl:annotatedTarget "A gene that is silenced by DNA modification."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001396 ; owl:annotatedTarget "A post translationally modified isoleucine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001396 ; owl:annotatedTarget "ModIle"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001397 ; owl:annotatedTarget "A post translationally modified phenylalanine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001397 ; owl:annotatedTarget "ModPhe"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001398 ; owl:annotatedTarget "A post translationally modified histidine amino acid feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001399 ; owl:annotatedTarget "A post translationally modified serine amino acid feature."^^xsd:string . [] a owl:Axiom ; rdfs:label "http://www.psidev.info/index.php?q=node/104"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001399 ; owl:annotatedTarget "MOD:00916"^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001399 ; owl:annotatedTarget "MosSer"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001400 ; owl:annotatedTarget "A post translationally modified lysine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001400 ; owl:annotatedTarget "ModLys"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001401 ; owl:annotatedTarget "A post translationally modified leucine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001401 ; owl:annotatedTarget "ModLeu"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001402 ; owl:annotatedTarget "A post translationally modified selenocysteine amino acid feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001403 ; owl:annotatedTarget "A post translationally modified valine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001403 ; owl:annotatedTarget "ModVal"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001404 ; owl:annotatedTarget "A post translationally modified proline amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001404 ; owl:annotatedTarget "ModPro"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001405 ; owl:annotatedTarget "A post translationally modified tyrosine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001405 ; owl:annotatedTarget "ModTry"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001406 ; owl:annotatedTarget "A post translationally modified arginine amino acid feature."^^xsd:string . [] oboInOwl:hasSynonymType so:AAMOD ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001406 ; owl:annotatedTarget "ModArg"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001407 ; owl:annotatedTarget "An attribute describing the nature of a proteinaceous polymer, where by the amino acid units are joined by peptide bonds."^^xsd:string . [] oboInOwl:hasDbXref "EBI:rh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001408 ; owl:annotatedTarget "The C-terminal residues of a polypeptide which are exchanged for a GPI-anchor."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001409 ; owl:annotatedTarget "A region which is intended for use in an experiment."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001410 ; owl:annotatedTarget "A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001411 ; owl:annotatedTarget "A region defined by its disposition to be involved in a biological process."^^xsd:string . [] oboInOwl:hasDbXref "PMID:32782014"^^xsd:string, "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001412 ; owl:annotatedTarget "A DNA region within which self-interaction occurs more often than expected by chance because of DNA-looping."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001413 ; owl:annotatedTarget "The point within a chromosome where a translocation begins or ends."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001414 ; owl:annotatedTarget "The point within a chromosome where a insertion begins or ends."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001415 ; owl:annotatedTarget "The point within a chromosome where a deletion begins or ends."^^xsd:string . [] oboInOwl:hasDbXref "SO:chado"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001416 ; owl:annotatedTarget "A flanking region located five prime of a specific region."^^xsd:string . [] oboInOwl:hasDbXref "SO:chado"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001417 ; owl:annotatedTarget "A flanking region located three prime of a specific region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001418 ; owl:annotatedTarget "An experimental region, defined by a tiling array experiment to be transcribed at some level."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001419 ; owl:annotatedTarget "Intronic 2 bp region bordering exon. A splice_site that adjacent_to exon and overlaps intron."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001420 ; owl:annotatedTarget "Primary transcript region bordering trans-splice junction."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001421 ; owl:annotatedTarget "The boundary between an intron and an exon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001422 ; owl:annotatedTarget "A region of a polypeptide, involved in the transition from one conformational state to another."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001423 ; owl:annotatedTarget "A read produced by the dye terminator method of sequencing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001424 ; owl:annotatedTarget "A read produced by pyrosequencing technology."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001425 ; owl:annotatedTarget "A read produced by ligation based sequencing technologies."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001426 ; owl:annotatedTarget "A read produced by the polymerase based sequence by synthesis method."^^xsd:string . [] oboInOwl:hasDbXref "RFAM:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001427 ; owl:annotatedTarget "A structural region in an RNA molecule which promotes ribosomal frameshifting of cis coding sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001428 ; owl:annotatedTarget "A sequence assembly derived from expressed sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001429 ; owl:annotatedTarget "A binding site that, in the molecule, interacts selectively and non-covalently with DNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001431 ; owl:annotatedTarget "A gene that is not transcribed under normal conditions and is not critical to normal cellular functioning."^^xsd:string . [] oboInOwl:hasDbXref "modENCODE:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001433 ; owl:annotatedTarget "A three prime RACE (Rapid Amplification of cDNA Ends) clone is a cDNA clone copied from the 3' end of an mRNA (using a poly-dT primer to capture the polyA tail and a gene-specific or randomly primed 5' primer), and spliced into a vector for propagation in a suitable host."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001434 ; owl:annotatedTarget "A cassette pseudogene is a kind of gene in an inactive form which may recombine at a telomeric locus to form a functional copy."^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001435 ; owl:annotatedTarget "A"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001435 ; owl:annotatedTarget "Ala"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001436 ; owl:annotatedTarget "V"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001436 ; owl:annotatedTarget "Val"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001437 ; owl:annotatedTarget "L"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001437 ; owl:annotatedTarget "Leu"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001438 ; owl:annotatedTarget "I"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001438 ; owl:annotatedTarget "Ile"^^xsd:string . [] oboInOwl:hasDbXref "http://precedings.nature.com/documents/3495/version/1"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:translation_of ; owl:annotatedTarget "X is translation of Y if Y is translated by ribosome to create X."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000129 ; owl:annotatedTarget "A gene that is silenced by DNA methylation."^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001439 ; owl:annotatedTarget "P"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001439 ; owl:annotatedTarget "Pro"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001440 ; owl:annotatedTarget "Trp"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001440 ; owl:annotatedTarget "W"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001441 ; owl:annotatedTarget "F"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001441 ; owl:annotatedTarget "Phe"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001442 ; owl:annotatedTarget "M"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001442 ; owl:annotatedTarget "Met"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001443 ; owl:annotatedTarget "G"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001443 ; owl:annotatedTarget "Gly"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000130 ; owl:annotatedTarget "An attribute describing a gene that is regulated after it has been translated."^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001444 ; owl:annotatedTarget "S"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001444 ; owl:annotatedTarget "Ser"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001445 ; owl:annotatedTarget "T"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001445 ; owl:annotatedTarget "Thr"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001446 ; owl:annotatedTarget "Tyr"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001446 ; owl:annotatedTarget "Y"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001447 ; owl:annotatedTarget "C"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001447 ; owl:annotatedTarget "Cys"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001448 ; owl:annotatedTarget "Gln"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001448 ; owl:annotatedTarget "Q"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000131 ; owl:annotatedTarget "An attribute describing a gene that is regulated as it is translated."^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001449 ; owl:annotatedTarget "Asn"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001449 ; owl:annotatedTarget "N"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001450 ; owl:annotatedTarget "K"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001450 ; owl:annotatedTarget "Lys"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001451 ; owl:annotatedTarget "Arg"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001451 ; owl:annotatedTarget "R"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001452 ; owl:annotatedTarget "H"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001452 ; owl:annotatedTarget "His"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001453 ; owl:annotatedTarget "Asp"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001453 ; owl:annotatedTarget "D"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001454 ; owl:annotatedTarget "E"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001454 ; owl:annotatedTarget "Glu"^^xsd:string . [] oboInOwl:hasDbXref "PMID:23275319"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001455 ; owl:annotatedTarget "A relatively rare amino acid encoded by the codon UGA in some contexts, whereas UGA is a termination codon in other contexts."^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001455 ; owl:annotatedTarget "Sec"^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001455 ; owl:annotatedTarget "U"^^xsd:string . [] oboInOwl:hasDbXref "PMID:15788401"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001456 ; owl:annotatedTarget "A relatively rare amino acid encoded by the codon UAG in some contexts, whereas UAG is a termination codon in other contexts."^^xsd:string . [] oboInOwl:hasSynonymType so:aa1 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001456 ; owl:annotatedTarget "O"^^xsd:string . [] oboInOwl:hasSynonymType so:aa3 ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001456 ; owl:annotatedTarget "Pyl"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001457 ; owl:annotatedTarget "A region defined by a set of transcribed sequences from the same gene or expressed pseudogene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001458 ; owl:annotatedTarget "A kind of transcribed_cluster defined by a set of transcribed sequences from the a unique gene."^^xsd:string . [] oboInOwl:hasDbXref "RFAM:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001459 ; owl:annotatedTarget "Clustered Palindromic Repeats interspersed with bacteriophage derived spacer sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001460 ; owl:annotatedTarget "A binding site that, in an insulator region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001461 ; owl:annotatedTarget "A binding site that, in the enhancer region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001462 ; owl:annotatedTarget "A collection of contigs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19182780"^^xsd:string, "PMID:23463798"^^xsd:string, "SO:ke"^^xsd:string, "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001463 ; owl:annotatedTarget "Long, intervening non-coding RNA. A transcript that does not overlap within the start or end genomic coordinates of a coding gene or pseudogene on either strand."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001464 ; owl:annotatedTarget "An EST spanning part or all of the untranslated regions of a protein-coding transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001465 ; owl:annotatedTarget "A UST located in the 3'UTR of a protein-coding transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001466 ; owl:annotatedTarget "An UST located in the 5'UTR of a protein-coding transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001467 ; owl:annotatedTarget "A tag produced from a single sequencing read from a RACE product; typically a few hundred base pairs long."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001468 ; owl:annotatedTarget "A tag produced from a single sequencing read from a 3'-RACE product; typically a few hundred base pairs long."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001469 ; owl:annotatedTarget "A tag produced from a single sequencing read from a 5'-RACE product; typically a few hundred base pairs long."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001470 ; owl:annotatedTarget "A match against an UST sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001471 ; owl:annotatedTarget "A match against an RST sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001472 ; owl:annotatedTarget "A nucleotide match to a primer sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001473 ; owl:annotatedTarget "A region of the pri miRNA that base pairs with the guide to form the hairpin."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001474 ; owl:annotatedTarget "The boundary between the spliced leader and the first exon of the mRNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16401417"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001475 ; owl:annotatedTarget "A region of a primary transcript, that is removed via trans splicing."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001476 ; owl:annotatedTarget "A plasmid that occurs naturally."^^xsd:string . [] oboInOwl:hasDbXref "ZFIN:dh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001477 ; owl:annotatedTarget "A gene trap construct is a type of engineered plasmid which is designed to integrate into a genome and produce a fusion transcript between exons of the gene into which it inserts and a reporter element in the construct. Gene traps contain a splice acceptor, do not contain promoter elements for the reporter, and are mutagenic. Gene traps may be bicistronic with the second cassette containing a promoter driving an a selectable marker."^^xsd:string . [] oboInOwl:hasDbXref "ZFIN:dh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001478 ; owl:annotatedTarget "A promoter trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when inserted in close proximity to a promoter element. Promoter traps typically do not contain promoter elements and are mutagenic."^^xsd:string . [] oboInOwl:hasDbXref "ZFIN:dh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001479 ; owl:annotatedTarget "An enhancer trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when the expression from a basic minimal promoter is enhanced by genomic enhancer elements. Enhancer traps contain promoter elements and are not usually mutagenic."^^xsd:string . [] oboInOwl:hasDbXref "ZFIN:mh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001480 ; owl:annotatedTarget "A region of sequence from the end of a PAC clone that may provide a highly specific marker."^^xsd:string . [] oboInOwl:hasDbXref "ZFIN:mh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001481 ; owl:annotatedTarget "RAPD is a 'PCR product' where a sequence variant is identified through the use of PCR with random primers."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22083793"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001482 ; owl:annotatedTarget "An enhancer that drives the pattern of transcription and binds to the same TF as the primary enhancer, but is located in the intron of or on the far side of a neighboring gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:bm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001483 ; owl:annotatedTarget "SNVs are single nucleotide positions in genomic DNA at which different sequence alternatives exist."^^xsd:string . [] oboInOwl:hasDbXref "http://mged.sourceforge.net/ontologies/MGEDontology.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000132 ; owl:annotatedTarget "A single stranded oligo used for polymerase chain reaction."^^xsd:string . [] oboInOwl:hasDbXref "http://www.yeastgenome.org/help/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001484 ; owl:annotatedTarget "An X element combinatorial repeat is a repeat region located between the X element and the telomere or adjacent Y' element."^^xsd:string . [] oboInOwl:hasDbXref "http:http://www.yeastgenome.org/help/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001485 ; owl:annotatedTarget "A Y' element is a repeat region (SO:0000657) located adjacent to telomeric repeats or X element combinatorial repeats, either as a single copy or tandem repeat of two to four copies."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001486 ; owl:annotatedTarget "The status of a whole genome sequence, where the data is minimally filtered or un-filtered, from any number of sequencing platforms, and is assembled into contigs. Genome sequence of this quality may harbour regions of poor quality and can be relatively incomplete."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001487 ; owl:annotatedTarget "The status of a whole genome sequence, where overall coverage represents at least 90 percent of the genome."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001488 ; owl:annotatedTarget "The status of a whole genome sequence, where additional work has been performed, using either manual or automated methods, such as gap resolution."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001489 ; owl:annotatedTarget "The status of a whole genome sequence,where annotation, and verification of coding regions has occurred."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001490 ; owl:annotatedTarget "The status of a whole genome sequence, where the assembly is high quality, closure approaches have been successful for most gaps, misassemblies and low quality regions."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001491 ; owl:annotatedTarget "The status of a whole genome sequence, with less than 1 error per 100,000 base pairs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000133 ; owl:annotatedTarget "This attribute describes a gene where heritable changes other than those in the DNA sequence occur. These changes include: modification to the DNA (such as DNA methylation, the covalent modification of cytosine), and post-translational modification of histones."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001492 ; owl:annotatedTarget "A regulatory region that is part of an intron."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11222754"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001493 ; owl:annotatedTarget "A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region composed of 8-11bp which enables binding by the centromere binding factor 1(Cbf1p)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11222754"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001494 ; owl:annotatedTarget "A centromere DNA Element II (CDEII) is part a conserved region of the centromere, consisting of a consensus region that is AT-rich and ~ 75-100 bp in length."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11222754"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001495 ; owl:annotatedTarget "A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region that consists of a 25-bp which enables binding by the centromere DNA binding factor 3 (CBF3) complex."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8720065"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001496 ; owl:annotatedTarget "The telomeric repeat is a repeat region, part of the chromosome, which in yeast, is a G-rich terminal sequence of the form (TG(1-3))n or more precisely ((TG)(1-6)TG(2-3))n."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:connects_on ; owl:annotatedTarget "X connects_on Y, Z, R iff whenever Z is on a R, X is adjacent to a Y and adjacent to a Z."^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:variant_of ; owl:annotatedTarget "A' is a variant (mutation) of A = definition every instance of A' is either an immediate mutation of some instance of A, or there is a chain of immediate mutation processes linking A' to some instance of A."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000134 ; owl:annotatedTarget "Imprinted genes are epigenetically modified genes that are expressed monoallelically according to their parent of origin."^^xsd:string . [] oboInOwl:hasDbXref "PMID:7785338"^^xsd:string, "PMID:8005434"^^xsd:string, "http://www.yeastgenome.org/help/glossary.html#xelemcoresequence"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001497 ; owl:annotatedTarget "The X element is a conserved region, of the telomere, of ~475 bp that contains an ARS sequence and in most cases an Abf1p binding site."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001498 ; owl:annotatedTarget "A region of sequence from the end of a YAC clone that may provide a highly specific marker."^^xsd:string . [] oboInOwl:hasDbXref "DOI:10.1126"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001499 ; owl:annotatedTarget "The status of whole genome sequence."^^xsd:string . [] oboInOwl:hasDbXref "JAX:hdene"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001500 ; owl:annotatedTarget "A biological_region characterized as a single heritable trait in a phenotype screen. The heritable phenotype may be mapped to a chromosome but generally has not been characterized to a specific gene locus."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000134 ; owl:annotatedTarget "http:http://en.wikipedia.org/wiki/Genomic_imprinting"^^xsd:string . [] oboInOwl:hasDbXref "BBOP:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001501 ; owl:annotatedTarget "A collection of peptide sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001502 ; owl:annotatedTarget "An experimental feature with high sequence identity to another sequence."^^xsd:string . [] oboInOwl:hasDbXref "MGI:hdeen"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001503 ; owl:annotatedTarget "A transcript for which no open reading frame has been identified and for which no other function has been determined."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001504 ; owl:annotatedTarget "A chromosome variation derived from an event during meiosis."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001505 ; owl:annotatedTarget "A collection of sequences (often chromosomes) taken as the standard for a given organism and genome assembly."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001506 ; owl:annotatedTarget "A collection of sequences (often chromosomes) of an individual."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000135 ; owl:annotatedTarget "The maternal copy of the gene is modified, rendering it transcriptionally silent."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001507 ; owl:annotatedTarget "A collection of one or more sequences of an individual."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001512 ; owl:annotatedTarget "A quality of a chromosomal insertion,."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001514 ; owl:annotatedTarget "A quality of an insertion where the insert is not in a cytologically inverted orientation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001515 ; owl:annotatedTarget "A quality of an insertion where the insert is in a cytologically inverted orientation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001516 ; owl:annotatedTarget "The quality of a duplication where the new region exists independently of the original."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001525 ; owl:annotatedTarget "A region of sequence where the final nucleotide assignment differs from the original assembly due to an improvement that replaces a mistake."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001526 ; owl:annotatedTarget "A region of sequence where the final nucleotide assignment is different from that given by the base caller due to an improvement that replaces a mistake."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001527 ; owl:annotatedTarget "A region of peptide sequence used to target the polypeptide molecule to a specific organelle."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001528 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to the nucleus."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000136 ; owl:annotatedTarget "The paternal copy of the gene is modified, rendering it transcriptionally silent."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001528 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Nuclear_localization_signal"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001529 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to the endosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001530 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to the lysosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001531 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to he cytoplasm."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001532 ; owl:annotatedTarget "A region recognized by a recombinase."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001532 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Recombination_Signal_Sequences"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001533 ; owl:annotatedTarget "A splice site that is in part of the transcript not normally spliced. They occur via mutation or transcriptional error."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001534 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to the nuclear rim."^^xsd:string . [] oboInOwl:hasDbXref "PMID:6309410"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001535 ; owl:annotatedTarget "A P-element is a DNA transposon responsible for hybrid dysgenesis. P elements in this terminal inverted repeat (TIR) transposon superfamily have 31 bp perfect TIR and upon insertion duplicate an 8 bp sequence. It contains transposase that may lack the DDE domain."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001536 ; owl:annotatedTarget "A variant whereby the effect is evaluated with respect to a reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000137 ; owl:annotatedTarget "Allelic exclusion is a process occurring in diploid organisms, where a gene is inactivated and not expressed in that cell."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001537 ; owl:annotatedTarget "A sequence variant that changes one or more sequence features."^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001537 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001537 ; owl:annotatedTarget "Jannovar:structural_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001537 ; owl:annotatedTarget "VAT:svOverlap"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001538 ; owl:annotatedTarget "A sequence variant which alters the functioning of a transcript with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001539 ; owl:annotatedTarget "A sequence variant that affects the functioning of a translational product with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001540 ; owl:annotatedTarget "A sequence variant which alters the level of a transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001541 ; owl:annotatedTarget "A sequence variant that decreases the level of mature, spliced and processed RNA with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001542 ; owl:annotatedTarget "A sequence variant that increases the level of mature, spliced and processed RNA with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001543 ; owl:annotatedTarget "A sequence variant that affects the post transcriptional processing of a transcript with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001544 ; owl:annotatedTarget "A transcript processing variant whereby the process of editing is disrupted with respect to the reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001545 ; owl:annotatedTarget "A sequence variant that changes polyadenylation with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001546 ; owl:annotatedTarget "A variant that changes the stability of a transcript with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001547 ; owl:annotatedTarget "A sequence variant that decreases transcript stability with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001548 ; owl:annotatedTarget "A sequence variant that increases transcript stability with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001549 ; owl:annotatedTarget "A variant that changes alters the transcription of a transcript with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001550 ; owl:annotatedTarget "A sequence variant that changes the rate of transcription with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001551 ; owl:annotatedTarget "A sequence variant that increases the rate of transcription with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001552 ; owl:annotatedTarget "A sequence variant that decreases the rate of transcription with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001553 ; owl:annotatedTarget "A functional variant that changes the translational product level with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001554 ; owl:annotatedTarget "A sequence variant which changes polypeptide functioning with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001555 ; owl:annotatedTarget "A sequence variant which decreases the translational product level with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001556 ; owl:annotatedTarget "A sequence variant which increases the translational product level with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001557 ; owl:annotatedTarget "A sequence variant which causes gain of polypeptide function with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001558 ; owl:annotatedTarget "A sequence variant which changes the localization of a polypeptide with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001559 ; owl:annotatedTarget "A sequence variant that causes the loss of a polypeptide function with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001560 ; owl:annotatedTarget "A sequence variant that causes the inactivation of a ligand binding site with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001561 ; owl:annotatedTarget "A sequence variant that causes some but not all loss of polypeptide function with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001562 ; owl:annotatedTarget "A sequence variant that causes a change in post translational processing of the peptide with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001563 ; owl:annotatedTarget "A sequence variant where copies of a feature (CNV) are either increased or decreased."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001564 ; owl:annotatedTarget "A sequence variant where the structure of the gene is changed."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001564 ; owl:annotatedTarget "Jannovar:gene_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001564 ; owl:annotatedTarget "VAAST:gene_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001564 ; owl:annotatedTarget "snpEff:GENE"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001565 ; owl:annotatedTarget "A sequence variant whereby a two genes have become joined."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001566 ; owl:annotatedTarget "A sequence variant located within a regulatory region."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001566 ; owl:annotatedTarget "Jannovar:regulatory_region_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001566 ; owl:annotatedTarget "VEP:regulatory_region_variant"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001566 ; owl:annotatedTarget "regulatory_region_"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001566 ; owl:annotatedTarget "snpEff:REGULATION"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "A sequence variant where at least one base in the terminator codon is changed, but the terminator remains."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "Jannovar:stop_retained_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "VAAST:stop_retained"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "VAAST:stop_retained_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "VEP:stop_retained_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "snpEff:NON_SYNONYMOUS_STOP"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001567 ; owl:annotatedTarget "snpEff:SYNONYMOUS_STOP"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001568 ; owl:annotatedTarget "A sequence variant that changes the process of splicing."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001568 ; owl:annotatedTarget "Jannovar:splicing_variant"^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001569 ; owl:annotatedTarget "A sequence variant causing a new (functional) splice site."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001570 ; owl:annotatedTarget "A sequence variant whereby a new splice site is created due to the activation of a new acceptor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001571 ; owl:annotatedTarget "A sequence variant whereby a new splice site is created due to the activation of a new donor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001572 ; owl:annotatedTarget "A sequence variant whereby an exon is lost from the transcript."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001572 ; owl:annotatedTarget "Jannovar:exon_loss_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001572 ; owl:annotatedTarget "snpEff:EXON_DELETED"^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001573 ; owl:annotatedTarget "A sequence variant whereby an intron is gained by the processed transcript; usually a result of an alteration of the donor or acceptor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "A splice variant that changes the 2 base region at the 3' end of an intron."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "Jannovar:splice_acceptor_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "Seattleseq:splice-acceptor"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000001 ; owl:annotatedTarget "A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000138 ; owl:annotatedTarget "An epigenetically modified gene, rearranged at the DNA level."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "VAAST:splice_acceptor_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "VEP:splice_acceptor_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001574 ; owl:annotatedTarget "snpEff:SPLICE_SITE_ACCEPTOR"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "A splice variant that changes the 2 base pair region at the 5' end of an intron."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "Jannovar:splice_donor_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "Seattleseq:splice-donor"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "VAAST:splice_donor_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "VEP:splice_donor_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001575 ; owl:annotatedTarget "snpEff:SPLICE_SITE_DONOR"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001576 ; owl:annotatedTarget "A sequence variant that changes the structure of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001576 ; owl:annotatedTarget "Jannovar:transcript_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001576 ; owl:annotatedTarget "VAAST:transcript_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001576 ; owl:annotatedTarget "snpEff:TRANSCRIPT"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001577 ; owl:annotatedTarget "A transcript variant with a complex INDEL- Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001577 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001577 ; owl:annotatedTarget "complex_indel"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001577 ; owl:annotatedTarget "Seattleseq:codingComplex"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001577 ; owl:annotatedTarget "Seattleseq:codingComplex-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000139 ; owl:annotatedTarget "Region in mRNA where ribosome assembles."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "ANNOVAR:stoploss"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "Jannovar:stop_lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "Seattleseq:stop-lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "VAAST:stop_lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "VAT:removedStop"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "VEP:stop_lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "snpEff:STOP_LOST"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "stop lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001578 ; owl:annotatedTarget "Seattleseq:stop-lost-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "A sequence variant that changes the coding sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "Jannovar:coding_sequence_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "Seattleseq:coding"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "VAAST:coding_sequence_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "VEP:coding_sequence_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "snpEff:CDS"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001580 ; owl:annotatedTarget "snpEff:CODON_CHANGE"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001582 ; owl:annotatedTarget "A codon variant that changes at least one base of the first codon of a transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000140 ; owl:annotatedTarget "A sequence segment located within the five prime end of an mRNA that causes premature termination of translation."^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001582 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] a owl:Axiom ; rdfs:label "Initiating Methionine"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001582 ; owl:annotatedTarget "loinc:LA6695-6"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001582 ; owl:annotatedTarget "Jannovar:initiator_codon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001582 ; owl:annotatedTarget "VAT:startOverlap"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001582 ; owl:annotatedTarget "snpEff:NON_SYNONYMOUS_START"^^xsd:string . [] oboInOwl:hasDbXref "EBI:fc"^^xsd:string, "EBI:gr"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preserved."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] a owl:Axiom ; rdfs:label "Missense"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "loinc:LA6698-0"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "Jannovar:missense_variant"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000140 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Attenuator"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "Seattleseq:missense"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "VAAST:missense_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "VAT:nonsynonymous"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "VEP:missense_variant"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "missense"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "snpEff:NON_SYNONYMOUS_CODING"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "ANNOVAR:nonsynonymous SNV"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "Seattleseq:missense-near-splice"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001583 ; owl:annotatedTarget "VAAST:non_synonymous_codon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001585 ; owl:annotatedTarget "A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for a different but similar amino acid. These variants may or may not be deleterious."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001586 ; owl:annotatedTarget "A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for an amino acid with different biochemical properties."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened polypeptide."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] a owl:Axiom ; rdfs:label "Nonsense"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "loinc:LA6699-8"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "ANNOVAR:stopgain"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "Jannovar:stop_gained"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "Seattleseq:stop-gained"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "VAAST:stop_gained"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "VAT:prematureStop"^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000141 ; owl:annotatedTarget "The sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "VEP:stop_gained"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "nonsense"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "snpEff:STOP_GAINED"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "stop gained"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001587 ; owl:annotatedTarget "Seattleseq:stop-gained-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] a owl:Axiom ; rdfs:label "Frameshift"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "loinc:LA6694-9"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "Jannovar:frameshift_variant"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000141 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Terminator_(genetics)"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "Seattleseq:frameshift"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "VAAST:frameshift_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "VEP:frameshift_variant"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "frameshift_"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "frameshift_coding"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "snpEff:FRAME_SHIFT"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "VAT:deletionFS"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "VAT:insertionFS"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "ANNOVAR:frameshift block substitution"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001589 ; owl:annotatedTarget "Seattleseq:frameshift-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000142 ; owl:annotatedTarget "A folded DNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001590 ; owl:annotatedTarget "A sequence variant whereby at least one of the bases in the terminator codon is changed."^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001590 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] a owl:Axiom ; rdfs:label "Stop Codon Mutation"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001590 ; owl:annotatedTarget "loinc:LA6700-2"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001590 ; owl:annotatedTarget "VAT:endOverlap"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001591 ; owl:annotatedTarget "A sequence variant that reverts the sequence of a previous frameshift mutation back to the initial frame."^^xsd:string . [] oboInOwl:hasDbXref "http://arjournals.annualreviews.org/doi/pdf/10.1146/annurev.ge.08.120174.001535"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001592 ; owl:annotatedTarget "A sequence variant which causes a disruption of the translational reading frame, by shifting one base ahead."^^xsd:string . [] oboInOwl:hasDbXref "http://arjournals.annualreviews.org/doi/pdf/10.1146/annurev.ge.08.120174.001535"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001594 ; owl:annotatedTarget "A sequence variant which causes a disruption of the translational reading frame, by shifting one base backward."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001596 ; owl:annotatedTarget "A sequence variant within a transcript that changes the secondary structure of the RNA product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001597 ; owl:annotatedTarget "A secondary structure variant that compensate for the change made by a previous variant."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001598 ; owl:annotatedTarget "A sequence variant within the transcript that changes the structure of the translational product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000002 ; owl:annotatedTarget "A folded sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000143 ; owl:annotatedTarget "A region of known length which may be used to manufacture a longer region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001599 ; owl:annotatedTarget "A sequence variant that changes the resulting polypeptide structure."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001600 ; owl:annotatedTarget "A sequence variant that changes the resulting polypeptide structure."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001601 ; owl:annotatedTarget "A sequence variant in the CDS region that causes a conformational change in the resulting polypeptide sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001603 ; owl:annotatedTarget "A sequence variant with in the CDS that causes a change in the resulting polypeptide sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001604 ; owl:annotatedTarget "A sequence variant within a CDS resulting in the loss of an amino acid from the resulting polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001605 ; owl:annotatedTarget "A sequence variant within a CDS resulting in the gain of an amino acid to the resulting polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001606 ; owl:annotatedTarget "A sequence variant of a codon resulting in the substitution of one amino acid for another in the resulting polypeptide."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001606 ; owl:annotatedTarget "VAAST:amino_acid_substitution"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001607 ; owl:annotatedTarget "A sequence variant of a codon causing the substitution of a similar amino acid for another in the resulting polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001608 ; owl:annotatedTarget "A sequence variant of a codon causing the substitution of a non conservative amino acid for another in the resulting polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000145 ; owl:annotatedTarget "A codon that has been redefined at translation. The redefinition may be as a result of translational bypass, translational frameshifting or stop codon readthrough."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001609 ; owl:annotatedTarget "An elongation of a polypeptide sequence deriving from a sequence variant extending the CDS."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001610 ; owl:annotatedTarget "An elongation of a polypeptide sequence at the C terminus deriving from a sequence variant extending the CDS."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001611 ; owl:annotatedTarget "An elongation of a polypeptide sequence at the N terminus deriving from a sequence variant extending the CDS."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001612 ; owl:annotatedTarget "A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the C terminus."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001613 ; owl:annotatedTarget "A sequence variant with in the CDS that causes out of frame elongation of the resulting polypeptide sequence at the C terminus."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001614 ; owl:annotatedTarget "A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the N terminus."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001615 ; owl:annotatedTarget "A sequence variant with in the CDS that causes out of frame elongation of the resulting polypeptide sequence at the N terminus."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001616 ; owl:annotatedTarget "A sequence variant that causes a fusion of two polypeptide sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000146 ; owl:annotatedTarget "An attribute describing when a sequence, usually an mRNA is capped by the addition of a modified guanine nucleotide at the 5' end."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001617 ; owl:annotatedTarget "A sequence variant of the CD that causes a truncation of the resulting polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001618 ; owl:annotatedTarget "A sequence variant that causes the inactivation of a catalytic site with respect to a reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001619 ; owl:annotatedTarget "A transcript variant of a non coding RNA gene."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001619 ; owl:annotatedTarget "Jannovar:non_coding_transcript_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001619 ; owl:annotatedTarget "VEP:non_coding_transcript_variant"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001619 ; owl:annotatedTarget "within_non_coding_gene"^^xsd:string . [] oboInOwl:hasDbXref "http://annovar.openbioinformatics.org/en/latest/user-guide/gene/"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001619 ; owl:annotatedTarget "ANNOVAR:ncRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001620 ; owl:annotatedTarget "A transcript variant located with the sequence of the mature miRNA."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001620 ; owl:annotatedTarget "VEP:mature_miRNA_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001620 ; owl:annotatedTarget "snpEff:MICRO_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000147 ; owl:annotatedTarget "A region of the transcript sequence within a gene which is not removed from the primary RNA transcript by RNA splicing."^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001620 ; owl:annotatedTarget "within_mature_miRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001621 ; owl:annotatedTarget "A variant in a transcript that is the target of nonsense-mediated mRNA decay."^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001621 ; owl:annotatedTarget "NMD_transcript"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001621 ; owl:annotatedTarget "VEP:NMD_transcript_variant"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001622 ; owl:annotatedTarget "A transcript variant that is located within the UTR."^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001622 ; owl:annotatedTarget "UTR_"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "A UTR variant of the 5' UTR."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "5PRIME_UTR"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "Jannovar:5_prime_utr_variant"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000147 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Exon"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "Seattleseq:5-prime-UTR"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "VAAST:5_prime_UTR_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "VAAST:five_prime_UTR_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "VEP:5_prime_UTR_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "snpEff:UTR_5_PRIME"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "untranslated-5"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001623 ; owl:annotatedTarget "ANNOVAR:UTR5"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "A UTR variant of the 3' UTR."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "3PRIME_UTR"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "Jannovar:3_prime_utr_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "Seattleseq:3-prime-UTR"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "VAAST:3_prime_UTR_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "VAAST:three_prime_UTR_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "VEP:3_prime_UTR_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "snpEff:UTR_3_PRIME"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "untranslated-3"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001624 ; owl:annotatedTarget "ANNOVAR:UTR3"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001626 ; owl:annotatedTarget "A sequence variant where at least one base of the final codon of an incompletely annotated transcript is changed."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001626 ; owl:annotatedTarget "VEP:incomplete_terminal_codon_variant"^^xsd:string . [] oboInOwl:hasDbXref "SO:ls"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000148 ; owl:annotatedTarget "One or more contigs that have been ordered and oriented using end-read information. Contains gaps that are filled with N's."^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001626 ; owl:annotatedTarget "partial_codon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "A transcript variant occurring within an intron."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "Jannovar:intron_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "Seattleseq:intron"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "VAAST:intron_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "VEP:intron_variant"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "intron_"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "intronic"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "snpEff:INTRON"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "ANNOVAR:intronic"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001627 ; owl:annotatedTarget "Seattleseq:intron-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "A sequence variant located in the intergenic region, between genes."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "Jannovar:intergenic_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "Seattleseq:intergenic"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "VEP:intergenic_variant"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "intergenic"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "snpEff:INTERGENIC"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001628 ; owl:annotatedTarget "ANNOVAR:intergenic"^^xsd:string . [] oboInOwl:hasDbXref "SO:ls"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000149 ; owl:annotatedTarget "A contiguous sequence derived from sequence assembly. Has no gaps, but may contain N's from unavailable bases."^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001629 ; owl:annotatedTarget "A sequence variant that changes the first two or last two bases of an intron, or the 5th base from the start of the intron in the orientation of the transcript."^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001629 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001629 ; owl:annotatedTarget "VAT:spliceOverlap"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001629 ; owl:annotatedTarget "essential_splice_site"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intron."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "Jannovar:splice_region_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "VAAST:splice_region_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "VEP:splice_region_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "snpEff:SPLICE_SITE_REGION"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "splice region variant"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000149 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Contig"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "ANNOVAR:splicing"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "snpEff:SPLICE_SITE_BRANCH"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001630 ; owl:annotatedTarget "snpEff:SPLICE_SITE_BRANCH_U12"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001631 ; owl:annotatedTarget "A sequence variant located 5' of a gene."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001631 ; owl:annotatedTarget "Jannovar:upstream_gene_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001631 ; owl:annotatedTarget "VEP:upstream_gene_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001631 ; owl:annotatedTarget "snpEff:UPSTREAM"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001631 ; owl:annotatedTarget "ANNOVAR:upstream"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001632 ; owl:annotatedTarget "A sequence variant located 3' of a gene."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001632 ; owl:annotatedTarget "Jannovar:downstream_gene_variant"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/pubmed/7919797?dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000003 ; owl:annotatedTarget "G-quartets are unusual nucleic acid structures consisting of a planar arrangement where each guanine is hydrogen bonded by hoogsteen pairing to another guanine in the quartet."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001632 ; owl:annotatedTarget "VEP:downstream_gene_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001632 ; owl:annotatedTarget "snpEff:DOWNSTREAM"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001632 ; owl:annotatedTarget "ANNOVAR:downstream"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001633 ; owl:annotatedTarget "A sequence variant located within 5 KB of the end of a gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001633 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001633 ; owl:annotatedTarget "Seattleseq:downstream-gene"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001633 ; owl:annotatedTarget "downstream"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001634 ; owl:annotatedTarget "A sequence variant located within a half KB of the end of a gene."^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001634 ; owl:annotatedTarget "near-gene-3"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001635 ; owl:annotatedTarget "A sequence variant located within 5KB 5' of a gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000150 ; owl:annotatedTarget "A sequence obtained from a single sequencing experiment. Typically a read is produced when a base calling program interprets information from a chromatogram trace file produced from a sequencing machine."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001635 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001635 ; owl:annotatedTarget "Seattleseq:upstream-gene"^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; oboInOwl:hasSynonymType so:ebi_variants ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001635 ; owl:annotatedTarget "upstream"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001636 ; owl:annotatedTarget "A sequence variant located within 2KB 5' of a gene."^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001636 ; owl:annotatedTarget "near-gene-5"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001637 ; owl:annotatedTarget "A gene that encodes for ribosomal RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001638 ; owl:annotatedTarget "A gene that encodes for an piwi associated RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001639 ; owl:annotatedTarget "A gene that encodes an RNase P RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001640 ; owl:annotatedTarget "A gene that encodes a RNase_MRP_RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23463798"^^xsd:string, "SO:ke"^^xsd:string, "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001641 ; owl:annotatedTarget "A gene that encodes a long, intervening non-coding RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000151 ; owl:annotatedTarget "A piece of DNA that has been inserted in a vector so that it can be propagated in a host bacterium or some other organism."^^xsd:string . [] oboInOwl:hasDbXref "SO:jestill"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001642 ; owl:annotatedTarget "A mathematically defined repeat (MDR) is a experimental feature that is determined by querying overlapping oligomers of length k against a database of shotgun sequence data and identifying regions in the query sequence that exceed a statistically determined threshold of repetitiveness."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001643 ; owl:annotatedTarget "A telomerase RNA gene is a non coding RNA gene the RNA product of which is a component of telomerase."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001643 ; owl:annotatedTarget "http:http://en.wikipedia.org/wiki/Telomerase_RNA_component"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000151 ; owl:annotatedTarget "http:http://en.wikipedia.org/wiki/Clone_(genetics)"^^xsd:string . [] oboInOwl:hasDbXref "MGD:tm"^^xsd:string, "PMID:10354467"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001644 ; owl:annotatedTarget "An engineered vector that is able to take part in homologous recombination in a host with the intent of introducing site specific genomic modifications."^^xsd:string . [] oboInOwl:hasDbXref "SO:db"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001645 ; owl:annotatedTarget "A measurable sequence feature that varies within a population."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001646 ; owl:annotatedTarget "A genetic marker, discovered using Diversity Arrays Technology (DArT) technology."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001647 ; owl:annotatedTarget "A kind of ribosome entry site, specific to Eukaryotic organisms that overlaps part of both 5' UTR and CDS sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001647 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Kozak_consensus_sequence"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001648 ; owl:annotatedTarget "A transposon that is disrupted by the insertion of another element."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001649 ; owl:annotatedTarget "A repeat that is disrupted by the insertion of another element."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001650 ; owl:annotatedTarget "A sequence variant which does not cause a disruption of the translational reading frame."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001650 ; owl:annotatedTarget "VAAST:inframe_variant"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000152 ; owl:annotatedTarget "Yeast Artificial Chromosome, a vector constructed from the telomeric, centromeric, and replication origin sequences needed for replication in yeast cells."^^xsd:string . [] oboInOwl:hasSynonymType so:dbsnp ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001650 ; owl:annotatedTarget "cds-indel"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001650 ; owl:annotatedTarget "ANNOVAR:nonframeshift block substitution"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001650 ; owl:annotatedTarget "ANNOVAR:nonframeshift substitution"^^xsd:string . [] oboInOwl:hasDbXref "PMID:11327309"^^xsd:string, "PMID:19917671"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001653 ; owl:annotatedTarget "A transcription factor binding site of variable direct repeats of the sequence PuGGTCA spaced by five nucleotides (DR5) found in the promoters of retinoic acid-responsive genes, to which retinoic acid receptors bind."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001654 ; owl:annotatedTarget "A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001655 ; owl:annotatedTarget "A binding site that, in the molecule, interacts selectively and non-covalently with nucleotide residues."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001655 ; owl:annotatedTarget "np_bind"^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001656 ; owl:annotatedTarget "A binding site that, in the molecule, interacts selectively and non-covalently with metal ions."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001657 ; owl:annotatedTarget "A binding site that, in the molecule, interacts selectively and non-covalently with a small molecule such as a drug, or hormone."^^xsd:string . [] oboInOwl:hasDbXref "SO:AF"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001658 ; owl:annotatedTarget "An NTR is a nested repeat of two distinct tandem motifs interspersed with each other."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000153 ; owl:annotatedTarget "Bacterial Artificial Chromosome, a cloning vector that can be propagated as mini-chromosomes in a bacterial host."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001660 ; owl:annotatedTarget "An element that only exists within the promoter region of a eukaryotic gene."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001661 ; owl:annotatedTarget "A TATA box core promoter of a gene transcribed by RNA polymerase II."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001662 ; owl:annotatedTarget "A TATA box core promoter of a gene transcribed by RNA polymerase III."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001663 ; owl:annotatedTarget "A core RNA polymerase II promoter element with consensus (G/A)T(T/G/A)(T/A)(G/T)(T/G)(T/G)."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/P1-derived_artificial_chromosome"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000154 ; owl:annotatedTarget "The P1-derived artificial chromosome are DNA constructs that are derived from the DNA of P1 bacteriophage. They can carry large amounts (about 100-300 kilobases) of other sequences for a variety of bioengineering purposes. It is one type of vector used to clone DNA fragments (100- to 300-kb insert size; average, 150 kb) in Escherichia coli cells."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001664 ; owl:annotatedTarget "A discontinuous core element of RNA polymerase II transcribed genes, situated downstream of the TSS. It is composed of three sub elements: SI, SII and SIII."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001665 ; owl:annotatedTarget "A sub element of the DCE core promoter element, with consensus sequence CTTC."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001666 ; owl:annotatedTarget "A sub element of the DCE core promoter element with consensus sequence CTGT."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001667 ; owl:annotatedTarget "A sub element of the DCE core promoter element with consensus sequence AGC."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12515390"^^xsd:string, "PMID:9679020"^^xsd:string, "SO:ml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001668 ; owl:annotatedTarget "DNA segment that ranges from about -250 to -40 relative to +1 of RNA transcription start site, where sequence specific DNA-binding transcription factors binds, such as Sp1, CTF (CCAAT-binding transcription factor), and CBF (CCAAT-box binding factor)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001669 ; owl:annotatedTarget "The minimal portion of the promoter required to properly initiate transcription in RNA polymerase II transcribed genes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000154 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/P1-derived_artificial_chromosome"^^xsd:string . [] oboInOwl:hasDbXref "PMID:18331472"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001673 ; owl:annotatedTarget "A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54."^^xsd:string . [] oboInOwl:hasDbXref "PMID:18331472"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001674 ; owl:annotatedTarget "A conserved region about 24-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001675 ; owl:annotatedTarget "An A box within an RNA polymerase III type 1 promoter."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001676 ; owl:annotatedTarget "An A box within an RNA polymerase III type 2 promoter."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12381659"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001677 ; owl:annotatedTarget "A core promoter region of RNA polymerase III type 1 promoters."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000155 ; owl:annotatedTarget "A self replicating, using the hosts cellular machinery, often circular nucleic acid molecule that is distinct from a chromosome in the organism."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12381659"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001678 ; owl:annotatedTarget "A promoter element that is not part of the core promoter, but provides the promoter with a specific regulatory region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001679 ; owl:annotatedTarget "A regulatory region that is involved in the control of the process of transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001680 ; owl:annotatedTarget "A regulatory region that is involved in the control of the process of translation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001681 ; owl:annotatedTarget "A regulatory region that is involved in the control of the process of recombination."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001682 ; owl:annotatedTarget "A regulatory region that is involved in the control of the process of nucleotide replication."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Sequence_motif"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001683 ; owl:annotatedTarget "A sequence motif is a nucleotide or amino-acid sequence pattern that may have biological significance."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001683 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Sequence_motif"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001684 ; owl:annotatedTarget "An attribute of an experimentally derived feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001685 ; owl:annotatedTarget "The score of an experimentally derived feature such as a p-value."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001686 ; owl:annotatedTarget "An experimental feature attribute that defines the quality of the feature in a quantitative way, such as a phred quality score."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000156 ; owl:annotatedTarget "A cloning vector that is a hybrid of lambda phages and a plasmid that can be propagated as a plasmid or packaged as a phage,since they retain the lambda cos sites."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001687 ; owl:annotatedTarget "The nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001688 ; owl:annotatedTarget "The boundary at which a restriction enzyme breaks the nucleotide sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001689 ; owl:annotatedTarget "The restriction enzyme cleavage junction on the 5' strand of the nucleotide sequence."^^xsd:string . [] oboInOwl:hasDbXref "SBOL:jgquinn"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001691 ; owl:annotatedTarget "A restriction enzyme recognition site that, when cleaved, results in no overhangs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001693 ; owl:annotatedTarget "A restriction enzyme cleavage site where both strands are cut at the same position."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001694 ; owl:annotatedTarget "A restriction enzyme cleavage site whereby only one strand is cut."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000003 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/G-quadruplex"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000156 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Cosmid"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001695 ; owl:annotatedTarget "A terminal region of DNA sequence where the end of the region is not blunt ended."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001696 ; owl:annotatedTarget "A region that has been implicated in binding although the exact coordinates of binding may be unknown."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001697 ; owl:annotatedTarget "A region of sequence identified by CHiP seq technology to contain a protein binding site."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/pubmed/11252801"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001698 ; owl:annotatedTarget "\"A primer containing an SNV at the 3' end for accurate genotyping."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/pubmed/9628033"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001699 ; owl:annotatedTarget "A primer with one or more mismatches to the DNA template corresponding to a position within a restriction enzyme recognition site."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000157 ; owl:annotatedTarget "A plasmid which carries within its sequence a bacteriophage replication origin. When the host bacterium is infected with \"helper\" phage, a phagemid is replicated along with the phage DNA and packaged into phage capsids."^^xsd:string . [] oboInOwl:hasDbXref "http:en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001700 ; owl:annotatedTarget "Histone modification is a post translationally modified region whereby residues of the histone protein are modified by methylation, acetylation, phosphorylation, ubiquitination, sumoylation, citrullination, or ADP-ribosylation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001701 ; owl:annotatedTarget "A histone modification site where the modification is the methylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001702 ; owl:annotatedTarget "A histone modification where the modification is the acylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001703 ; owl:annotatedTarget "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001704 ; owl:annotatedTarget "A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001705 ; owl:annotatedTarget "A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is mono-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001706 ; owl:annotatedTarget "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001707 ; owl:annotatedTarget "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001708 ; owl:annotatedTarget "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is mono-methylated."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000157 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Phagemid"^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001709 ; owl:annotatedTarget "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001710 ; owl:annotatedTarget "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is mono- methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001711 ; owl:annotatedTarget "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is di-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001712 ; owl:annotatedTarget "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001713 ; owl:annotatedTarget "A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H4histone protein is mono-methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Histone"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001714 ; owl:annotatedTarget "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B protein is methylated."^^xsd:string . [] oboInOwl:hasDbXref "http://genesdev.cshlp.org/content/2/4/383.abstrac"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001715 ; owl:annotatedTarget "An ISRE is a transcriptional cis regulatory region, containing the consensus region: YAGTTTC(A/T)YTTTYCC, responsible for increased transcription via interferon binding."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001716 ; owl:annotatedTarget "A histone modification site where ubiquitin may be added."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001717 ; owl:annotatedTarget "A histone modification site on H2B where ubiquitin may be added."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001718 ; owl:annotatedTarget "A kind of histone modification site, whereby the 18th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000158 ; owl:annotatedTarget "A cloning vector that utilizes the E. coli F factor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001719 ; owl:annotatedTarget "A kind of histone modification, whereby the 23rd residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string, "http://en.wikipedia.org/wiki/Epigenetics"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001720 ; owl:annotatedTarget "A biological DNA region implicated in epigenomic changes caused by mechanisms other than changes in the underlying DNA sequence. This includes, nucleosomal histone post-translational modifications, nucleosome depletion to render DNA accessible and post-replicational base modifications such as cytosine modification."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001721 ; owl:annotatedTarget "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001722 ; owl:annotatedTarget "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is mono-methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001723 ; owl:annotatedTarget "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is dimethylated."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000158 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Fosmid"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001724 ; owl:annotatedTarget "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001725 ; owl:annotatedTarget "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is di-methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001726 ; owl:annotatedTarget "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is di-methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001727 ; owl:annotatedTarget "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is mono-methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001728 ; owl:annotatedTarget "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein may be dimethylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001729 ; owl:annotatedTarget "A kind of histone modification site, whereby the 16th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001730 ; owl:annotatedTarget "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:KE"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001731 ; owl:annotatedTarget "A kind of histone modification site, whereby the 8th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001732 ; owl:annotatedTarget "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001733 ; owl:annotatedTarget "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000159 ; owl:annotatedTarget "The point at which one or more contiguous nucleotides were excised."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001734 ; owl:annotatedTarget "A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001735 ; owl:annotatedTarget "A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001736 ; owl:annotatedTarget "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is methylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001737 ; owl:annotatedTarget "A histone modification, whereby the histone protein is acylated at multiple sites in a region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001738 ; owl:annotatedTarget "A region of the H4 histone whereby multiple lysines are acylated."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000159 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Nucleotide_deletion"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001739 ; owl:annotatedTarget "A gene with a start codon other than AUG."^^xsd:string . [] oboInOwl:hasDbXref "SO:mc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001740 ; owl:annotatedTarget "A gene with a translational start codon of CUG."^^xsd:string . [] oboInOwl:hasDbXref "SO:hd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001741 ; owl:annotatedTarget "A gene segment which when incorporated by somatic recombination in the final gene transcript results in a nonfunctional product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001742 ; owl:annotatedTarget "A sequence alteration whereby the copy number of a given regions is greater than the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001742 ; owl:annotatedTarget "gain"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001743 ; owl:annotatedTarget "A sequence alteration whereby the copy number of a given region is less than the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001743 ; owl:annotatedTarget "loss"^^xsd:string . [] oboInOwl:hasDbXref "SO:BM"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001744 ; owl:annotatedTarget "Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from one parent and no copies of the same chromosome or region from the other parent."^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001744 ; owl:annotatedTarget "http:http://en.wikipedia.org/wiki/Uniparental_disomy"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001744 ; owl:annotatedTarget "UPD"^^xsd:string . [] a owl:Axiom ; rdfs:label "Deletion"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000159 ; owl:annotatedTarget "loinc:LA6692-3"^^xsd:string . [] oboInOwl:hasDbXref "SO:bm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001745 ; owl:annotatedTarget "Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from the mother and no copies of the same chromosome or region from the father."^^xsd:string . [] oboInOwl:hasDbXref "SO:bm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001746 ; owl:annotatedTarget "Uniparental disomy is a sequence_alteration where a diploid individual receives two copies for all or part of a chromosome from the father and no copies of the same chromosome or region from the mother."^^xsd:string . [] oboInOwl:hasDbXref "SO:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001747 ; owl:annotatedTarget "A DNA sequence that in the normal state of the chromosome corresponds to an unfolded, un-complexed stretch of double-stranded DNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001748 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL3 RNA leader sequence to the 5' end of an mRNA. SL3 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001749 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL4 RNA leader sequence to the 5' end of an mRNA. SL4 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001750 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL5 RNA leader sequence to the 5' end of an mRNA. SL5 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001751 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL6 RNA leader sequence to the 5' end of an mRNA. SL6 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001752 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL7 RNA leader sequence to the 5' end of an mRNA. SL7 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001753 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL8 RNA leader sequence to the 5' end of an mRNA. SL8 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001754 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL9 RNA leader sequence to the 5' end of an mRNA. SL9 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0-1767-2380-8"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000160 ; owl:annotatedTarget "A linear clone derived from lambda bacteriophage. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001755 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL10 RNA leader sequence to the 5' end of an mRNA. SL10 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001756 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL11 RNA leader sequence to the 5' end of an mRNA. SL11 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:nlw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001757 ; owl:annotatedTarget "A SL2_acceptor_site which appends the SL12 RNA leader sequence to the 5' end of an mRNA. SL12 acceptor sites occur in genes in internal segments of polycistronic transcripts."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Pseudogene"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001758 ; owl:annotatedTarget "A pseudogene that arose via gene duplication. Generally duplicated pseudogenes have the same structure as the original gene, including intron-exon structure and some regulatory sequence."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "SO:ke"^^xsd:string, "http://en.wikipedia.org/wiki/Pseudogene"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001759 ; owl:annotatedTarget "A pseudogene, deactivated from original state by mutation, fixed in a population,where the ortholog in a reference species such as mouse remains functional."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001760 ; owl:annotatedTarget "A pseudogene that arose from a means other than retrotransposition. A pseudogene created via genomic duplication of a functional protein-coding parent gene followed by accumulation of deleterious mutations."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17597783"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001761 ; owl:annotatedTarget "A dependent entity that inheres in a bearer, a sequence variant."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17597783"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001762 ; owl:annotatedTarget "A quality inhering in a variant by virtue of its origin."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17597783"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001763 ; owl:annotatedTarget "A physical quality which inheres to the variant by virtue of the number instances of the variant within a population."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001764 ; owl:annotatedTarget "A physical quality which inheres to the variant by virtue of the number instances of the variant within a population."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000161 ; owl:annotatedTarget "A modified base in which adenine has been methylated."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17597783"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001769 ; owl:annotatedTarget "A quality inhering in a variant by virtue of its phenotype."^^xsd:string . [] oboInOwl:hasDbXref "EBI:fc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001782 ; owl:annotatedTarget "A sequence variant located within a transcription factor binding site."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001782 ; owl:annotatedTarget "Jannovar:tf_binding_site_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001782 ; owl:annotatedTarget "VEP:TF_binding_site_variant"^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string, "NCBI:th"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001784 ; owl:annotatedTarget "A structural sequence alteration or rearrangement encompassing one or more genome fragments, with 4 or more breakpoints."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001784 ; owl:annotatedTarget "complex"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001786 ; owl:annotatedTarget "A functional variant whereby the sequence alteration causes a loss of function of one allele of a gene."^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001787 ; owl:annotatedTarget "A sequence variant that causes a change at the 5th base pair after the start of the intron in the orientation of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "PMID:10556309"^^xsd:string, "PMID:11577982"^^xsd:string, "PMID:9649446"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001788 ; owl:annotatedTarget "An U-box is a conserved T-rich region upstream of a retroviral polypurine tract that is involved in PPT primer creation during reverse transcription."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000005 ; owl:annotatedTarget "The many tandem repeats (identical or related) of a short basic repeating unit; many have a base composition or other property different from the genome average that allows them to be separated from the bulk (main band) genomic DNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000162 ; owl:annotatedTarget "Consensus region of primary transcript bordering junction of splicing. A region that overlaps exactly 2 base and adjacent_to splice_junction."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001789 ; owl:annotatedTarget "A specialized region in the genomes of some yeast and fungi, the genes of which regulate mating type."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001790 ; owl:annotatedTarget "An assembly region that has been sequenced from both ends resulting in a read_pair (mate_pair)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001791 ; owl:annotatedTarget "A sequence variant that changes exon sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001791 ; owl:annotatedTarget "ANNOVAR:exonic"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001791 ; owl:annotatedTarget "Jannovar:exon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001791 ; owl:annotatedTarget "VAAST:exon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001791 ; owl:annotatedTarget "snpEff:EXON"^^xsd:string . [] oboInOwl:hasDbXref "EBI:fc"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "A sequence variant that changes non-coding exon sequence in a non-coding transcript."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "Seattleseq:non-coding-exon"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000162 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Splice_site"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "VEP:non_coding_transcript_exon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "non_coding_transcript_exon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "snpEff:non_coding_exon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "ANNOVAR:ncRNA_exonic"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "Jannovar:non_coding_transcript_exon_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001792 ; owl:annotatedTarget "Seattleseq:non-coding-exon-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001793 ; owl:annotatedTarget "A read from an end of the clone sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:7502067"^^xsd:string, "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001794 ; owl:annotatedTarget "A point centromere is a relatively small centromere (about 125 bp DNA) in discrete sequence, found in some yeast including S. cerevisiae."^^xsd:string . [] oboInOwl:hasDbXref "PMID:7502067"^^xsd:string, "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001795 ; owl:annotatedTarget "A regional centromere is a large modular centromere found in fission yeast and higher eukaryotes. It consist of a central core region flanked by inverted inner and outer repeat regions."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string, "SO:ke"^^xsd:string, "http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000163 ; owl:annotatedTarget "Intronic 2 bp region bordering the exon, at the 5' edge of the intron. A splice_site that is downstream_adjacent_to exon and starts intron."^^xsd:string . [] oboInOwl:hasDbXref "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001796 ; owl:annotatedTarget "A conserved region within the central region of a modular centromere, where the kinetochore is formed."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001797 ; owl:annotatedTarget "A repeat region found within the modular centromere."^^xsd:string . [] oboInOwl:hasDbXref "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001798 ; owl:annotatedTarget "The inner inverted repeat region of a modular centromere and part of the central core surrounding a non-conserved central region. This region is adjacent to the central core, on each chromosome arm."^^xsd:string . [] oboInOwl:hasDbXref "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001799 ; owl:annotatedTarget "The heterochromatic outer repeat region of a modular centromere. These repeats exist in tandem arrays on both chromosome arms."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16145017"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001800 ; owl:annotatedTarget "The sequence of a 21 nucleotide double stranded, polyadenylated non coding RNA, transcribed from the TAS gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string, "SO:ke"^^xsd:string, "http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000164 ; owl:annotatedTarget "Intronic 2 bp region bordering the exon, at the 3' edge of the intron. A splice_site that is upstream_adjacent_to exon and finishes intron."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16145017"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001801 ; owl:annotatedTarget "A primary transcript encoding a tasiRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001802 ; owl:annotatedTarget "A transcript processing variant whereby polyadenylation of the encoded transcript is increased with respect to the reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001803 ; owl:annotatedTarget "A transcript processing variant whereby polyadenylation of the encoded transcript is decreased with respect to the reference."^^xsd:string . [] oboInOwl:hasDbXref "PMID:18794354"^^xsd:string, "PMID:19818632"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001804 ; owl:annotatedTarget "A conserved polypeptide motif that mediates protein-protein interaction and defines adaptor proteins for DDB1/cullin 4 ubiquitin ligases."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12208841"^^xsd:string, "PMID:1842691"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001805 ; owl:annotatedTarget "A conserved polypeptide motif that can be recognized by both Fizzy/Cdc20- and FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is RXXLXXXXN."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2077689"^^xsd:string, "doi:10.1093/jxb/50.331.157"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001806 ; owl:annotatedTarget "A C-terminal tetrapeptide motif that mediates retention of a protein in (or retrieval to) the endoplasmic reticulum. In mammals the sequence is KDEL, and in fungi HDEL or DDEL."^^xsd:string . [] oboInOwl:hasDbXref "PMID:10733526"^^xsd:string, "PMID:1220884"^^xsd:string, "PMID:18426916"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001807 ; owl:annotatedTarget "A conserved polypeptide motif that can be recognized by FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is KENXXXN."^^xsd:string . [] oboInOwl:hasDbXref "PomBase:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001808 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to the mitochondrion."^^xsd:string . [] oboInOwl:hasDbXref "http://www.cbs.dtu.dk/services/SignalP/background/biobackground.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001809 ; owl:annotatedTarget "A signal sequence that is not cleaved from the polypeptide. Anchors a Type II membrane protein to the membrane."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9631646"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001810 ; owl:annotatedTarget "A polypeptide region that mediates binding to PCNA. The consensus sequence is QXX(hh)XX(aa), where (h) denotes residues with moderately hydrophobic side chains and (a) denotes residues with highly hydrophobic aromatic side chains."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000165 ; owl:annotatedTarget "A cis-acting sequence that increases the utilization of (some) eukaryotic promoters, and can function in either orientation and in any location (upstream or downstream) relative to the promoter."^^xsd:string . [] oboInOwl:hasDbXref "PomBase:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001811 ; owl:annotatedTarget "A post-translationally modified region in which residues of the protein are modified by phosphorylation."^^xsd:string . [] oboInOwl:hasDbXref "PomBase:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001812 ; owl:annotatedTarget "A region that traverses the lipid bilayer and adopts a helical secondary structure."^^xsd:string . [] oboInOwl:hasDbXref "PomBase:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001813 ; owl:annotatedTarget "A polypeptide region that targets a polypeptide to the vacuole."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001817 ; owl:annotatedTarget "An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is divisible by 3."^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001818 ; owl:annotatedTarget "A sequence_variant which is predicted to change the protein encoded in the coding sequence."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001818 ; owl:annotatedTarget "VEP:protein_altering_variant"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "A sequence variant where there is no resulting change to the encoded amino acid."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Silent_mutation"^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000165 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Enhancer_(genetics)"^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "Jannovar:synonymous_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "Seattleseq:synonymous"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "VAAST:synonymous_codon"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "VAAST:synonymous_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "VAT:synonymous"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "VEP:synonymous_variant"^^xsd:string . [] oboInOwl:hasDbXref "ftp://ftp.ncbi.nih.gov/snp/specs/docsum_3.1.xsd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "coding-synon"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "snpEff:SYNONYMOUS_CODING"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "ANNOVAR:synonymous SNV"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001819 ; owl:annotatedTarget "Seattleseq:synonymous-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001820 ; owl:annotatedTarget "A coding sequence variant where the change does not alter the frame of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "An inframe non synonymous variant that inserts bases into in the coding sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "ANNOVAR:nonframeshift insertion"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "Jannovar:inframe_insertion"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "VAT:insertionNFS"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "VEP:inframe_insertion"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001821 ; owl:annotatedTarget "snpEFF:CODON_INSERTION"^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "An inframe non synonymous variant that deletes bases from the coding sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "VAT"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "http://vat.gersteinlab.org/formats.php"^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "ANNOVAR:nonframeshift deletion"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "Jannovar:inframe_deletion"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "VAT:deletionNFS"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "VEP:inframe_deletion"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0001822 ; owl:annotatedTarget "snpEff:CODON_DELETION"^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001823 ; owl:annotatedTarget "An inframe increase in cds length that inserts one or more codons into the coding sequence between existing codons."^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001824 ; owl:annotatedTarget "An inframe increase in cds length that inserts one or more codons into the coding sequence within an existing codon."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001824 ; owl:annotatedTarget "Jannovar:disruptive_inframe_insertion"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001824 ; owl:annotatedTarget "snpEff:CODON_CHANGE_PLUS_CODON_INSERTION"^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001825 ; owl:annotatedTarget "An inframe decrease in cds length that deletes one or more entire codons from the coding sequence but does not change any remaining codons."^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001826 ; owl:annotatedTarget "An inframe decrease in cds length that deletes bases from the coding sequence starting within an existing codon."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001826 ; owl:annotatedTarget "Jannovar:disruptive_inframe_deletion"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001826 ; owl:annotatedTarget "snpEff:CODON_CHANGE_PLUS_CODON_DELETION"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001827 ; owl:annotatedTarget "A sequencer read of an mRNA substrate."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001828 ; owl:annotatedTarget "A sequencer read of a genomic DNA substrate."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001829 ; owl:annotatedTarget "A contig composed of mRNA_reads."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001830 ; owl:annotatedTarget "A PCR product obtained by applying the AFLP technique, based on a restriction enzyme digestion of genomic DNA and an amplification of the resulting fragments."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001830 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Amplified_fragment_length_polymorphism"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001831 ; owl:annotatedTarget "A match to a protein HMM such as pfam."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001832 ; owl:annotatedTarget "A region of immunoglobulin sequence, either constant or variable."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001833 ; owl:annotatedTarget "The variable region of an immunoglobulin polypeptide sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001834 ; owl:annotatedTarget "The constant region of an immunoglobulin polypeptide sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001835 ; owl:annotatedTarget "Extra nucleotides inserted between rearranged immunoglobulin segments."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001836 ; owl:annotatedTarget "The switch region of immunoglobulin heavy chains; it is involved in the rearrangement of heavy chain DNA leading to the expression of a different immunoglobulin classes from the same B-cell."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000005 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Satellite_DNA"^^xsd:string . [] oboInOwl:hasDbXref "EBI:dvga"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001837 ; owl:annotatedTarget "A kind of insertion where the inserted sequence is a mobile element."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001838 ; owl:annotatedTarget "An insertion the sequence of which cannot be mapped to the reference genome."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19101542"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001839 ; owl:annotatedTarget "A promoter element with consensus sequence GTGRGAA, bound by CSL (CBF1/RBP-JK/Suppressor of Hairless/LAG-1) transcription factors."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8321208"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001840 ; owl:annotatedTarget "A GATA transcription factor element containing the consensus sequence WGATAR (in which W indicates A/T and R indicates A/G)."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "JAX:hd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001841 ; owl:annotatedTarget "A pseudogene in the reference genome, though known to be intact in the genomes of other individuals of the same species. The annotation process has confirmed that the pseudogenisation event is not a genomic sequencing error."^^xsd:string . [] oboInOwl:hasDbXref "PMID:1899230"^^xsd:string, "PMID:3034432"^^xsd:string, "PMID:3125983"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001842 ; owl:annotatedTarget "A promoter element with consensus sequence TGACTCA, bound by AP-1 and related transcription factors."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11483355"^^xsd:string, "PMID:11483993"^^xsd:string, "PMID:15448137"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001843 ; owl:annotatedTarget """MERGED DEFINITION: TARGET DEFINITION: A promoter element with consensus sequence TGACGTCA; bound by the ATF/CREB family of transcription factors. -------------------- SOURCE DEFINITION: A promoter element that contains a core sequence TGACGT, bound by a protein complex that regulates transcription of genes encoding PKA pathway components."""^^xsd:string . [] oboInOwl:hasDbXref "PMID:11483993"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001843 ; owl:annotatedTarget "ATF/CRE site"^^xsd:string . [] oboInOwl:hasDbXref "PMID:10593913"^^xsd:string, "PMID:9188496"^^xsd:string, "PMID:9211922"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001844 ; owl:annotatedTarget "A promoter element bound by copper ion-sensing transcription factors such as S. cerevisiae Mac1p or S. pombe Cuf1; the consensus sequence is HTHNNGCTGD (more specifically TTTGCKCR in budding yeast)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11073995"^^xsd:string, "PMID:8668127"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001845 ; owl:annotatedTarget "A promoter element with consensus sequence CGWGGWNGMM, bound by transcription factors related to RecA and found in promoters of genes expressed following several types of DNA damage or inhibition of DNA synthesis."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000166 ; owl:annotatedTarget "An enhancer bound by a factor."^^xsd:string . [] oboInOwl:hasDbXref "PMID:10747048"^^xsd:string, "PMID:14871934"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001846 ; owl:annotatedTarget "A promoter element that has consensus sequence GTAAACAAACAAAM and contains a heptameric core GTAAACA, bound by transcription factors with a forkhead DNA-binding domain."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15195092"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001847 ; owl:annotatedTarget "A promoter element with consensus sequence TTTRTTTACA, bound by transcription factors with a forkhead DNA-binding domain."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21673110"^^xsd:string, "PMID:7501449"^^xsd:string, "PMID:8458332"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001848 ; owl:annotatedTarget "A core promoter element that has the consensus sequence CAGTCACA (or its inverted form TGTGACTG), and plays the role of a TATA box in promoters that do not contain a canonical TATA sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:7501449"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001849 ; owl:annotatedTarget "A core promoter element that has the consensus sequence ACCCTACCCT (or its inverted form AGGGTAGGGT), and is found near the homol D box in some promoters that use a homol D box instead of a canonical TATA sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17347150"^^xsd:string, "PMID:8689565"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001850 ; owl:annotatedTarget "A promoter element that consists of at least three copies of the pentanucleotide NGAAN, bound by the heat shock transcription factor HSF."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11956219"^^xsd:string, "PMID:17211681"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001851 ; owl:annotatedTarget "A GATA promoter element with consensus sequence WGATAA, found in promoters of genes repressed in the presence of iron."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9233811"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001852 ; owl:annotatedTarget "A promoter element with consensus sequence ACAAT, found in promoters of mating type M-specific genes in fission yeast and bound by the transcription factor Mat1-Mc."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21796522"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001853 ; owl:annotatedTarget "A non-palindromic sequence found in the promoters of genes whose expression is regulated in response to androgen."^^xsd:string . [] oboInOwl:hasDbXref "PMID:18806792"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001854 ; owl:annotatedTarget "A smFISH is a probe that binds RNA in a single molecule in situ hybridization experiment."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16285853"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001855 ; owl:annotatedTarget "A promoter element with consensus sequence ACGCGT, bound by the transcription factor complex MBF (MCB-binding factor) and found in promoters of genes expressed during the G1/S transition of the cell cycle."^^xsd:string . [] oboInOwl:hasDbXref "SO:regcreative"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000167 ; owl:annotatedTarget "A regulatory_region composed of the TSS(s) and binding sites for TF_complexes of the core transcription machinery. A region (DNA) to which RNA polymerase binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16963626"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001856 ; owl:annotatedTarget "A promoter element with consensus sequence CCAAT, bound by a protein complex that represses transcription in response to low iron levels."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16678171"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001857 ; owl:annotatedTarget "A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2."^^xsd:string . [] oboInOwl:hasDbXref "PMID:1657709"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001858 ; owl:annotatedTarget "A promoter element with consensus sequence TTCTTTGTTY, bound an HMG-box transcription factor such as S. pombe Ste11, and found in promoters of genes up-regulated early in meiosis."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11739717"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001859 ; owl:annotatedTarget "A promoter element with consensus sequence CCCCTC, bound by the PKA-responsive zinc finger transcription factor Rst2."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:978-0199638901"^^xsd:string, "PMID:9016645"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001860 ; owl:annotatedTarget "A DNA motif that contains a core consensus sequence AGGTAAGGGTAATGCAC, is found in the intergenic regions of rDNA repeats, and is bound by an RNA polymerase I transcription termination factor (e.g. S. pombe Reb1). The S. pombe telomeric repeat consensus is TTAC(0-1)A(0-1)G(1-8)."^^xsd:string . [] oboInOwl:hasDbXref "GO:mah"^^xsd:string, "PMID:11111080"^^xsd:string, "PMID:16537923"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001861 ; owl:annotatedTarget "A 10-bp promoter element bound by sterol regulatory element binding proteins (SREBPs), found in promoters of genes involved in sterol metabolism. Many variants of the sequence ATCACCCCAC function as SREs."^^xsd:string . [] oboInOwl:hasDbXref "GO:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasBroadSynonym ; owl:annotatedSource obo:SO_0001861 ; owl:annotatedTarget "SRE"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001862 ; owl:annotatedTarget "A dinucleotide repeat region composed of GT repeating elements."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001863 ; owl:annotatedTarget "A trinucleotide repeat region composed of GTT repeating elements."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16166653"^^xsd:string, "PMID:7651412"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001864 ; owl:annotatedTarget "A DNA motif to which the S. pombe Sap1 protein binds. The consensus sequence is 5'-TARGCAGNTNYAACGMG-3'; it is found at the mating type locus, where it is important for mating type switching, and at replication fork barriers in rDNA repeats."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000167 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Promoter"^^xsd:string . [] oboInOwl:hasDbXref "PMID:16928959"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001865 ; owl:annotatedTarget "An RNA polymerase II promoter element found in the promoters of genes regulated by calcineurin. The consensus sequence is GNGGCKCA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16928959"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001865 ; owl:annotatedTarget "calcineurin-dependent response element"^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001866 ; owl:annotatedTarget "A contig of BAC reads."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001867 ; owl:annotatedTarget "A gene suspected of being involved in the expression of a trait."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000168 ; owl:annotatedTarget "A specific nucleotide sequence of DNA at or near which a particular restriction enzyme cuts the DNA."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001868 ; owl:annotatedTarget "A candidate gene whose association with a trait is based on the gene's location on a chromosome."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001869 ; owl:annotatedTarget "A candidate gene whose function has something in common biologically with the trait under investigation."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string, "doi:10.1038/465173a"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001870 ; owl:annotatedTarget "A short ncRNA that is transcribed from an enhancer. May have a regulatory function."^^xsd:string . [] oboInOwl:hasDbXref "GO:mah"^^xsd:string, "PMID:12411492"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001871 ; owl:annotatedTarget "A promoter element with consensus sequence GNAACR, bound by the transcription factor complex PBF (PCB-binding factor) and found in promoters of genes expressed during the M/G1 transition of the cell cycle."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string, "PMID:18564416"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001872 ; owl:annotatedTarget "A region of a chromosome, where the chromosome has undergone a large structural rearrangement that altered the genome organization. There is no longer synteny to the reference genome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000169 ; owl:annotatedTarget "A DNA sequence in eukaryotic DNA to which RNA polymerase I binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001873 ; owl:annotatedTarget "A rearrangement breakpoint between two different chromosomes."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001874 ; owl:annotatedTarget "A rearrangement breakpoint within the same chromosome."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001875 ; owl:annotatedTarget "A supercontig that is not been assigned to any ultracontig during a genome assembly project."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001876 ; owl:annotatedTarget "A partial DNA sequence assembly of a chromosome or full genome, which contains gaps that are filled with N's."^^xsd:string . [] oboInOwl:hasDbXref "HGNC:mw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001877 ; owl:annotatedTarget "A non-coding RNA over 200nucleotides in length."^^xsd:string . [] a owl:Axiom ; rdfs:label "GENCODE"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0001877 ; owl:annotatedTarget "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string . [] oboInOwl:hasDbXref "EBI:fc"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001878 ; owl:annotatedTarget "A sequence variant that falls entirely or partially within a genomic feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001879 ; owl:annotatedTarget "A sequence variant, caused by an alteration of the genomic sequence, where the deletion, is greater than the extent of the underlying genomic features."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001880 ; owl:annotatedTarget "A sequence variant, caused by an alteration of the genomic sequence, where the structural change, an amplification of sequence, is greater than the extent of the underlying genomic features."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001881 ; owl:annotatedTarget "A sequence variant, caused by an alteration of the genomic sequence, where the structural change, a translocation, is greater than the extent of the underlying genomic features."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000170 ; owl:annotatedTarget "A DNA sequence in eukaryotic DNA to which RNA polymerase II binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001882 ; owl:annotatedTarget "A sequence variant, caused by an alteration of the genomic sequence, where a deletion fuses genomic features."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001883 ; owl:annotatedTarget "A feature translocation where the region contains a transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001884 ; owl:annotatedTarget "A feature translocation where the region contains a regulatory region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001885 ; owl:annotatedTarget "A feature translocation where the region contains a transcription factor binding site."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001886 ; owl:annotatedTarget "A feature fusion where the deletion brings together transcript regions."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001887 ; owl:annotatedTarget "A feature fusion where the deletion brings together regulatory regions."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001888 ; owl:annotatedTarget "A fusion where the deletion brings together transcription factor binding sites."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001889 ; owl:annotatedTarget "A feature amplification of a region containing a transcript."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001889 ; owl:annotatedTarget "VEP:transcript_amplification"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001890 ; owl:annotatedTarget "A feature fusion where the deletion brings together a regulatory region and a transcript region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000171 ; owl:annotatedTarget "A DNA sequence in eukaryotic DNA to which RNA polymerase III binds, to begin transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001891 ; owl:annotatedTarget "A feature amplification of a region containing a regulatory region."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001891 ; owl:annotatedTarget "VEP:regulatory_region_amplification"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001892 ; owl:annotatedTarget "A feature amplification of a region containing a transcription factor binding site."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001892 ; owl:annotatedTarget "VEP:TFBS_amplification"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001893 ; owl:annotatedTarget "A feature ablation whereby the deleted region includes a transcript feature."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001893 ; owl:annotatedTarget "Jannovar:transcript_ablation"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001893 ; owl:annotatedTarget "VEP:transcript_ablation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001894 ; owl:annotatedTarget "A feature ablation whereby the deleted region includes a regulatory region."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001894 ; owl:annotatedTarget "VEP:regulatory_region_ablation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001895 ; owl:annotatedTarget "A feature ablation whereby the deleted region includes a transcription factor binding site."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001895 ; owl:annotatedTarget "VEP:TFBS_ablation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001896 ; owl:annotatedTarget "A CDS that is part of a transposable element."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000172 ; owl:annotatedTarget "Part of a conserved sequence located about 75-bp upstream of the start point of eukaryotic transcription units which may be involved in RNA polymerase binding; consensus=GG(C|T)CAATCT."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001897 ; owl:annotatedTarget "A pseudogene contained within a transposable element."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16407326"^^xsd:string, "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001898 ; owl:annotatedTarget "A repeat region which is part of the regional centromere outer repeat region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16407326"^^xsd:string, "SO:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001899 ; owl:annotatedTarget "A repeat region which is part of the regional centromere outer repeat region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17452352"^^xsd:string, "PMID:4092687"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001901 ; owl:annotatedTarget "A conserved 17-bp sequence (5'-ATCA(C/A)AACCCTAACCCT-3') commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site."^^xsd:string . [] oboInOwl:hasDbXref "SO:bm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001902 ; owl:annotatedTarget "A region surrounding a cis_splice site, either within 1-3 bases of the exon or 3-8 bases of the intron."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000006 ; owl:annotatedTarget "A region amplified by a PCR reaction."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000172 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/CAAT_box"^^xsd:string . [] oboInOwl:hasDbXref "PMID:19638999"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001904 ; owl:annotatedTarget "Non-coding RNA transcribed from the opposite DNA strand compared with other transcripts and overlap in part with sense RNA."^^xsd:string . [] oboInOwl:hasDbXref "PomBase:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001905 ; owl:annotatedTarget "A transcript that is transcribed from the outer repeat region of a regional centromere."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001906 ; owl:annotatedTarget "A sequence variant that causes the reduction of a genomic feature, with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001906 ; owl:annotatedTarget "Jannovar:feature_truncation"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001906 ; owl:annotatedTarget "VEP:feature_truncation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001907 ; owl:annotatedTarget "A sequence variant that causes the extension of a genomic feature, with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001907 ; owl:annotatedTarget "VEP:feature_elongation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001908 ; owl:annotatedTarget "A sequence variant that causes the extension of a genomic feature from within the feature rather than from the terminus of the feature, with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001908 ; owl:annotatedTarget "Jannovar:internal_feature_elongation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001909 ; owl:annotatedTarget "A frameshift variant that causes the translational reading frame to be extended relative to the reference feature."^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001909 ; owl:annotatedTarget "ANNOVAR:frameshift insertion"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001909 ; owl:annotatedTarget "Jannovar:frameshift_elongation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001910 ; owl:annotatedTarget "A frameshift variant that causes the translational reading frame to be shortened relative to the reference feature."^^xsd:string . [] oboInOwl:hasDbXref "http://www.openbioinformatics.org/annovar/annovar_download.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001910 ; owl:annotatedTarget "ANNOVAR:frameshift deletion"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001910 ; owl:annotatedTarget "Jannovar:frameshift_truncation"^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000173 ; owl:annotatedTarget "A conserved GC-rich region located upstream of the start point of eukaryotic transcription units which may occur in multiple copies or in either orientation; consensus=GGGCGG."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001911 ; owl:annotatedTarget "A sequence variant where copies of a feature are increased relative to the reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001912 ; owl:annotatedTarget "A sequence variant where copies of a feature are decreased relative to the reference."^^xsd:string . [] oboInOwl:hasDbXref "Invitrogen:kc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001913 ; owl:annotatedTarget "A bacterial promoter with sigma ecf factor binding dependency. This is a type of bacterial promoters that requires a sigma ECF factor to bind to identified -10 and -35 sequence regions in order to mediate binding of the RNA polymerase to the promoter region as part of transcription initiation."^^xsd:string . [] oboInOwl:hasDbXref "PMID:14645529"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001914 ; owl:annotatedTarget "A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19624849"^^xsd:string, "PMID:21372179"^^xsd:string, "SO:andrewgibson"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001915 ; owl:annotatedTarget "A region defined by a cluster of experimentally determined transcription starting sites."^^xsd:string . [] oboInOwl:hasDbXref "SO:andrewgibson"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001916 ; owl:annotatedTarget "A CAGE tag is a sequence tag hat corresponds to 5' ends of mRNA at cap sites, produced by cap analysis gene expression and used to identify transcriptional start sites."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16645617"^^xsd:string, "SO:andrewgibson"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001917 ; owl:annotatedTarget "A kind of transcription_initiation_cluster defined by the clustering of CAGE tags on a sequence region."^^xsd:string . [] oboInOwl:hasDbXref "SO:rtapella"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001918 ; owl:annotatedTarget "A cytosine methylated at the 5 carbon."^^xsd:string . [] oboInOwl:hasDbXref "SO:rtapella"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001919 ; owl:annotatedTarget "A cytosine methylated at the 4 nitrogen."^^xsd:string . [] oboInOwl:hasDbXref "SO:rtapella"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001920 ; owl:annotatedTarget "An adenine methylated at the 6 nitrogen."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16858867"^^xsd:string, "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000174 ; owl:annotatedTarget "A conserved AT-rich septamer found about 25-bp before the start point of many eukaryotic RNA polymerase II transcript units; may be involved in positioning the enzyme for correct initiation; consensus=TATA(A|T)A(A|T)."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001921 ; owl:annotatedTarget "A contig of mitochondria derived sequences."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001922 ; owl:annotatedTarget "A scaffold composed of mitochondrial contigs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22139915"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001923 ; owl:annotatedTarget "A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts contain G rich telomeric RNA repeats and RNA tracts corresponding to adjacent subtelomeric sequences. They are 100-9000 bases long."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2139915"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001924 ; owl:annotatedTarget "A non coding RNA transcript, complementary to subtelomeric tract of TERRA transcript but devoid of the repeats."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22139915"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001925 ; owl:annotatedTarget "A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts consist of C rich repeats."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000174 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/TATA_box"^^xsd:string . [] oboInOwl:hasDbXref "PMID:22139915"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001926 ; owl:annotatedTarget "A non-coding RNA transcript, derived from the transcription of the telomere. These transcripts are antisense of ARRET transcripts."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22139915"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001927 ; owl:annotatedTarget "A non-coding transcript derived from the transcript of the telomere."^^xsd:string . [] oboInOwl:hasDbXref "SO:bm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001928 ; owl:annotatedTarget "A duplication of the distal region of a chromosome."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001929 ; owl:annotatedTarget "A sequencer read of a mitochondrial DNA sample."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001930 ; owl:annotatedTarget "A sequencer read of a chloroplast DNA sample."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001931 ; owl:annotatedTarget "Genomic DNA sequence produced from some base calling or alignment algorithm which uses aligned or assembled multiple gDNA sequences as input."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001932 ; owl:annotatedTarget "A terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 5' end."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001933 ; owl:annotatedTarget "A terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 3' end."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001934 ; owl:annotatedTarget "A repeat_region containing repeat_units of 1 bp that is repeated multiple times in tandem."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001935 ; owl:annotatedTarget "A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H3 protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001936 ; owl:annotatedTarget "A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001937 ; owl:annotatedTarget "A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H2B protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001938 ; owl:annotatedTarget "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2A histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001939 ; owl:annotatedTarget "A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string, "http://dx.doi.org/10.4161/epi.6.5.15623"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001940 ; owl:annotatedTarget "A kind of histone modification site, whereby the 120th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001941 ; owl:annotatedTarget "A kind of histone modification site, whereby the 91st residue (a lysine), from the start of the H4 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001942 ; owl:annotatedTarget "A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001943 ; owl:annotatedTarget "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001944 ; owl:annotatedTarget "A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H2A histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001945 ; owl:annotatedTarget "A kind of histone modification site, whereby the 56th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000175 ; owl:annotatedTarget "A conserved region about 10-bp upstream of the start point of bacterial transcription units which may be involved in binding RNA polymerase; consensus=TAtAaT. This region is associated with sigma factor 70."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001946 ; owl:annotatedTarget "A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001947 ; owl:annotatedTarget "A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is mono-methylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001948 ; owl:annotatedTarget "A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is di-methylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001949 ; owl:annotatedTarget "A kind of histone modification site, whereby the 3nd residue (an arginine), from the start of the H4 protein is di-methylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001950 ; owl:annotatedTarget "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H4 protein is tri-methylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001951 ; owl:annotatedTarget "A kind of histone modification site, whereby the 23rd residue (a lysine), from the start of the H3 protein is di-methylated."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001952 ; owl:annotatedTarget "A region immediately adjacent to a promoter which may or may not contain transcription factor binding sites."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001953 ; owl:annotatedTarget "A region of DNA sequence formed from the ligation of two sticky ends where the palindrome is broken and no longer comprises the recognition site and thus cannot be re-cut by the restriction enzymes used to create the sticky ends."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001954 ; owl:annotatedTarget "A region related to restriction enzyme function."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001955 ; owl:annotatedTarget "A polypeptide region that proves structure in a protein that affects the stability of the protein."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000175 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Pribnow_box"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001956 ; owl:annotatedTarget "A polypeptide_region that codes for a protease cleavage site."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001957 ; owl:annotatedTarget "RNA secondary structure that affects the stability of an RNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001958 ; owl:annotatedTarget "A kind of intron whereby the excision is driven by lariat formation."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20801935"^^xsd:string, "SO:myl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001959 ; owl:annotatedTarget "A cis-regulatory element, conserved sequence YYC+1TTTYY, and spans -2 to +6 relative to +1 TSS. It is present in most ribosomal protein genes in Drosophila and mammals but not in the yeast Saccharomyces cerevisiae. Resembles the initiator (TCAKTY in Drosophila) but functionally distinct from initiator."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001960 ; owl:annotatedTarget "A modified DNA cytosine base feature, modified by a hydroxymethyl group at the 5 carbon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001961 ; owl:annotatedTarget "A modified DNA cytosine base feature, modified by a formyl group at the 5 carbon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001962 ; owl:annotatedTarget "A modified adenine DNA base feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001963 ; owl:annotatedTarget "A modified cytosine DNA base feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001964 ; owl:annotatedTarget "A modified guanine DNA base feature."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001965 ; owl:annotatedTarget "A modified DNA guanine base,at the 8 carbon, often the product of DNA damage."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001966 ; owl:annotatedTarget "A modified DNA cytosine base feature, modified by a carboxy group at the 5 carbon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001967 ; owl:annotatedTarget "A modified DNA adenine base,at the 8 carbon, often the product of DNA damage."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001968 ; owl:annotatedTarget "A transcript variant of a protein coding gene."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001968 ; owl:annotatedTarget "Jannovar:coding_transcript_variant"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001969 ; owl:annotatedTarget "A transcript variant occurring within an intron of a coding transcript."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001969 ; owl:annotatedTarget "Jannovar:coding_transcript_intron_variant"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001970 ; owl:annotatedTarget "A transcript variant occurring within an intron of a non coding transcript."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001970 ; owl:annotatedTarget "ANNOVAR:ncRNA_intronic"^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasNarrowSynonym ; owl:annotatedSource obo:SO_0001970 ; owl:annotatedTarget "Jannovar:non_coding_transcript_intron_variant"^^xsd:string . [] oboInOwl:hasDbXref "unirot:features"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001971 ; owl:annotatedTarget "zinc_fing"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000006 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/RAPD"^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string, "ISBN:0815341059"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001972 ; owl:annotatedTarget "A histone 4 modification where the modification is the acetylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string, "ISBN:0815341059"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001973 ; owl:annotatedTarget "A histone 3 modification where the modification is the acetylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "EBI:nj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001974 ; owl:annotatedTarget "A transcription factor binding site with consensus sequence CCGCGNGGNGGCAG, bound by CCCTF-binding factor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001975 ; owl:annotatedTarget "A restriction enzyme recognition site that, when cleaved, results in 5 prime overhangs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001976 ; owl:annotatedTarget "A restriction enzyme recognition site that, when cleaved, results in 3 prime overhangs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001977 ; owl:annotatedTarget "A region of a transcript encoding the cleavage site for a ribonuclease enzyme."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001978 ; owl:annotatedTarget "A region of sequence where developer information is encoded."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22495308"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001979 ; owl:annotatedTarget "A motif that affects the stability of RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19249238"^^xsd:string, "PMID:8571452"^^xsd:string, "SO:ml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001980 ; owl:annotatedTarget "A regulatory promoter element identified in mutation experiments, with consensus sequence: CACGTG. Present in promoters, intergenic regions, coding regions, and introns. They are involved in gene expression responses to light and interact with G-box binding factor and I-box binding factor 1a."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17381552"^^xsd:string, "PMID:2902624"^^xsd:string, "SO:ml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001981 ; owl:annotatedTarget "An orientation dependent regulatory promoter element, with consensus sequence of TTGCACAN4TTGCACA, found in plants."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000176 ; owl:annotatedTarget "A conserved hexamer about 35-bp upstream of the start point of bacterial transcription units; consensus=TTGACa or TGTTGACA. This region is associated with sigma factor 70."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2347304"^^xsd:string, "PMID:2902624"^^xsd:string, "SO:ml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001982 ; owl:annotatedTarget "A plant regulatory promoter motif, composed of a highly conserved hexamer GATAAG (I-box core)."^^xsd:string . [] oboInOwl:hasDbXref "SANGER:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001983 ; owl:annotatedTarget "A 5' UTR variant where a premature start codon is introduced, moved or lost."^^xsd:string . [] oboInOwl:hasDbXref "PomBase:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001984 ; owl:annotatedTarget "A gene cassette array that corresponds to a silenced version of a mating type region."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0805350152"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001985 ; owl:annotatedTarget "Any of the DNA segments produced by discontinuous synthesis of the lagging strand during DNA replication."^^xsd:string . [] oboInOwl:hasDbXref "EBI:gr"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001986 ; owl:annotatedTarget "A feature variant, where the alteration occurs upstream of the transcript TSS."^^xsd:string . [] oboInOwl:hasDbXref "Sanger:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001988 ; owl:annotatedTarget "A 5' UTR variant where a premature start codon is gained."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001988 ; owl:annotatedTarget "Jannovar:5_prime_UTR_premature_start_codon_gain_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001988 ; owl:annotatedTarget "snpEff:START_GAINED"^^xsd:string . [] oboInOwl:hasDbXref "SANGER:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001989 ; owl:annotatedTarget "A 5' UTR variant where a premature start codon is lost."^^xsd:string . [] oboInOwl:hasDbXref "SANGER:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001990 ; owl:annotatedTarget "A 5' UTR variant where a premature start codon is moved."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000177 ; owl:annotatedTarget "A nucleotide match against a sequence from another organism."^^xsd:string . [] oboInOwl:hasDbXref "GMOD:ea"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001991 ; owl:annotatedTarget "A consensus AFLP fragment is an AFLP sequence produced from any alignment algorithm which uses assembled multiple AFLP sequences as input."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001992 ; owl:annotatedTarget "A non-synonymous variant is an inframe, protein altering variant, resulting in a codon change."^^xsd:string . [] oboInOwl:hasDbXref "http://ensembl.org/info/docs/variation/index.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0001992 ; owl:annotatedTarget "non_synonymous_coding"^^xsd:string . [] oboInOwl:hasDbXref "SANGER:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001993 ; owl:annotatedTarget "Intronic positions associated with cis-splicing. Contains the first and second positions immediately before the exon and the first, second and fifth positions immediately after."^^xsd:string . [] oboInOwl:hasDbXref "SANGER:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001994 ; owl:annotatedTarget "Fifth intronic position after the intron exon boundary, close to the 5' edge of the intron."^^xsd:string . [] oboInOwl:hasDbXref "sanger:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001995 ; owl:annotatedTarget "A sequence variant occurring in the intron, within 10 bases of exon."^^xsd:string . [] oboInOwl:hasDbXref "SANGER:am"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001996 ; owl:annotatedTarget "Region of intronic sequence within 10 bases of an exon."^^xsd:string . [] oboInOwl:hasDbXref "POMBE:al"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001997 ; owl:annotatedTarget "A heterochromatic region of the chromosome, adjacent to the telomere (on the centromeric side) that contains repetitive DNA and sometimes genes and it is transcribed."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23934893"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001998 ; owl:annotatedTarget "A small RNA oligo, typically about 20 bases, that guides the cas nuclease to a target DNA sequence in the CRISPR/cas mutagenesis method."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000178 ; owl:annotatedTarget "The DNA region of a group of adjacent genes whose transcription is coordinated on one or several mutually overlapping transcription units transcribed in the same direction and sharing at least one gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0001999 ; owl:annotatedTarget "DNA motif that is a component of a mating type region."^^xsd:string . [] oboInOwl:hasDbXref "SGD:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002001 ; owl:annotatedTarget "A segment of non-homology between a and alpha mating alleles, found at all three mating loci (HML, MAT, and HMR), has two forms (Ya and Yalpha)."^^xsd:string . [] oboInOwl:hasDbXref "SGD:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002002 ; owl:annotatedTarget "A mating type region motif, one of two segments of homology found at all three mating loci (HML, MAT, and HMR)."^^xsd:string . [] oboInOwl:hasDbXref "SGD:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002003 ; owl:annotatedTarget "A mating type region motif, the rightmost segment of homology in the HML and MAT mating loci (not present in HMR)."^^xsd:string . [] oboInOwl:hasDbXref "SGD:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002004 ; owl:annotatedTarget "The ACS is an 11-bp sequence of the form 5'-WTTTAYRTTTW-3' which is at the core of every yeast ARS, and is necessary but not sufficient for recognition and binding by the origin recognition complex (ORC). Functional ARSs require an ACS, as well as other cis elements in the 5' (C domain) and 3' (B domain) flanking sequences of the ACS."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22645662"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002005 ; owl:annotatedTarget "The determinant of selective removal (DSR) motif consists of repeats of U(U/C)AAAC. The motif targets meiotic transcripts for removal during mitosis via the exosome."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24003116"^^xsd:string, "POMBE:mh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002006 ; owl:annotatedTarget "A promoter element that has the consensus sequence GNMGATC, and is found in promoters of genes repressed in the presence of zinc."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002007 ; owl:annotatedTarget "An MNV is a multiple nucleotide variant (substitution) in which the inserted sequence is the same length as the replaced sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000178 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Operon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002008 ; owl:annotatedTarget "A sequence variant whereby at least one base of a codon encoding a rare amino acid is changed, resulting in a different encoded amino acid."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002008 ; owl:annotatedTarget "Jannovar:rare_amino_acid_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002008 ; owl:annotatedTarget "snpEff:RARE_AMINO_ACID"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002009 ; owl:annotatedTarget "A sequence variant whereby at least one base of a codon encoding selenocysteine is changed, resulting in a different encoded amino acid."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002010 ; owl:annotatedTarget "A sequence variant whereby at least one base of a codon encoding pyrrolysine is changed, resulting in a different encoded amino acid."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002011 ; owl:annotatedTarget "A variant that occurs within a gene but falls outside of all transcript features. This occurs when alternate transcripts of a gene do not share overlapping sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002011 ; owl:annotatedTarget "Jannovar:intragenic_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002011 ; owl:annotatedTarget "snpEff:INTRAGENIC"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002012 ; owl:annotatedTarget "A codon variant that changes at least one base of the canonical start codon."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002012 ; owl:annotatedTarget "Jannovar:start_lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002012 ; owl:annotatedTarget "VEP:start_lost"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002012 ; owl:annotatedTarget "snpEff:START_LOST"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002013 ; owl:annotatedTarget "A sequence variant that causes the reduction of a the 5'UTR with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002013 ; owl:annotatedTarget "Jannovar:5_prime_utr_truncation"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002013 ; owl:annotatedTarget "snpEff:UTR_5_DELETED"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002014 ; owl:annotatedTarget "A sequence variant that causes the extension of 5' UTR, with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002015 ; owl:annotatedTarget "A sequence variant that causes the reduction of a the 3' UTR with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002015 ; owl:annotatedTarget "Jannovar:3_prime_utr_truncation"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002015 ; owl:annotatedTarget "snpEff:UTR_3_DELETED"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002016 ; owl:annotatedTarget "A sequence variant that causes the extension of 3' UTR, with regard to the reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000179 ; owl:annotatedTarget "The start of the clone insert."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002017 ; owl:annotatedTarget "A sequence variant located in a conserved intergenic region, between genes."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002017 ; owl:annotatedTarget "Jannovar:conserved_intergenic_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002017 ; owl:annotatedTarget "snpEff:INTERGENIC_CONSERVED"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002018 ; owl:annotatedTarget "A transcript variant occurring within a conserved region of an intron."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002018 ; owl:annotatedTarget "Jannovar:conserved_intron_variant"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002018 ; owl:annotatedTarget "snpEff:INTRON_CONSERVED"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002019 ; owl:annotatedTarget "A sequence variant where at least one base in the start codon is changed, but the start remains."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002019 ; owl:annotatedTarget "snpEff:SYNONYMOUS_START"^^xsd:string . [] oboInOwl:hasDbXref "PMID:24013502"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002020 ; owl:annotatedTarget "Boundary elements are DNA motifs that prevent heterochromatin from spreading into neighboring euchromatic regions."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17614787"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002021 ; owl:annotatedTarget "A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing."^^xsd:string . [] oboInOwl:hasDbXref "http://www.dddmag.com/Glossary.aspx#r"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000180 ; owl:annotatedTarget "A transposable element that is incorporated into a chromosome by a mechanism that requires reverse transcriptase."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20178743"^^xsd:string, "PMID:24095277"^^xsd:string, "PomBase:al"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002022 ; owl:annotatedTarget "A small RNA molecule, 22-23 nt in size, that is the product of a longer RNA. The production of priRNAs is independent of dicer and involves binding of RNA by argonaute and trimming by triman. In fission yeast, priRNAs trigger the establishment of heterochromatin. PriRNAs are primarily generated from centromeric transcripts (dg and dh repeats), but may also be produced from degradation products of primary transcripts."^^xsd:string . [] oboInOwl:hasDbXref "OBO:prs"^^xsd:string, "PMID:22574170"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002023 ; owl:annotatedTarget "A nucleic tag which is used in a ligation step of library preparation process to allow pooling of samples while maintaining ability to identify individual source material and creation of a multiplexed library."^^xsd:string . [] oboInOwl:hasDbXref "SGD:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002024 ; owl:annotatedTarget "The leftmost segment of homology in the HML and MAT mating loci, but not present in HMR."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22582262"^^xsd:string, "PMID:23117617"^^xsd:string, "PMID:24173580"^^xsd:string, "PomBase:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002025 ; owl:annotatedTarget "A genome region where chromosome pairing occurs preferentially during homologous chromosome pairing during early meiotic prophase of Meiosis I."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8165123"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002026 ; owl:annotatedTarget "The nucleotide sequence which encodes the intein portion of the precursor gene."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12890013"^^xsd:string, "PMID:16153175"^^xsd:string, "POMBASE:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002027 ; owl:annotatedTarget "A short open reading frame that is found in the 5' untranslated region of an mRNA and plays a role in translational regulation."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23970561"^^xsd:string, "PMID:24705786"^^xsd:string, "POMBASE:mah"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002028 ; owl:annotatedTarget "An open reading frame that encodes a peptide of less than 100 amino acids."^^xsd:string . [] oboInOwl:hasDbXref "POMBASE:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002029 ; owl:annotatedTarget "A translated ORF encoded entirely within the antisense strand of a known protein coding gene."^^xsd:string . [] oboInOwl:hasDbXref "SGD:jd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002030 ; owl:annotatedTarget "One of two segments of homology found at all three mating loci (HML, MAT and HMR)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:6699500"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002031 ; owl:annotatedTarget "A short hairpin RNA (shRNA) is an RNA transcript that makes a tight hairpin turn that can be used to silence target gene expression via RNA interference."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000180 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Retrotransposon"^^xsd:string . [] a owl:Axiom ; rdfs:label "wikipedia"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002031 ; owl:annotatedTarget "http:http:en.wikipedia.org/wiki/Small_hairpin_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002032 ; owl:annotatedTarget "A non-coding transcript encoded by sequences adjacent to the ends of the 5' and 3' miR-encoding sequences that abut the loop in precursor miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002033 ; owl:annotatedTarget "A short, non coding transcript of loop-derived sequences encoded in precursor miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002034 ; owl:annotatedTarget "A snoRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002035 ; owl:annotatedTarget "A primary transcript encoding a lncRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002036 ; owl:annotatedTarget "A lncRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000181 ; owl:annotatedTarget "A match against a translated sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002037 ; owl:annotatedTarget "A tRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002038 ; owl:annotatedTarget "A primary transcript encoding an shRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002039 ; owl:annotatedTarget "A shRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002040 ; owl:annotatedTarget "A primary transcript encoding a vaultRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002041 ; owl:annotatedTarget "A vaultRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002042 ; owl:annotatedTarget "A primary transcript encoding a Y-RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000182 ; owl:annotatedTarget "A transposon where the mechanism of transposition is via a DNA intermediate."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002043 ; owl:annotatedTarget "A Y-RNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:1489142"^^xsd:string, "PMID:20118212"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002044 ; owl:annotatedTarget "A TCS element is a (yeast) transcription factor binding site, bound by the TEA DNA binding domain (DBD) of transcription factors. The consensus site is CATTCC or CATTCT."^^xsd:string . [] oboInOwl:hasDbXref "PMID:1489142"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002045 ; owl:annotatedTarget "A PRE is a (yeast) TFBS with consensus site [TGAAAC(A/G)]."^^xsd:string . [] oboInOwl:hasDbXref "PMID:1489142"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002046 ; owl:annotatedTarget "A FRE is an enhancer element necessary and sufficient to confer filamentation associated expression in S. cerevisiae."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24789973"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002047 ; owl:annotatedTarget "Transcription pause sites are regions of a gene where RNA polymerase may pause during transcription. The functional role of pausing may be to facilitate factor recruitment, RNA folding, and synchronization with translation. Consensus transcription pause site have been observed in E. coli."^^xsd:string . [] oboInOwl:hasDbXref "SGD:se"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002048 ; owl:annotatedTarget "A reading frame that could encode a full-length protein but which contains obvious mid-sequence disablements (frameshifts or premature stop codons)."^^xsd:string . [] oboInOwl:hasDbXref "SO:rs"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002049 ; owl:annotatedTarget "A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002050 ; owl:annotatedTarget "A promoter that allows for continual transcription of gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002051 ; owl:annotatedTarget "A promoter whereby activity is induced by the presence or absence of biotic or abiotic factors."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002052 ; owl:annotatedTarget "A variant where the mutated gene product adversely affects the other (wild type) gene product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000183 ; owl:annotatedTarget "A region of the gene which is not transcribed."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002053 ; owl:annotatedTarget "A sequence variant whereby new or enhanced function is conferred on the gene product."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002054 ; owl:annotatedTarget "A sequence variant whereby the gene product has diminished or abolished function."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002055 ; owl:annotatedTarget "A variant whereby the gene product is not functional or the gene product is not produced."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23241926"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002056 ; owl:annotatedTarget "An intronic splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23241926"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002058 ; owl:annotatedTarget "An exonic splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control."^^xsd:string . [] oboInOwl:hasDbXref "PMID:8861911"^^xsd:string, "SGD:se"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002059 ; owl:annotatedTarget "A regulatory_region that promotes or induces the process of recombination."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002060 ; owl:annotatedTarget "A translocation where the regions involved are from different chromosomes."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002061 ; owl:annotatedTarget "A translocation where the regions involved are from the same chromosome."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002062 ; owl:annotatedTarget "A contiguous cluster of translocations, usually the result of a single catastrophic event such as chromothripsis or chromoanasynthesis."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9428511"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000184 ; owl:annotatedTarget "A major type of spliceosomal intron spliced by the U2 spliceosome, that includes U1, U2, U4/U6 and U5 snRNAs."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002063 ; owl:annotatedTarget "An insertion of sequence from the Alu family of mobile elements."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002064 ; owl:annotatedTarget "An insertion from the Line1 family of mobile elements."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002065 ; owl:annotatedTarget "An insertion of sequence from the SVA family of mobile elements."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002066 ; owl:annotatedTarget "A deletion of a mobile element when comparing a reference sequence (has mobile element) to a individual sequence (does not have mobile element)."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002067 ; owl:annotatedTarget "A deletion of the HERV mobile element with respect to a reference."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002068 ; owl:annotatedTarget "A deletion of an SVA mobile element."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002069 ; owl:annotatedTarget "A deletion of a LINE1 mobile element with respect to a reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000185 ; owl:annotatedTarget "A transcript that in its initial state requires modification to be functional."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002070 ; owl:annotatedTarget "A deletion of an Alu mobile element with respect to a reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002071 ; owl:annotatedTarget "A CDS that is supported by proteomics data."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002073 ; owl:annotatedTarget "A position or feature within a sequence that is identical to the comparable position or feature of a specified reference sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002074 ; owl:annotatedTarget "A variant that falls in an intergenic region that is 1 kb or less between 2 genes."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002074 ; owl:annotatedTarget "ANNOVAR:upstream;downstream"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002075 ; owl:annotatedTarget "A sequence variant that intersects an incompletely annotated transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002076 ; owl:annotatedTarget "A sequence variant that intersects the 3' UTR of an incompletely annotated transcript."^^xsd:string . [] oboInOwl:hasDbXref "http://annovar.openbioinformatics.org/en/latest/user-guide/gene/"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002076 ; owl:annotatedTarget "ANNOVAR:ncRNA_UTR3"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002077 ; owl:annotatedTarget "A sequence variant that intersects the 5' UTR of an incompletely annotated transcript."^^xsd:string . [] oboInOwl:hasDbXref "http://annovar.openbioinformatics.org/en/latest/user-guide/gene/"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002077 ; owl:annotatedTarget "ANNOVAR:ncRNA_UTR5"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000185 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Primary_transcript"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002078 ; owl:annotatedTarget "A sequence variant that intersects the intron of an incompletely annotated transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002079 ; owl:annotatedTarget "A sequence variant that intersects the splice region of an incompletely annotated transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002080 ; owl:annotatedTarget "A sequence variant that intersects the exon of an incompletely annotated transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002081 ; owl:annotatedTarget "A sequence variant that intersects the coding regions of an incompletely annotated transcript."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002081 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002081 ; owl:annotatedTarget "Seattleseq:coding-notMod3"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002081 ; owl:annotatedTarget "Seattleseq:coding-unknown"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002082 ; owl:annotatedTarget "A sequence variant that intersects the coding sequence near a splice region of an incompletely annotated transcript."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002082 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002082 ; owl:annotatedTarget "Seattleseq:coding-notMod3-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000186 ; owl:annotatedTarget "A retrotransposon flanked by long terminal repeat sequences."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002082 ; owl:annotatedTarget "Seattleseq:coding-unknown-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002083 ; owl:annotatedTarget "A sequence variant located within 2KB 3' of a gene."^^xsd:string . [] a owl:Axiom ; rdfs:label "Seattleseq"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002083 ; owl:annotatedTarget "http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002083 ; owl:annotatedTarget "Seattleseq:near-gene-3"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002084 ; owl:annotatedTarget "A sequence variant in which a change has occurred within the exonic region of the splice site, 1-2 bases from boundary."^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0002084 ; owl:annotatedTarget "ANNOVAR:exonic;splicing"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0002084 ; owl:annotatedTarget "Seattleseq:coding-near-splice"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002085 ; owl:annotatedTarget "A sequence variant whereby two genes, on the same strand have become joined."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002086 ; owl:annotatedTarget "A sequence variant whereby two genes, on alternate strands have become joined."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000187 ; owl:annotatedTarget "A group of characterized repeat sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002087 ; owl:annotatedTarget "A non functional descendant of the coding portion of a coding transcript, part of a pseudogene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002088 ; owl:annotatedTarget "A transcript variant occurring within the splice region (1-3 bases of the exon or 3-8 bases of the intron) of a non coding transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002089 ; owl:annotatedTarget "A UTR variant of exonic sequence of the 3' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002090 ; owl:annotatedTarget "A UTR variant of intronic sequence of the 3' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002091 ; owl:annotatedTarget "A UTR variant of intronic sequence of the 5' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002092 ; owl:annotatedTarget "A UTR variant of exonic sequence of the 5' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002093 ; owl:annotatedTarget "A variant that impacts the internal interactions of the resulting polypeptide structure."^^xsd:string . [] oboInOwl:hasDbXref "PMC:126017"^^xsd:string, "PMID:27775477"^^xsd:string, "PMID:28869095"^^xsd:string, "SO:nrs"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002095 ; owl:annotatedTarget "A ncRNA, specific to the Cajal body, that has been demonstrated to function as a guide RNA in the site-specific synthesis of 2'-O-ribose-methylated nucleotides and pseudouridines in the RNA polymerase II-transcribed U1, U2, U4 and U5 spliceosomal small nuclear RNAs (snRNAs)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002096 ; owl:annotatedTarget "A variation that expands or contracts a tandem repeat with regard to a reference."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002097 ; owl:annotatedTarget "A pseudogene derived from a vertebrate immune system gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000188 ; owl:annotatedTarget "A region of a primary transcript that is transcribed, but removed from within the transcript by splicing together the sequences (exons) on either side of it."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002098 ; owl:annotatedTarget "A pseudogene derived from an immunoglobulin gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002099 ; owl:annotatedTarget "A pseudogene derived from a T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002100 ; owl:annotatedTarget "A pseudogenic constant region of an immunoglobulin gene which closely resembles a known functional Imunoglobulin constant gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002101 ; owl:annotatedTarget "A pseudogenic joining region which closely resembles a known functional imunoglobulin joining gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002102 ; owl:annotatedTarget "A pseudogenic variable region which closely resembles a known functional imunoglobulin variable gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the variable region of an immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002103 ; owl:annotatedTarget "A pseudogenic variable region which closely resembles a known functional T receptor variable gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the variable region of an immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002104 ; owl:annotatedTarget "A pseudogenic joining region which closely resembles a known functional T receptor (TR) joining gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002105 ; owl:annotatedTarget "A processed pseudogene where there is evidence, (mass spec data) suggesting that it is also translated."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002106 ; owl:annotatedTarget "A non-processed pseudogene where there is evidence, (mass spec data) suggesting that it is also translated."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002107 ; owl:annotatedTarget "A unprocessed pseudogene supported by locus-specific evidence of transcription."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000188 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Intron"^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002108 ; owl:annotatedTarget "A species specific unprocessed pseudogene without a parent gene, as it has an active orthologue in another species."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002109 ; owl:annotatedTarget "A processed_pseudogene overlapped by locus-specific evidence of transcription."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002110 ; owl:annotatedTarget "A polymorphic pseudogene in the reference genome, containing a retained intron, known to be intact in the genomes of other individuals of the same species. The annotation process has confirmed that the pseudogenisation event is not a genomic sequencing error."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002111 ; owl:annotatedTarget "A processed_transcript supported by EST and/or mRNA evidence that aligns unambiguously to a pseudogene locus (i.e. alignment to the pseudogene locus clearly better than alignment to parent locus)."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002112 ; owl:annotatedTarget "A protein coding transcript containing a retained intron."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002113 ; owl:annotatedTarget "A lncRNA transcript containing a retained intron."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002114 ; owl:annotatedTarget "A protein coding transcript that contains a CDS but has one or more splice junctions >50bp downstream of stop codon, making it susceptible to nonsense mediated decay."^^xsd:string . [] a owl:Axiom ; rdfs:label "GENCODE"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002114 ; owl:annotatedTarget "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002115 ; owl:annotatedTarget "A transcript supported by EST and/or mRNA evidence that aligns unambiguously to the pseudogene locus; has retained intronic sequence compared to a reference transcript sequence."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002116 ; owl:annotatedTarget "A processed transcript that does not contain a CDS that fullfills annotation criteria and not necessarily functionally non-coding."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000189 ; owl:annotatedTarget "A retrotransposon without long terminal repeat sequences."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002118 ; owl:annotatedTarget "A polymorphic pseudogene transcript that contains a CDS but has one or more splice junctions >50bp downstream of stop codon. Premature stop codon is not introduced, directly or indirectly, as a result of the variation i.e. must be present in both protein_coding and pseudogenic alleles."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002119 ; owl:annotatedTarget "A physical quality which inheres to the allele by virtue of the number instances of the allele within a population. This is the relative frequency of the allele at a given locus in a population."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002120 ; owl:annotatedTarget "Transcript where ditag (digital gene expression profiling)and/or published experimental data strongly supports the existence of short non-coding transcripts transcribed from the 3'UTR."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002121 ; owl:annotatedTarget "The configuration of the IG and TR variable (V), diversity (D) and joining (J) germline genes before DNA rearrangements (with or without constant (C) genes in undefined configuration. (germline, non rearranged regions of the IG DNA loci)."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002122 ; owl:annotatedTarget "A germline immunoglobulin gene."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002123 ; owl:annotatedTarget "A constant (C) gene, a gene that codes the constant region of an immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002124 ; owl:annotatedTarget "A gene that rearranges at the DNA level and codes the diversity region of the variable domain of an immunoglobuin (IG) gene."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002125 ; owl:annotatedTarget "A joining gene that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002126 ; owl:annotatedTarget "A variable gene that rearranges at the DNA level and codes the variable region of the variable domain of an Immunoglobulin chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002127 ; owl:annotatedTarget "A gene that encodes a long non-coding RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:contained_by ; owl:annotatedTarget "X contained_by Y iff X starts after start of Y and X ends before end of Y."^^xsd:string . [] oboInOwl:hasDbXref "GOC:pj"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000193 ; owl:annotatedTarget "A DNA fragment used as a reagent to detect the polymorphic genomic loci by hybridizing against the genomic DNA digested with a given restriction enzyme."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002128 ; owl:annotatedTarget "Mitochondrial rRNA is an RNA component of the small or large subunits of mitochondrial ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002129 ; owl:annotatedTarget "Mitochondrial transfer RNA."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002130 ; owl:annotatedTarget "A transcript that contains a CDS but has no stop codon before the polyA site is reached."^^xsd:string . [] oboInOwl:hasDbXref "GENECODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002131 ; owl:annotatedTarget "A long non-coding transcript found within an intron of a coding or non-coding gene, with no overlap of exonic sequence."^^xsd:string . [] oboInOwl:hasDbXref "GENECODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002132 ; owl:annotatedTarget "A long non-coding transcript that contains a protein coding gene within its intronic sequence on the same strand, with no overlap of exonic sequence."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002134 ; owl:annotatedTarget "A constant (C) gene, a gene that codes the constant region of a T-cell receptor chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002135 ; owl:annotatedTarget "A gene that rearranges at the DNA level and codes the diversity region of the variable domain of aT-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002136 ; owl:annotatedTarget "A joining gene that rearranges at the DNA level and codes the joining region of the variable domain of aT-cell receptor chain."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string, "IGMT:http://www.imgt.org/IMGTScientificChart/SequenceDescription/Keywords.php"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002137 ; owl:annotatedTarget "A variable gene that rearranges at the DNA level and codes the variable region of the variable domain of aT-cell receptor chain."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002138 ; owl:annotatedTarget "A transcript feature that has been predicted but is not yet validated."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000193 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Restriction_fragment_length_polymorphism"^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002139 ; owl:annotatedTarget "This is used for non-spliced EST clusters that have polyA features. This category has been specifically created for the ENCODE project to highlight regions that could indicate the presence of protein coding genes that require experimental validation, either by 5' RACE or RT-PCR to extend the transcripts, or by confirming expression of the putatively-encoded peptide with specific antibodies."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23348837"^^xsd:string, "PMID:9115207"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002140 ; owl:annotatedTarget "An origin of replication that initiates early in S phase."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23348837"^^xsd:string, "PMID:9115207"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002141 ; owl:annotatedTarget "An origin of replication that initiates late in S phase."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0815341059"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002142 ; owl:annotatedTarget "A histone 2A modification where the modification is the acetylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0815341059"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002143 ; owl:annotatedTarget "A histone 2B modification where the modification is the acetylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19385636"^^xsd:string, "PMID:24316985"^^xsd:string, "PMID:27087541"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002144 ; owl:annotatedTarget "A histone 2AZ modification where the modification is the acetylation of the residue."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19385636"^^xsd:string, "PMID:24316985"^^xsd:string, "PMID:27087541"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002145 ; owl:annotatedTarget "A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19385636"^^xsd:string, "PMID:24316985"^^xsd:string, "PMID:27087541"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002146 ; owl:annotatedTarget "A kind of histone modification site, whereby the 7th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19385636"^^xsd:string, "PMID:24316985"^^xsd:string, "PMID:27087541"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002147 ; owl:annotatedTarget "A kind of histone modification site, whereby the 11th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19385636"^^xsd:string, "PMID:24316985"^^xsd:string, "PMID:27087541"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002148 ; owl:annotatedTarget "A kind of histone modification site, whereby the 13th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000194 ; owl:annotatedTarget "A dispersed repeat family with many copies, each from 1 to 6 kb long. New elements are generated by retroposition of a transcribed copy. Typically the LINE contains 2 ORF's one of which is reverse transcriptase, and 3'and 5' direct repeats."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19385636"^^xsd:string, "PMID:24316985"^^xsd:string, "PMID:27087541"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002149 ; owl:annotatedTarget "A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2AZ histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "PMID:26684391"^^xsd:string, "PMID:27313038"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002150 ; owl:annotatedTarget "A uORF beginning with the canonical start codon AUG."^^xsd:string . [] oboInOwl:hasDbXref "PMID:26684391"^^xsd:string, "PMID:27313038"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002151 ; owl:annotatedTarget "A uORF beginning with a codon other than AUG."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:dm"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002152 ; owl:annotatedTarget "A variant that falls downstream of a transcript, but within the genic region of the gene due to alternately transcribed isoforms."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:dm"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002153 ; owl:annotatedTarget "A variant that falls upstream of a transcript, but within the genic region of the gene due to alternately transcribed isoforms."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:cf"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002154 ; owl:annotatedTarget "A genomic region where there is an exchange of genetic material with another genomic region, occurring in somatic cells."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:cf"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002155 ; owl:annotatedTarget "A genomic region in which there is an exchange of genetic material as a result of the repair of meiosis-specific double strand breaks that occur during meiotic prophase."^^xsd:string . [] oboInOwl:hasDbXref "PMID:1748287"^^xsd:string, "PMID:7623803"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002156 ; owl:annotatedTarget "A promoter element bound by the MADS family of transcription factors with consensus 5'-(C/T)TA(T/A)4TA(G/A)-3'."^^xsd:string . [] oboInOwl:hasDbXref "PMID:18354497"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002157 ; owl:annotatedTarget "A gene cassette array containing H+ mating type specific information."^^xsd:string . [] oboInOwl:hasDbXref "PMID:18354497"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002158 ; owl:annotatedTarget "A gene cassette array containing H- mating type specific information."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000195 ; owl:annotatedTarget "An exon whereby at least one base is part of a codon (here, 'codon' is inclusive of the stop_codon)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17083136"^^xsd:string, "PMID:27655872"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002159 ; owl:annotatedTarget "A conserved Cdc48/p97 interaction motif with strict consensus sequence F[PI]GKG[TK][RK]LG[GT] and relaxed consensus sequence FXGKGX[RK]LG."^^xsd:string . [] oboInOwl:hasDbXref "PMID:18552846"^^xsd:string, "http://www.actrec.gov.in/histome/ptm_sp.php?ptm_sp=H2BK5ac"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002164 ; owl:annotatedTarget "A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B histone protein is acetylated."^^xsd:string . [] oboInOwl:hasDbXref "PMID:26453491"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002166 ; owl:annotatedTarget "A ref_miRNA (RefSeq-miRNA) sequence is assigned at the creation of a new mature miRNA entry in a database. The ref_miRNA sequence designation remains unchanged even if a different isomiR is later shown to be expressed at a higher level. A ref_miRNA can be produced by one or multiple pre-miRNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:26453491"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002167 ; owl:annotatedTarget "IsomiRs are all the bona fide variants of a mature product. IsomiRs should be connected to the ref_miRNA it is most likely to be the variant of. Some isomiRs can be variations of one or multiple ref_miRNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22421878"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002168 ; owl:annotatedTarget "An RNA_thermometer is a cis element in the 5' end of an mRNA that can change its secondary structure in response to temperature and coordinate temperature-dependent gene expression."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002168 ; owl:annotatedTarget "https://en.wikipedia.org/wiki/RNA_thermometer"^^xsd:string . [] oboInOwl:hasDbXref "PMID:10338204"^^xsd:string, "PMID:15071557"^^xsd:string, "PMID:24012755"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002171 ; owl:annotatedTarget "A telomeric D-loop is a three-stranded DNA displacement loop that forms at the site where the telomeric 3' single-stranded DNA overhang (formed of the repeat sequence TTAGGG in mammals) is tucked back inside the double-stranded component of telomeric DNA molecule, thus forming a t-loop or telomeric-loop and protecting the chromosome terminus."^^xsd:string . [] oboInOwl:hasDbXref "https://www.gencodegenes.org/pages/biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002185 ; owl:annotatedTarget "A non-coding locus that originates from within the promoter region of a protein-coding gene, with transcription proceeding in the opposite direction on the other strand."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002187 ; owl:annotatedTarget "An insertion of sequence from the HERV family of mobile elements with respect to a reference."^^xsd:string . [] oboInOwl:hasDbXref "Clingen:mb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002188 ; owl:annotatedTarget "A gene_member_region that encodes sequence that directly contributes to the molecular function of its gene or gene product."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:cf"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002190 ; owl:annotatedTarget "A transcriptional cis regulatory region that when located between an enhancer and a gene's promoter prevents the enhancer from modulating the expression of the gene. Sometimes referred to as an insulator but may not include the barrier function of an insulator."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:cf"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002203 ; owl:annotatedTarget "A nucleotide site from which replication initiates."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:tm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002206 ; owl:annotatedTarget "Identifies the biological source of the specified span of the sequence"^^xsd:string . [] oboInOwl:hasDbXref "PMID:22645662"^^xsd:string, "PMID:28765164"^^xsd:string, "PomBase:al"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002207 ; owl:annotatedTarget "A hexameric RNA motif consisting of nucleotides UNAAAC (where N can be any nucleotide) that targets the RNA for degradation."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24256266"^^xsd:string, "PomBase:mh"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002208 ; owl:annotatedTarget "An RNA that is transcribed from a long terminal repeat."^^xsd:string . [] oboInOwl:hasDbXref "BCS:etrwz"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002209 ; owl:annotatedTarget "A contig composed of genomic DNA derived sequences."^^xsd:string . [] oboInOwl:hasDbXref "BCS:bbean"^^xsd:string, "PMID:19956538"^^xsd:string, "PMID:25881062"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002210 ; owl:annotatedTarget "A variation qualifying the presence of a sequence in a genome which is entirely missing in another genome."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21719542"^^xsd:string, "SBOL:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002211 ; owl:annotatedTarget "A self replicating circular nucleic acid molecule that is distinct from a chromosome in the organism."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000196 ; owl:annotatedTarget "The sequence of the five_prime_coding_exon that codes for protein."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21719542"^^xsd:string, "SBOL:jb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002212 ; owl:annotatedTarget "A self replicating linear nucleic acid molecule that is distinct from a chromosome in the organism. They are capped by terminal proteins covalently bound to the 5' ends of the DNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:28367989"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002213 ; owl:annotatedTarget "Termination signal preferentially observed downstream of polyadenylation signal"^^xsd:string . [] oboInOwl:hasDbXref "PMID:29735745"^^xsd:string, "PomBase:vw"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002215 ; owl:annotatedTarget "A DNA motif to which the S. pombe Zas1 protein binds. The consensus sequence is 5'-(Y)CCCCAY-3'."^^xsd:string . [] oboInOwl:hasDbXref "PMID:28811350"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002216 ; owl:annotatedTarget "A promoter element with consensus sequence [5'-TCG(G/C)(A/T)xxTTxAA], bound by the transcription factor Pho7."^^xsd:string . [] oboInOwl:hasDbXref "ZFIN:st"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002217 ; owl:annotatedTarget "A sequence alteration which includes an insertion or a deletion. This describes a sequence length change when the direction of the change is unspecified or when such changes are pooled into one category."^^xsd:string . [] oboInOwl:hasDbXref "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002222 ; owl:annotatedTarget "A regulatory_region essential for the specific initiation of transcription at a defined location in a DNA molecule, although this location might not be one single base. It is recognized by a specific RNA polymerase(RNAP)-holoenzyme, and this recognition is not necessarily autonomous."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20843779"^^xsd:string, "PMID:24933158"^^xsd:string, "PMID:27034378"^^xsd:string, "PMID:28422998"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002223 ; owl:annotatedTarget "Sequences that decrease interactions between biological regions, such as between a promoter, its 5' context and/or the translational unit(s) it regulates. Spacers can affect regulation of translation, transcription, and other biological processes."^^xsd:string . [] a owl:Axiom ; rdfs:label "https://www.biorxiv.org/content/10.1101/584664v1"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002223 ; owl:annotatedTarget "BioRXiv:https://doi.org/10.1101/584664"^^xsd:string . [] oboInOwl:hasDbXref "PMID:22301656"^^xsd:string, "PMID:28526819"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002224 ; owl:annotatedTarget "A region that codes for a 2A self-cleaving polypeptide region, which is a region that can result in a break in the peptide sequence at its terminal G-P junction."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20463000"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002226 ; owl:annotatedTarget "A group II intron that recognizes IBS1/EBS1 for the 5-prime exon and IBS3/EBS3 for the 3-prime exon and may also recognize a stem-loop in the RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:14732127"^^xsd:string, "PMID:15864293"^^xsd:string, "PMID:27984720"^^xsd:string, "PMID:31216041"^^xsd:string, "PMID:32020195"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002227 ; owl:annotatedTarget "A sequence variant extending the CDS, that causes elongation of the resulting polypeptide sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:14732127"^^xsd:string, "PMID:15864293"^^xsd:string, "PMID:27984720"^^xsd:string, "PMID:31216041"^^xsd:string, "PMID:32020195"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002228 ; owl:annotatedTarget "A sequence variant extending the CDS at the 5' end, that causes elongation of the resulting polypeptide sequence at the N terminus."^^xsd:string . [] oboInOwl:hasDbXref "PMID:14732127"^^xsd:string, "PMID:15864293"^^xsd:string, "PMID:27984720"^^xsd:string, "PMID:31216041"^^xsd:string, "PMID:32020195"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002229 ; owl:annotatedTarget "A sequence variant extending the CDS at the 3' end, that causes elongation of the resulting polypeptide sequence at the C terminus."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22582262"^^xsd:string, "PMID:31811152"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002233 ; owl:annotatedTarget "A chromosomal locus where complementary lncRNA and associated proteins accumulate at the corresponding lncRNA gene loci to tether homologous chromosome during chromosome pairing at meiosis I."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000197 ; owl:annotatedTarget "The sequence of the three_prime_coding_exon that codes for protein."^^xsd:string . [] oboInOwl:hasDbXref "PMID:30601114"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002234 ; owl:annotatedTarget "A cis-acting element involved in RNA stability found in the 3' UTR of some RNA (consensus UGUAAAUA)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15388847,PMID:16524884"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002235 ; owl:annotatedTarget "A polypeptide region that mediates binding to SUMO. The motif contains a hydrophobic core sequence consisting of three or four Ile, Leu, or Val residues plus one acidic or polar residue at position 2 or 3."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000198 ; owl:annotatedTarget "An exon that does not contain any codons."^^xsd:string . [] oboInOwl:hasDbXref "PMID:30069443"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002247 ; owl:annotatedTarget "A non-coding RNA less than 200 nucleotides in length."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21771858"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002248 ; owl:annotatedTarget "A region of DNA that is predicted to be translated and transcribed into a protein by a protein detection algorithm that does not get transcribed in nature."^^xsd:string . [] oboInOwl:hasDbXref "PMID:6439888"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002257 ; owl:annotatedTarget "Cytologically observable heterochromatic regions of chromosomes away from centromeres that contain predominatly large tandem repeats and retrotransposons."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23314747"^^xsd:string, "PMID:27901072"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002258 ; owl:annotatedTarget "A binding motif with the consensus sequence TTAGGG to which Teb1 binds."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17202160"^^xsd:string, "PMID:24072873"^^xsd:string, "PMID:25906188"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002259 ; owl:annotatedTarget "A region defined by a cluster of experimentally determined polyadenylation sites, typically less than 25 bp in length and associated with a single polyadenylation signal."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15082561"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002260 ; owl:annotatedTarget "Large Retrotransposon Derivative elements are long-terminal repeats that contain reverse transcriptase priming sites and are conserved in sequence but contain no open reading frames encoding typical retrotransposon proteins . The LARDs identified in barley and other Triticeae have LTRs ~5.5 kb and an interal domain of ~3.5 kb. LARDs lack coding domains and thus do not encode proteins."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11717436"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002261 ; owl:annotatedTarget "TRIM elements have terminal direct repeat sequences of 100-250 bp in length that flank an internal domain of 100–300 bp. TRIMs lack coding domains and thus do not encode proteins."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000199 ; owl:annotatedTarget "A region of nucleotide sequence that has translocated to a new position. The observed adjacency of two previously separated regions."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21303550"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002262 ; owl:annotatedTarget "An absolute reference to the strand. When a chromosome has p and q arms, the Watson strand is the strand whose 5'-end is on the short arm of the chromosome. Of note, the term 'plus strand' is typically based on a reference sequence where it's preferred for the plus strand to be the Watson strand, but might not be and 'plus strand' is therefore not an exact synonym."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21303550"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002263 ; owl:annotatedTarget "An absolute reference to the strand. When a chromosome has p and q arms, the Crick strand is the strand whose 5'-end is on the long arm of the chromosome. Of note, the term 'minus strand' is typically based on a reference sequence where it's preferred for the minus strand to be the Crick strand, but might not be and 'minus strand' is therefore not an exact synonym."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002264 ; owl:annotatedTarget "LTR retrotransposons in the Copia superfamily contain elements coding for specific proteins in this order: GAG, AP, INT, RT, RH. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002265 ; owl:annotatedTarget "LTR retrotransposons in the Gypsy superfamily contain elements coding for specific proteins in this order: GAG, AP, RT, RH, INT. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002266 ; owl:annotatedTarget "LTR retrotransposons in the Bel-Pao superfamily are similar to LTRs in the Gypsy and Retrovirus superfamilies. Mainly described in metazoan genomes, this superfamily contain elements coding for specific proteins in this order: GAG, AP, RT, RH and INT. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002267 ; owl:annotatedTarget "LTR retrotransposons in the retrovirus superfamily are similar to LTR retrotransposons in the Gypsy and Bel-Pao superfamilies. Mainly described in vertebrate animals, this superfamily contain elements coding for specific proteins in this order: GAG, AP, RT, RH, INT, and ENV. GAG is a structural protein for virus-like particles. AP is aspartic proteinase. INT is a DDE integrase. RT is a reverse transcriptase. RH is RNAse H. ENV is envelop protein."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002268 ; owl:annotatedTarget "Endogenous retrovirus (ERV) retrotransposons are abundant in the genomes of jawed vertebrates. Human ERVs (HERVs) are classified based on their homologies to animal retroviruses. Class I families are similar in sequence to mammalian Gammaretroviruses (type C) and Epsilonretroviruses (Type E). Class II families show homology to mammalian Betaretroviruses (Type B) and Deltaretroviruses (Type D). F-Class III families are similar to foamy viruses."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21734471"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002269 ; owl:annotatedTarget "R2 retrotransposons are LINE elements (SO:0000194) that insert site-specifically into the host organism's 28S ribosomal RNA (rRNA) genes."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9729877"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002270 ; owl:annotatedTarget "RTE retrotransposons are LINE elements (SO:0000194) that contain a domain with homology to the apurinic-apyrimidic (AP) endonucleases in addition to the previously identified reverse transcriptase domain."^^xsd:string . [] oboInOwl:hasDbXref "PMID:31709017"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002271 ; owl:annotatedTarget "Jockey retrotransposons are LINE elements (SO:0000194) found only in arthropods. The full-length element is ~ 5 kb and contains two open reading frames (SO:0000236), ORF1 (568 aa) and ORF2 (916 aa), the second of which encodes an apurinic endonuclease (APE) and a reverse transcriptase (RT)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ls"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000007 ; owl:annotatedTarget "One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0000199 ; owl:annotatedTarget "transchr"^^xsd:string . [] oboInOwl:hasDbXref "PMID:31709017"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002272 ; owl:annotatedTarget "Long interspersed element-1 (LINE-1) elements are found in the human genome, which contains ORF1 (open reading frame1, including CC, coiled coil; RRM, RNA recognition motif; CTD, carboxyl-terminal domain) and ORF2 (including EN, endonuclease; RT, reverse transcriptase; C, cysteine-rich domain). The L1-encoded proteins (ORF1p and ORF2p) can mobilize nonautonomous retrotransposons, other noncoding RNAs, and messenger RNAs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21673742"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002274 ; owl:annotatedTarget "Short interspersed elements that originated from tRNAs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21673742"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002275 ; owl:annotatedTarget "Short interspersed elements that originated from 7SL RNAs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:21673742"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002276 ; owl:annotatedTarget "Short interspersed elements that originated from 5S rRNAs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:22011512"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002277 ; owl:annotatedTarget "Crypton is a superfamily of DNA transposons that use tyrosine recombinase (YR) to cut and rejoin the recombining DNA molecules."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string, "PMID:8556864"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002278 ; owl:annotatedTarget "Elements of the Tc1-Mariner terminal inverted repeat transposon superfamily (also called mariner transposons) are named after the Transponon of C. elegans number 1 transposasse. Their activity creates a 2-bp (TA) target-site duplication (TSD). Stowaway is the non-autonomous element in this superfamily usually shorter than 600 bp."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11454746"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002279 ; owl:annotatedTarget "The hAT terminal inverted repeat transposon superfamily elements were first found in maize (the Ac/Ds elements). Members of the hAT superfamily have TSDs of 8 bp, relatively short TIRs of 5–27 bp and overall lengths of less than 4 kb."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002280 ; owl:annotatedTarget "Members of the Mutator family of terminal inverted repeat (TIR) transposon are usually long but are also highly divergent, either sharing only terminal G…C nucleotides, or with the G…C nucleotides absent. The length of the TSD (7-11 bp, usually 9 bp) remains probably the most useful criterion for identification."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002281 ; owl:annotatedTarget "Terminal inverted repeat transposon superfamily Merlin elements create 8-9 bp target-site duplications (TSD)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002282 ; owl:annotatedTarget "Terminal inverted repeat (TIR) transposons of the superfamily Transib contain the DDE motif, which is related to the RAG1 protein involved in V(D)J recombination."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000200 ; owl:annotatedTarget "The 5' most coding exon."^^xsd:string . [] oboInOwl:hasDbXref "PMID:17984973"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002283 ; owl:annotatedTarget "Primarily found in animals, the terminal inverted repeat (TIR) transposon superfamily piggyBac elements favour insertion adjacent to TTAA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:26709091"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002284 ; owl:annotatedTarget "Terminal inverted repeat transposons in the PIF/Harbinger/tourist superfamily create 3-bp target site duplication that are mainly 'TAA' or 'TTA'. The autonomous PIF-Harbinger elements are relatively small in size, usually a few kb in length. Non-autonomous elements in this superfamily usually shorter than 600 bp are referrred to as Tourist elements. The terminal sequences for PIF/Harbinger/Tourist elements are 'GGG/CCC…GGC/GCC' or 'GA/GGCA…TGCC/TC'."^^xsd:string . [] oboInOwl:hasDbXref "PMID:26709091"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002285 ; owl:annotatedTarget "This terminal inverted repeat of the CACTA family generate 3-bp target site duplication (TSD) upon insertion. CACTA elements do not have a significant preference for genic region insertions. This terminal inverted repeat (TIR) transposon superfamily is named CACTA because their terminal sequences are 'CACTA/G…C/TAGTG'."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24086727"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002286 ; owl:annotatedTarget "Tyrosine Kinase (YR) retrotransposons are a subclass of non-LTR retrotransposons. These YR-encoding elements consist of central gag, pol and tyrosine recombinase (YR) open reading frames (ORFs) flanked with terminal repeat. The pol ORF includes a reverse transcriptase (RT), a RNase H (RH) and, in case of DIRS, a domain similar to bacterial and phage DNA N-6-adenine-methyltransferase (MT). Compared to the retroviral pol (LTR retrotransposons, non-LTR retrotransposons and Penelope elements), both aspartic protease and DDE integrase are absent from YR retrotransposons. YR retrotransposons have inverted terminal repeats (ITRs)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24086727"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002287 ; owl:annotatedTarget "Dictyostelium intermediate repeat sequence (DIRS) retrotransposons are members of the YR_retrotransposon (SO:0002286) superfamily with the following protein domains: RT, RH, YR, and MT. RT is a reverse transcriptase. RH is RNAse H. YR is tyrosine recombinase. MT is DNA N-6-adenine-methyltransferase."^^xsd:string . [] oboInOwl:hasDbXref "PMID:24086727"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002288 ; owl:annotatedTarget "Ngaro retrotransposons are members of the YR_retrotransposon (SO:0002286) superfamily with the following protein domains: RT, RH, YR. RT is a reverse transcriptase. RH is RNAse H. YR is Tyrosine recombinase. Inverted terminal repeats (ITRs) in Ngaro are arranged in A-pol-B-A-B order where A and B represent ITRs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16297462"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002289 ; owl:annotatedTarget "VIPER retrotransposons are members of the YR_retrotransposon (SO:0002286 superfamily with protein domains: RT, RH, YR. RT is a reverse transcriptase. RH is RNAse H. YR is Tyrosine recombinase. Inverted terminal repeats (ITRs) in VIPER are arranged in A-pol-B-A-B order where A and B represent ITRs. VIPER is only found in kinetoplastida genomes."^^xsd:string . [] oboInOwl:hasDbXref "PMID:23914310"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002290 ; owl:annotatedTarget "Penelope is a subclass of non_LTR_retrotransposons (SO:0000189). Penelope retrotransposons contains structural features of TR, RT, EN, TR, terminal repeats which can be in tandem or inverse orientation in different Penelope copies. RT is reverse transcriptase. EN is endonuclease."^^xsd:string . [] oboInOwl:hasDbXref "PMID:29086764"^^xsd:string, "PMID:29182528"^^xsd:string, "PMID:29230098"^^xsd:string, "PMID:29576969"^^xsd:string, "PMID:29626935"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002291 ; owl:annotatedTarget "A non-coding RNA that is generated by backsplicing of exons or introns, resulting in a covalently closed loop without a 5’ cap or 3’ polyA tail."^^xsd:string . [] oboInOwl:hasDbXref "PMID:29086764"^^xsd:string, "PMID:29182528"^^xsd:string, "PMID:29576969"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002292 ; owl:annotatedTarget "An mRNA that is generated by backsplicing of exons or introns, resulting in a covalently closed loop without a 5’ cap or 3’ polyA tail."^^xsd:string . [] oboInOwl:hasDbXref "PMID:10373547"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000201 ; owl:annotatedTarget "An exon that is bounded by 5' and 3' splice sites."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 19407924"^^xsd:string, "PMID:10968878"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002293 ; owl:annotatedTarget "The non-coding region of the mitochondrial genome that controls RNA and DNA synthesis."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002293 ; owl:annotatedTarget "https://en.wikipedia.org/wiki/MtDNA_control_region"^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002294 ; owl:annotatedTarget "Mitochondrial displacement loop; a region within mitochondrial DNA in which a short stretch of RNA is paired with one strand of DNA, displacing the original partner DNA strand in this region."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0002294 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/D_loop"^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002295 ; owl:annotatedTarget "A TF_binding_site that is involved in regulation of expression."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002296 ; owl:annotatedTarget "The possible discontinuous stretch of DNA that is the combination of one or several TFRSs whose bound TFs work jointly in the regulation of a promoter. "^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002297 ; owl:annotatedTarget "The possible discontinous stretch of DNA that encompass all the TFRSs that regulate a promoter."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000202 ; owl:annotatedTarget "The coding exon that is most 3-prime on a given transcript."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002298 ; owl:annotatedTarget "An operon whose transcription is coordinated on a single transcription unit."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002299 ; owl:annotatedTarget "An operon whose transcription is coordinated on several mutually overlapping transcription units transcribed in the same direction and sharing at least one gene."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002300 ; owl:annotatedTarget "Transcription units or transcribed coding sequences."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002301 ; owl:annotatedTarget "DNA regions delimited by different nonspurious TSS-TTS pairs."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002302 ; owl:annotatedTarget "A regulon defined by considering one regulatory gene product."^^xsd:string . [] oboInOwl:hasDbXref "Bacterial_regulation_working_group:CMA"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002303 ; owl:annotatedTarget "A regulon defined by considering the units of expression regulated by a specified set of regulatory gene products."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string, "PMID:32782014"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002304 ; owl:annotatedTarget "An instance of a self-interacting DNA region flanked by left and right TAD boundaries."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string, "PMID:32782014"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002305 ; owl:annotatedTarget "A DNA region enriched in DNA loop anchors and across which DNA loops occur less often than expected by chance."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string, "PMID:32782014"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002306 ; owl:annotatedTarget "A region of a chromosome where regulatory events occur, including epigenetic modifications. These epigenetic modifications can include nucleosome modifications and post-replicational DNA modifications."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000203 ; owl:annotatedTarget "Messenger RNA sequences that are untranslated and lie five prime or three prime to sequences which are translated."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string, "PMID:32782014"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002307 ; owl:annotatedTarget "A region of DNA between two loop anchor positions that are held in close physical proximity."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string, "PMID:32782014"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002308 ; owl:annotatedTarget "The ends of a DNA loop where the two strands of DNA are held in close physical proximity. During interphase the anchors of DNA loops are convergently oriented CTCF binding sites."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:rl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002309 ; owl:annotatedTarget "An element that always exists within the promoter region of a gene. When multiple transcripts exist for a gene, the separate transcripts may have separate core_promoter_elements."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002310 ; owl:annotatedTarget "The promoter of a cryptic gene."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:cl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002311 ; owl:annotatedTarget "A regulatory_region including the Transcription Start Site (TSS) of a gene found in genes of viruses."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000204 ; owl:annotatedTarget "A region at the 5' end of a mature transcript (preceding the initiation codon) that is not translated into a protein."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:rl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002312 ; owl:annotatedTarget "An element that always exists within the promoter region of a prokaryotic gene."^^xsd:string . [] oboInOwl:hasDbXref "GREEKC:rl"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002313 ; owl:annotatedTarget "An element that always exists within the promoter region of a viral gene."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002314 ; owl:annotatedTarget "A sequence variant that alters the level of transcription of a gene."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002315 ; owl:annotatedTarget "A sequence variant that increases the level of transcription of a gene."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002316 ; owl:annotatedTarget "A sequence variant that decreases the level of transcription of a gene."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002317 ; owl:annotatedTarget "A sequence variant that entirely stops the transcription of a gene."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002318 ; owl:annotatedTarget "A sequence variant that alters the structure of a gene product."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002319 ; owl:annotatedTarget "A sequence variant that leads to a change in the location of a termination codon in a transcript that leads to nonsense-mediated decay (NMD). The change in location of a termination codon can be caused by several different types of sequence variants, including stop_gained (SO:0001587), frameshift_variant (SO:0001589), splice_donor_variant (SO:0001575), and splice_acceptor_variant (SO:0001574) types of variants."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002320 ; owl:annotatedTarget "A sequence variant that leads to a change in the location of a termination codon in a transcript but allows the transcript to escape nonsense-mediated decay (NMD). The change in location of a termination codon can be caused by several different types of sequence variants, including stop_gained (SO:0001587), frameshift_variant (SO:0001589), splice_donor_variant (SO:0001575), and splice_acceptor_variant (SO:0001574) types of variants."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000204 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/5'_UTR"^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002321 ; owl:annotatedTarget "A stop_gained (SO:0001587) variant that is degraded by nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002322 ; owl:annotatedTarget "A stop_gained (SO:0001587) variant that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002323 ; owl:annotatedTarget "A frameshift_variant (SO:0001589) that is degraded by nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002324 ; owl:annotatedTarget "A frameshift_variant (SO:0001589) that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002325 ; owl:annotatedTarget "A splice_donor_variant (SO:0001575) that is degraded by nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002326 ; owl:annotatedTarget "A splice_donor_variant (SO:0001575) that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002327 ; owl:annotatedTarget "A splice_acceptor_variant (SO:0001574) that is degraded by nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "GenCC:AR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002328 ; owl:annotatedTarget "A splice_acceptor_variant (SO:0001574) that allows the transcript to escape nonsense-mediated decay (NMD)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ds"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002329 ; owl:annotatedTarget "The region of mRNA 1 base long that is included as part of two separate codons during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string . [] oboInOwl:hasDbXref "SO:ds"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002330 ; owl:annotatedTarget "The region of mRNA 2 bases long that is included as part of two separate codons during the process of translational frameshifting (GO:0006452), causing the reading frame to be different."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000205 ; owl:annotatedTarget "A region at the 3' end of a mature transcript (following the stop codon) that is not translated into a protein."^^xsd:string . [] oboInOwl:hasDbXref "PMID:25903461"^^xsd:string, "SO:ds"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002331 ; owl:annotatedTarget "A region of DNA that is depleted of nucleosomes and accessible to DNA-binding proteins including transcription factors and nucleases."^^xsd:string . [] oboInOwl:hasDbXref "SO:ds"^^xsd:string, "http://en.wikipedia.org/wiki/Epigenetics"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002332 ; owl:annotatedTarget "A biological region implicated in inherited changes caused by mechanisms other than changes in the underlying DNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "https://en.wikipedia.org/wiki/Stop_codon"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002333 ; owl:annotatedTarget "A stop codon with the DNA sequence TAG."^^xsd:string . [] oboInOwl:hasDbXref "https://en.wikipedia.org/wiki/Stop_codon"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002334 ; owl:annotatedTarget "A stop codon with the DNA sequence TAA."^^xsd:string . [] oboInOwl:hasDbXref "https://en.wikipedia.org/wiki/Stop_codon"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002335 ; owl:annotatedTarget "A stop codon with the DNA sequence TGA."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 118436"^^xsd:string, "PMID: 29474379"^^xsd:string, "PMID: 3136294"^^xsd:string, "PMID:10788608"^^xsd:string, "PMID:407103"^^xsd:string, "PMID:4847940"^^xsd:string, "PMID:768488"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002336 ; owl:annotatedTarget "A gene that encodes for 2S ribosomal RNA, which functions as a component of the large subunit of the ribosome in Drosophila and at least some other Diptera."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 118436"^^xsd:string, "PMID: 29474379"^^xsd:string, "PMID: 3136294"^^xsd:string, "PMID:10788608"^^xsd:string, "PMID:407103"^^xsd:string, "PMID:4847940"^^xsd:string, "PMID:768488"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002337 ; owl:annotatedTarget "Cytosolic 2S rRNA is a 30 nucleotide RNA component of the large subunit of cytosolic ribosomes in Drosophila and at least some other Diptera. It is homologous to the 3' part of other 5.8S rRNA molecules. The 3' end of the 5.8S molecule is able to base-pair with the 5' end of the 2S rRNA to generate a helical region equivalent in position to the 'GC-rich hairpin' found in all previously sequenced 5.8S molecules."^^xsd:string . [] oboInOwl:hasDbXref "PMID:15526162"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002338 ; owl:annotatedTarget "A 57 to 71 nucleotide RNA that is a component of the U7 small nuclear ribonucleoprotein complex (U7 snRNP). The U7 snRNP is required for histone pre-mRNA processing."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000205 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Three_prime_untranslated_region"^^xsd:string . [] oboInOwl:hasDbXref "PMID:27775477"^^xsd:string, "PMID:28869095"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002339 ; owl:annotatedTarget "A gene that encodes for a scaRNA (small Cajal body-specific RNA)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19246988"^^xsd:string, "PMID:21853533"^^xsd:string, "PMID:27369380"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002340 ; owl:annotatedTarget "An abundant small nuclear RNA that, together with associated cellular proteins, regulates the activity of the positive transcription elongation factor b (P-TEFb). It is often described in literature as similar to a snRNA, except of longer length."^^xsd:string . [] oboInOwl:hasDbXref "PMID:19246988"^^xsd:string, "PMID:21853533"^^xsd:string, "PMID:27369380"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002341 ; owl:annotatedTarget "A gene encoding a 7SK RNA (SO:0002340)."^^xsd:string . [] oboInOwl:hasDbXref "PMID:28449079"^^xsd:string, "PMID:30069443"^^xsd:string, "PMID:30937442"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002342 ; owl:annotatedTarget "A ncRNA_gene (SO:0001263) that is less than 200 nucleotides in length."^^xsd:string . [] oboInOwl:hasDbXref "PMID:3044395"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002343 ; owl:annotatedTarget "Cytosolic rRNA is an RNA component of the small or large subunits of cytosolic ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 24572720"^^xsd:string, "PMID:3044395"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002344 ; owl:annotatedTarget "Mitochondrial SSU rRNA is an RNA component of the small subunit of mitochondrial ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 24572720"^^xsd:string, "PMID:3044395"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002345 ; owl:annotatedTarget "Mitochondrial LSU rRNA is an RNA component of the large subunit of mitochondrial ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 24572720"^^xsd:string, "PMID:3044395"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002346 ; owl:annotatedTarget "Plastid rRNA is an RNA component of the small or large subunits of plastid (such as chloroplast) ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 24572720"^^xsd:string, "PMID:3044395"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002347 ; owl:annotatedTarget "Plastid SSU rRNA is an RNA component of the small subunit of plastid (such as chloroplast) ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 24572720"^^xsd:string, "PMID:3044395"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002348 ; owl:annotatedTarget "Plastid LSU rRNA is an RNA component of the large subunit of plastid (such as chloroplast) ribosomes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000206 ; owl:annotatedTarget "A repetitive element, a few hundred base pairs long, that is dispersed throughout the genome. A common human SINE is the Alu element."^^xsd:string . [] oboInOwl:hasDbXref "PMID: 16236432"^^xsd:string, "PMID: 17608616"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002350 ; owl:annotatedTarget "A fragile site considered part of the normal chromosomal structure."^^xsd:string . [] oboInOwl:hasDbXref "PMID:16236432"^^xsd:string, "PMID:17608616"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002351 ; owl:annotatedTarget "A fragile site found in the chromosomes of less than five percent of the human population."^^xsd:string . [] oboInOwl:hasDbXref "PMID:27147469"^^xsd:string, "PMID:29397203"^^xsd:string, "PMID:30391089"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002352 ; owl:annotatedTarget "An intronic sequence derived from the coding strand of a cognate host gene, that is not rapidly degraded. It may contain exonic sequences, 5′ caps, and_or polyA tails."^^xsd:string . [] oboInOwl:hasDbXref "PMID:25908866"^^xsd:string, "PMID:30666901"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002353 ; owl:annotatedTarget "A gene encoding a stem-bulge RNA."^^xsd:string . [] oboInOwl:hasDbXref "PMID:25908866"^^xsd:string, "PMID:30666901"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0002354 ; owl:annotatedTarget "A small non-coding stem-loop RNA present in nematodes and insects, functionally and structurally related to vertebrate Y RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005836 ; owl:annotatedTarget "A region of sequence that is involved in the control of a biological process."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0005836 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Regulatory_region"^^xsd:string . [] oboInOwl:hasDbXref "PMID:2251119"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005837 ; owl:annotatedTarget "The primary transcript of an evolutionarily conserved eukaryotic low molecular weight RNA capable of intermolecular hybridization with both homologous and heterologous 18S rRNA."^^xsd:string . [] oboInOwl:hasDbXref "GOC:mah"^^xsd:string, "PMID:12457565"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005841 ; owl:annotatedTarget "A snoRNA that specifies the site of 2'-O-ribose methylation in an RNA molecule by base pairing with a short sequence around the target residue."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ebi.ac.uk/embl/WebFeat/align/scRNA_s.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000012 ; owl:annotatedTarget "The primary transcript of any one of several small cytoplasmic RNA molecules present in the cytoplasm and sometimes nucleus of a Eukaryote."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000206 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Short_interspersed_nuclear_element"^^xsd:string . [] oboInOwl:hasDbXref "GOC:kgc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005843 ; owl:annotatedTarget "An ncRNA that is part of a ribonucleoprotein that cleaves the primary pre-rRNA transcript in the process of producing mature rRNA molecules."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005845 ; owl:annotatedTarget "An exon that is the only exon in a gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005850 ; owl:annotatedTarget "Non-covalent primer binding site for initiation of replication, transcription, or reverse transcription."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0005850 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Primer_binding_site"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005851 ; owl:annotatedTarget "An array includes two or more genes, or two or more gene subarrays, contiguously arranged where the individual genes, or subarrays, are either identical in sequence, or essentially so."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005852 ; owl:annotatedTarget "A subarray is, by defintition, a member of a gene array (SO:0005851); the members of a subarray may differ substantially in sequence, but are closely related in function."^^xsd:string . [] oboInOwl:hasDbXref "SGD:se"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005853 ; owl:annotatedTarget "A gene that can be substituted for a related gene at a different site in the genome."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0005853 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Gene_cassette"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000207 ; owl:annotatedTarget "SSLP are a kind of sequence alteration where the number of repeated sequences in intergenic regions may differ."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005854 ; owl:annotatedTarget "An array of non-functional genes whose members, when captured by recombination form functional genes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005855 ; owl:annotatedTarget "A collection of related genes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005856 ; owl:annotatedTarget "A primary transcript encoding seryl tRNA (SO:000269)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005857 ; owl:annotatedTarget "A tRNA sequence that has a selenocysteine anticodon, and a 3' selenocysteine binding region."^^xsd:string . [] a owl:Axiom ; rdfs:label "WIKI"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000207 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Simple_sequence_length_polymorphism"^^xsd:string . [] oboInOwl:hasDbXref "http://www.informatics.jax.org/silverbook/glossary.shtml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0005858 ; owl:annotatedTarget "A region in which two or more pairs of homologous markers occur on the same chromosome in two or more species."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100001 ; owl:annotatedTarget "A region of a peptide that is involved in a biochemical function."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100002 ; owl:annotatedTarget "A region that is involved a contact with another molecule."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100003 ; owl:annotatedTarget "A region of polypeptide chain with high conformational flexibility."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0100003 ; owl:annotatedTarget "disordered region"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100004 ; owl:annotatedTarget "A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100005 ; owl:annotatedTarget "A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100006 ; owl:annotatedTarget "A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100007 ; owl:annotatedTarget "A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2."^^xsd:string . [] oboInOwl:hasDbXref "http://www.genetics.org/cgi/reprint/156/4/1983.pdf"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000208 ; owl:annotatedTarget "A DNA transposable element defined as having termini with perfect, or nearly perfect short inverted repeats, generally 10 - 40 nucleotides long."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "http://www.ebi.ac.uk/msd-srv/msdmotif/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100008 ; owl:annotatedTarget "A motif of five consecutive residues and two H-bonds in which: H-bond between CO of residue(i) and NH of residue(i+4), H-bond between CO of residue(i) and NH of residue(i+3),Phi angles of residues(i+1), (i+2) and (i+3) are negative."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100009 ; owl:annotatedTarget "A peptide that acts as a signal for both membrane translocation and lipid attachment in prokaryotes."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100010 ; owl:annotatedTarget "An experimental region wherean analysis has been run and not produced any annotation."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0100010 ; owl:annotatedTarget "no output"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100011 ; owl:annotatedTarget "The cleaved_peptide_region is the region of a peptide sequence that is cleaved during maturation."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100012 ; owl:annotatedTarget "Irregular, unstructured regions of a protein's backbone, as distinct from the regular region (namely alpha helix and beta strand - characterised by specific patterns of main-chain hydrogen bonds)."^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0100012 ; owl:annotatedTarget "coil"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0100012 ; owl:annotatedTarget "random coil"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100013 ; owl:annotatedTarget "Hydrophobic regions are regions with a low affinity for water."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000209 ; owl:annotatedTarget "A primary transcript encoding a ribosomal RNA."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100014 ; owl:annotatedTarget "The amino-terminal positively-charged region of a signal peptide (approx 1-5 aa)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100015 ; owl:annotatedTarget "The more polar, carboxy-terminal region of the signal peptide (approx 3-7 aa)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100016 ; owl:annotatedTarget "The central, hydrophobic region of the signal peptide (approx 7-15 aa)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100017 ; owl:annotatedTarget "A conserved motif is a short (up to 20 amino acids) region of biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100018 ; owl:annotatedTarget "A polypeptide binding motif is a short (up to 20 amino acids) polypeptide region of biological interest that contains one or more amino acids experimentally shown to bind to a ligand."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0100018 ; owl:annotatedTarget "binding"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100019 ; owl:annotatedTarget "A polypeptide catalytic motif is a short (up to 20 amino acids) polypeptide region that contains one or more active site residues."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000210 ; owl:annotatedTarget "A primary transcript encoding a transfer RNA (SO:0000253)."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100020 ; owl:annotatedTarget "A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with DNA."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0100020 ; owl:annotatedTarget "DNA_bind"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0100021 ; owl:annotatedTarget "A subsection of sequence with biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000002 ; owl:annotatedTarget "A sequence alteration where the length of the change in the variant is the same as that of the reference."^^xsd:string . [] a owl:Axiom ; rdfs:label "Substitution"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000002 ; owl:annotatedTarget "loinc:LA6690-7"^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000005 ; owl:annotatedTarget "When no simple or well defined DNA mutation event describes the observed DNA change, the keyword \"complex\" should be used. Usually there are multiple equally plausible explanations for the change."^^xsd:string . [] oboInOwl:hasDbXref "SO:immuno_workshop"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000008 ; owl:annotatedTarget "A single nucleotide change which has occurred at the same position of a corresponding nucleotide in a reference sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000008 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Point_mutation"^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000009 ; owl:annotatedTarget "Change of a pyrimidine nucleotide, C or T, into an other pyrimidine nucleotide, or change of a purine nucleotide, A or G, into an other purine nucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000010 ; owl:annotatedTarget "A substitution of a pyrimidine, C or T, for another pyrimidine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000211 ; owl:annotatedTarget "A primary transcript encoding alanyl tRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000011 ; owl:annotatedTarget "A transition of a cytidine to a thymine."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000012 ; owl:annotatedTarget "The transition of cytidine to thymine occurring at a pCpG site as a consequence of the spontaneous deamination of 5'-methylcytidine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000014 ; owl:annotatedTarget "A substitution of a purine, A or G, for another purine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000015 ; owl:annotatedTarget "A transition of an adenine to a guanine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000016 ; owl:annotatedTarget "A transition of a guanine to an adenine."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000017 ; owl:annotatedTarget "Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G, or vice versa."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000017 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Transversion"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000018 ; owl:annotatedTarget "Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000019 ; owl:annotatedTarget "A transversion from cytidine to adenine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000021 ; owl:annotatedTarget "A transversion from T to A."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000212 ; owl:annotatedTarget "A primary transcript encoding arginyl tRNA (SO:0000255)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000022 ; owl:annotatedTarget "A transversion from T to G."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000023 ; owl:annotatedTarget "Change of a purine nucleotide, A or G , into a pyrimidine nucleotide C or T."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000024 ; owl:annotatedTarget "A transversion from adenine to cytidine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000025 ; owl:annotatedTarget "A transversion from adenine to thymine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000026 ; owl:annotatedTarget "A transversion from guanine to cytidine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000027 ; owl:annotatedTarget "A transversion from guanine to thymine."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000213 ; owl:annotatedTarget "A primary transcript encoding asparaginyl tRNA (SO:0000256)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000028 ; owl:annotatedTarget "A chromosomal structure variation within a single chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000029 ; owl:annotatedTarget "An incomplete chromosome."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000029 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Chromosomal_deletion"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000214 ; owl:annotatedTarget "A primary transcript encoding aspartyl tRNA (SO:0000257)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000030 ; owl:annotatedTarget "An interchromosomal mutation where a region of the chromosome is inverted with respect to wild type."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000030 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Chromosomal_inversion"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000215 ; owl:annotatedTarget "A primary transcript encoding cysteinyl tRNA (SO:0000258)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000031 ; owl:annotatedTarget "A chromosomal structure variation whereby more than one chromosome is involved."^^xsd:string . [] oboInOwl:hasDbXref "http://varnomen.hgvs.org/recommendations/DNA/variant/delins/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000032 ; owl:annotatedTarget "A sequence alteration which included an insertion and a deletion, affecting 2 or more bases."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000032 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Indel"^^xsd:string . [] a owl:Axiom ; rdfs:label "Insertion and Deletion"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000032 ; owl:annotatedTarget "loinc:LA9659-9"^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string, "NCBI:th"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000035 ; owl:annotatedTarget "An insertion which derives from, or is identical in sequence to, nucleotides present at a known location in the genome."^^xsd:string . [] a owl:Axiom ; rdfs:label "Duplication"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000035 ; owl:annotatedTarget "loinc:LA6686-5"^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000036 ; owl:annotatedTarget "A continuous nucleotide sequence is inverted in the same position."^^xsd:string . [] a owl:Axiom ; rdfs:label "Inversion"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000036 ; owl:annotatedTarget "loinc:LA6689-9"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_1000036 ; owl:annotatedTarget "inversion"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000216 ; owl:annotatedTarget "A primary transcript encoding glutaminyl tRNA (SO:0000260)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000037 ; owl:annotatedTarget "An extra chromosome."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000037 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Chromosomal_duplication"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000038 ; owl:annotatedTarget "A duplication that occurred within a chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000039 ; owl:annotatedTarget "A tandem duplication where the individual regions are in the same orientation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000040 ; owl:annotatedTarget "A tandem duplication where the individual regions are not in the same orientation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000217 ; owl:annotatedTarget "A primary transcript encoding glutamyl tRNA (SO:0000260)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000041 ; owl:annotatedTarget "A chromosome structure variation whereby a transposition occurred within a chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000042 ; owl:annotatedTarget "A chromosome structure variant where a monocentric element is caused by the fusion of two chromosome arms."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000218 ; owl:annotatedTarget "A primary transcript encoding glycyl tRNA (SO:0000263)."^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Robertsonian_translocation"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000043 ; owl:annotatedTarget "A non reciprocal translocation whereby the participating chromosomes break at their centromeres and the long arms fuse to form a single chromosome with a single centromere."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000043 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Robertsonian_fusion"^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000044 ; owl:annotatedTarget "A chromosomal mutation. Rearrangements that alter the pairing of telomeres are classified as translocations."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000044 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Chromosomal_translocation"^^xsd:string . [] oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Ring_chromosome"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000045 ; owl:annotatedTarget "A ring chromosome is a chromosome whose arms have fused together to form a ring, often with the loss of the ends of the chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000219 ; owl:annotatedTarget "A primary transcript encoding histidyl tRNA (SO:0000262)."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000045 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Ring_chromosome"^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000046 ; owl:annotatedTarget "A chromosomal inversion that includes the centromere."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000220 ; owl:annotatedTarget "A primary transcript encoding isoleucyl tRNA (SO:0000263)."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000047 ; owl:annotatedTarget "A chromosomal inversion that does not include the centromere."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000048 ; owl:annotatedTarget "A chromosomal translocation with two breaks; two chromosome segments have simply been exchanged."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000049 ; owl:annotatedTarget "Any change in mature, spliced and processed, RNA that results from a change in the corresponding DNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000050 ; owl:annotatedTarget "No effect on the state of the RNA."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000054 ; owl:annotatedTarget "Any of the amino acid coding triplets of a gene are affected by the DNA mutation."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000055 ; owl:annotatedTarget "The DNA mutation changes, usually destroys, the first coding triplet of a gene. Usually prevents translation although another initiator codon may be used."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000056 ; owl:annotatedTarget "The DNA mutation affects the amino acid coding sequence of a gene; this region includes both the initiator and terminator codons."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000057 ; owl:annotatedTarget "The changed codon has the same translation product as the original codon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000221 ; owl:annotatedTarget "A primary transcript encoding leucyl tRNA (SO:0000264)."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000058 ; owl:annotatedTarget "A DNA point mutation that causes a substitution of an amino acid by an other."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000059 ; owl:annotatedTarget "The nucleotide change in the codon leads to a new codon coding for a new amino acid."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000060 ; owl:annotatedTarget "The amino acid change following from the codon change does not change the gross properties (size, charge, hydrophobicity) of the amino acid at that position."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000061 ; owl:annotatedTarget "The amino acid change following from the codon change changes the gross properties (size, charge, hydrophobicity) of the amino acid in that position."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000062 ; owl:annotatedTarget "The nucleotide change in the codon triplet creates a terminator codon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000063 ; owl:annotatedTarget "The nucleotide change in the codon triplet changes the stop codon, causing an elongated transcript sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000064 ; owl:annotatedTarget "An umbrella term for terms describing an effect of a sequence variation on the frame of translation."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000065 ; owl:annotatedTarget "A mutation causing a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1000065 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Frameshift_mutation"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000066 ; owl:annotatedTarget "A mutation causing a disruption of the translational reading frame, due to the insertion of a nucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000222 ; owl:annotatedTarget "A primary transcript encoding lysyl tRNA (SO:0000265)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000067 ; owl:annotatedTarget "A mutation causing a disruption of the translational reading frame, due to the deletion of a nucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000068 ; owl:annotatedTarget "A mutation causing a disruption of the translational reading frame, due to the insertion of two nucleotides."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000069 ; owl:annotatedTarget "A mutation causing a disruption of the translational reading frame, due to the deletion of two nucleotides."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000070 ; owl:annotatedTarget "Sequence variant affects the way in which the primary transcriptional product is processed to form the mature transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000071 ; owl:annotatedTarget "A sequence_variant_effect where the way in which the primary transcriptional product is processed to form the mature transcript, specifically by the removal (splicing) of intron sequences is changed."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000072 ; owl:annotatedTarget "A sequence_variant_effect that changes the splice donor sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000073 ; owl:annotatedTarget "A sequence_variant_effect that changes the splice acceptor sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000074 ; owl:annotatedTarget "A sequence variant causing a new (functional) splice site."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000075 ; owl:annotatedTarget "Sequence variant affects the editing of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000076 ; owl:annotatedTarget "Mutation affects the process of transcription, its initiation, progression or termination."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000223 ; owl:annotatedTarget "A primary transcript encoding methionyl tRNA (SO:0000266)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000078 ; owl:annotatedTarget "A sequence variation that decreases the rate a which transcription of the sequence occurs."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000081 ; owl:annotatedTarget "A mutation that alters the rate a which transcription of the sequence occurs."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000082 ; owl:annotatedTarget "Sequence variant affects the stability of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000083 ; owl:annotatedTarget "Sequence variant increases the stability (half-life) of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000084 ; owl:annotatedTarget "Sequence variant decreases the stability (half-life) of the transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000085 ; owl:annotatedTarget "A sequence variation that causes a change in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000086 ; owl:annotatedTarget "A sequence variation that causes a decrease in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000087 ; owl:annotatedTarget "A sequence_variation that causes an increase in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000088 ; owl:annotatedTarget "A sequence variant causing a change in primary translation product of a transcript."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000089 ; owl:annotatedTarget "The sequence variant at RNA level does not lead to any change in polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000224 ; owl:annotatedTarget "A primary transcript encoding phenylalanyl tRNA (SO:0000267)."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000092 ; owl:annotatedTarget "Any sequence variant effect that is known at nucleotide level but cannot be explained by using other key terms."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000093 ; owl:annotatedTarget "The replacement of a single amino acid by another."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000096 ; owl:annotatedTarget "The insertion of one or more amino acids from the polypeptide, without affecting the surrounding sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000097 ; owl:annotatedTarget "The deletion of one or more amino acids from the polypeptide, without affecting the surrounding sequence."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000098 ; owl:annotatedTarget "The translational product is truncated at its C-terminus, usually a result of a nonsense codon change in transcript (SO:1000062)."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000099 ; owl:annotatedTarget "The extension of the translational product at either (or both) the N-terminus and/or the C-terminus."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000100 ; owl:annotatedTarget "."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000101 ; owl:annotatedTarget "."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000110 ; owl:annotatedTarget "A mutation that reverts the sequence of a previous frameshift mutation back to the initial frame."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000111 ; owl:annotatedTarget "A mutation that changes the amino acid sequence of the peptide in such a way that it changes the 3D structure of the molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000013 ; owl:annotatedTarget "A small non coding RNA sequence, present in the cytoplasm."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000225 ; owl:annotatedTarget "A primary transcript encoding prolyl tRNA (SO:0000268)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000126 ; owl:annotatedTarget "A sequence variant that affects the secondary structure (folding) of the RNA transcript molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000132 ; owl:annotatedTarget "The effect of a change in nucleotide sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:6804304"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000136 ; owl:annotatedTarget "An autosynaptic chromosome is the aneuploid product of recombination between a pericentric inversion and a cytologically wild-type chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000138 ; owl:annotatedTarget "A compound chromosome whereby two copies of the same chromosomal arm attached to a common centromere. The chromosome is diploid for the arm involved."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000140 ; owl:annotatedTarget "A compound chromosome whereby two arms from different chromosomes are connected through the centromere of one of them."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000141 ; owl:annotatedTarget "A chromosome that occurred by the division of a larger chromosome."^^xsd:string . [] oboInOwl:hasDbXref "FB:manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000142 ; owl:annotatedTarget "An autosynaptic chromosome carrying the two right (D = dextro) telomeres."^^xsd:string . [] oboInOwl:hasDbXref "FB:manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000143 ; owl:annotatedTarget "LS is an autosynaptic chromosome carrying the two left (L = levo) telomeres."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000144 ; owl:annotatedTarget "A chromosome structure variation whereby the duplicated sequences are carried as a free centric element."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000226 ; owl:annotatedTarget "A primary transcript encoding seryl tRNA (SO:000269)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000145 ; owl:annotatedTarget "A ring chromosome which is a copy of another chromosome."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000147 ; owl:annotatedTarget "A chromosomal deletion whereby a translocation occurs in which one of the four broken ends loses a segment before re-joining."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000148 ; owl:annotatedTarget "A chromosomal translocation whereby the first two breaks are in the same chromosome, and the region between them is rejoined in inverted order to the other side of the first break, such that both sides of break one are present on the same chromosome. The remaining free ends are joined as a translocation with those resulting from the third break."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000149 ; owl:annotatedTarget "An interchromosomal mutation whereby the (large) region between the first two breaks listed is lost, and the two flanking segments (one of them centric) are joined as a translocation to the free ends resulting from the third break."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000227 ; owl:annotatedTarget "A primary transcript encoding threonyl tRNA (SO:000270)."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000150 ; owl:annotatedTarget "A chromosomal translocation whereby three breaks occurred in three different chromosomes. The centric segment resulting from the first break listed is joined to the acentric segment resulting from the second, rather than the third."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000151 ; owl:annotatedTarget "A chromosomal inversion caused by three breaks in the same chromosome; both central segments are inverted in place (i.e., they are not transposed)."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000152 ; owl:annotatedTarget "An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000153 ; owl:annotatedTarget "An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000154 ; owl:annotatedTarget "A chromosome duplication involving the insertion of a duplicated region (as opposed to a free duplication)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000155 ; owl:annotatedTarget "A chromosome structure variation whereby a transposition occurred between chromosomes."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000156 ; owl:annotatedTarget "An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segment."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000157 ; owl:annotatedTarget "An interchromosomal transition where the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000158 ; owl:annotatedTarget "An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000228 ; owl:annotatedTarget "A primary transcript encoding tryptophanyl tRNA (SO:000271)."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000159 ; owl:annotatedTarget "An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000160 ; owl:annotatedTarget "An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000161 ; owl:annotatedTarget "An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000162 ; owl:annotatedTarget "An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000229 ; owl:annotatedTarget "A primary transcript encoding tyrosyl tRNA (SO:000272)."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000171 ; owl:annotatedTarget "A chromosomal deletion whereby three breaks occur in the same chromosome; one central region is lost, and the other is inverted."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000173 ; owl:annotatedTarget "A duplication consisting of 2 identical adjacent regions."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/dbvar/"^^xsd:string ; oboInOwl:hasSynonymType so:dbvar ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_1000173 ; owl:annotatedTarget "erverted"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000180 ; owl:annotatedTarget "A sequence_variant_effect that changes the gene structure."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000181 ; owl:annotatedTarget "A sequence_variant_effect that changes the gene structure by causing a fusion to another gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000182 ; owl:annotatedTarget "A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number."^^xsd:string . [] oboInOwl:hasDbXref "http://doc-openbio.readthedocs.org/projects/jannovar/en/master/var_effects.html"^^xsd:string ; oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_1000182 ; owl:annotatedTarget "Jannovar:chromosome_number_variation"^^xsd:string . [] oboInOwl:hasSynonymType so:VAR ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_1000183 ; owl:annotatedTarget "snpEff:CHROMOSOME_LARGE_DELETION"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000184 ; owl:annotatedTarget "A sequence variant affecting splicing and causes an exon loss."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000230 ; owl:annotatedTarget "A primary transcript encoding valyl tRNA (SO:000273)."^^xsd:string . [] oboInOwl:hasDbXref "EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1000185 ; owl:annotatedTarget "A sequence variant effect, causing an intron to be gained by the processed transcript; usually a result of a donor acceptor mutation (SO:1000072)."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001187 ; owl:annotatedTarget "A transcript that is alternatively spliced."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001188 ; owl:annotatedTarget "A gene that is alternately spliced, but encodes only one polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001189 ; owl:annotatedTarget "A gene that is alternately spliced, and encodes more than one polypeptide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001190 ; owl:annotatedTarget "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different stop codons."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000231 ; owl:annotatedTarget "A primary transcript encoding a small nuclear RNA (SO:0000274)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001191 ; owl:annotatedTarget "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start codons."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001192 ; owl:annotatedTarget "A gene that is alternately spliced, and encodes more than one polypeptide, that do not have overlapping peptide sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001193 ; owl:annotatedTarget "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start and stop codons."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001195 ; owl:annotatedTarget "A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001196 ; owl:annotatedTarget "A maxicircle gene so extensively edited that it cannot be matched to its edited mRNA sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000232 ; owl:annotatedTarget "A primary transcript encoding one or more small nucleolar RNAs (SO:0000275)."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001197 ; owl:annotatedTarget "A primary transcript that has the quality dicistronic."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001246 ; owl:annotatedTarget "A CDS with the evidence status of being independently known."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001247 ; owl:annotatedTarget "A CDS whose predicted amino acid sequence is unsupported by any experimental evidence or by any match with any other known sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000233 ; owl:annotatedTarget "A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001249 ; owl:annotatedTarget "A CDS that is supported by domain similarity."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001251 ; owl:annotatedTarget "A CDS that is supported by sequence similarity data."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000233 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Mature_transcript"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001254 ; owl:annotatedTarget "A CDS that is predicted."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000234 ; owl:annotatedTarget "Messenger RNA is the intermediate molecule between DNA and protein. It includes UTR and coding sequences. It does not contain introns."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001259 ; owl:annotatedTarget "A CDS that is supported by similarity to EST or cDNA data."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12519954"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001260 ; owl:annotatedTarget "A Shine-Dalgarno sequence that stimulates recoding through interactions with the anti-Shine-Dalgarno in the RNA of small ribosomal subunits of translating ribosomes. The signal is only operative in Bacteria."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8811194&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001261 ; owl:annotatedTarget "The sequence of a mature mRNA transcript, modified before translation or during translation, usually by special cis-acting signals."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001262 ; owl:annotatedTarget "An attribute describing a translational frameshift of -1."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000234 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/MRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001263 ; owl:annotatedTarget "An attribute describing a translational frameshift of +1."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8811194&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001264 ; owl:annotatedTarget "A recoded_mRNA where translation was suspended at a particular codon and resumed at a particular non-overlapping downstream codon."^^xsd:string . [] a owl:Axiom ; rdfs:label "GENCODE"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000234 ; owl:annotatedTarget "http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001265 ; owl:annotatedTarget "A recoded_mRNA that was modified by an alteration of codon meaning."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12519954&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001268 ; owl:annotatedTarget "A site in an mRNA sequence that stimulates the recoding of a region in the same mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001269 ; owl:annotatedTarget "A non-canonical start codon with 4 base pairs."^^xsd:string . [] oboInOwl:hasDbXref "PMID:9301331"^^xsd:string, "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001271 ; owl:annotatedTarget "An intron characteristic of Archaeal tRNA and rRNA genes, where intron transcript generates a bulge-helix-bulge motif that is recognised by a splicing endoribonuclease."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001272 ; owl:annotatedTarget "An intron found in tRNA that is spliced via endonucleolytic cleavage and ligation rather than transesterification."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001273 ; owl:annotatedTarget "A non-canonical start codon of sequence CTG."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00031"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001274 ; owl:annotatedTarget "The incorporation of selenocysteine into a protein sequence is directed by an in-frame UGA codon (usually a stop codon) within the coding region of the mRNA. Selenoprotein mRNAs contain a conserved secondary structure in the 3' UTR that is required for the distinction of UGA stop from UGA selenocysteine. The selenocysteine insertion sequence (SECIS) is around 60 nt in length and adopts a hairpin structure which is sufficiently well-defined and conserved to act as a computational screen for selenoprotein genes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1001274 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/SECIS_element"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001275 ; owl:annotatedTarget "Sequence coding for a short, single-stranded, DNA sequence via a retrotransposed RNA intermediate; characteristic of some microbial genomes."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001277 ; owl:annotatedTarget "The recoding stimulatory signal located downstream of the recoding site."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12519954"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001279 ; owl:annotatedTarget "A recoding stimulatory region, the stem-loop secondary structural element is downstream of the redefined region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001280 ; owl:annotatedTarget "The recoding stimulatory signal located upstream of the recoding site."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12519954"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001281 ; owl:annotatedTarget "Four base pair sequence immediately downstream of the redefined region. The redefined region is a frameshift site. The quadruplet is 2 overlapping codons."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001282 ; owl:annotatedTarget "A stop codon signal for a UAG stop codon redefinition."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001283 ; owl:annotatedTarget "A stop codon signal for a UAA stop codon redefinition."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0198506732"^^xsd:string, "PMID:32665585"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001284 ; owl:annotatedTarget "A set of units of gene expression directly regulated by a common set of one or more common regulatory gene products."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_1001284 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Regulon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000235 ; owl:annotatedTarget "A DNA site where a transcription factor binds."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001285 ; owl:annotatedTarget "A stop codon signal for a UGA stop codon redefinition."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12519954"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001286 ; owl:annotatedTarget "A recoding stimulatory signal, downstream sequence important for recoding that contains repetitive elements."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8709208&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001287 ; owl:annotatedTarget "A recoding signal that is found many hundreds of nucleotides 3' of a redefined stop codon."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12519954"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_1001288 ; owl:annotatedTarget "A recoding stimulatory signal that is a stop codon and has effect on efficiency of recoding."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_2000061 ; owl:annotatedTarget "The sequence referred to by an entry in a databank such as GenBank or SwissProt."^^xsd:string . [] oboInOwl:hasDbXref "GOC:add"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_3000000 ; owl:annotatedTarget "A gene component region which acts as a recombinational unit of a gene whose functional form is generated through somatic recombination."^^xsd:string . [] oboInOwl:hasDbXref "SGD:rb"^^xsd:string, "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000236 ; owl:annotatedTarget "The in-frame interval between the stop codons of a reading frame which when read as sequential triplets, has the potential of encoding a sequential string of amino acids. TER(NNN)nTER."^^xsd:string . [] oboInOwl:hasDbXref "http://www.genetics.org/cgi/reprint/156/4/1983.pdf"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000238 ; owl:annotatedTarget "A transposable element with extensive secondary structure, characterized by large modular imperfect long inverted repeats."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000239 ; owl:annotatedTarget "The sequences extending on either side of a specific region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12651739"^^xsd:string, "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000014 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters required for the correct positioning of the polymerase for the start of transcription. Overlaps the TSS. The mammalian consensus sequence is YYAN(T|A)YY; the Drosophila consensus sequence is TCA(G|T)t(T|C). In each the A is at position +1 with respect to the TSS. Functionally similar to the TATA box element."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000241 ; owl:annotatedTarget "A UTR bordered by the terminal and initial codons of two CDSs in a polycistronic transcript. Every UTR is either 5', 3' or internal."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000242 ; owl:annotatedTarget "The untranslated sequence separating the 'cistrons' of multicistronic mRNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000243 ; owl:annotatedTarget "Sequence element that recruits a ribosomal subunit to internal mRNA for translation initiation."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000243 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Internal_ribosome_entry_site"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000246 ; owl:annotatedTarget "A attribute describing the addition of a poly A tail to the 3' end of a mRNA molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000248 ; owl:annotatedTarget "A kind of kind of sequence alteration where the copies of a region present varies across a population."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000250 ; owl:annotatedTarget "A post_transcriptionally modified base."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0198506732"^^xsd:string, "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000252 ; owl:annotatedTarget "rRNA is an RNA component of a ribosome that can provide both structural scaffolding and catalytic activity."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000252 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/RRNA"^^xsd:string . [] oboInOwl:hasDbXref "ISBN:0198506732"^^xsd:string, "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00005"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000253 ; owl:annotatedTarget "Transfer RNA (tRNA) molecules are approximately 80 nucleotides in length. Their secondary structure includes four short double-helical elements and three loops (D, anti-codon, and T loops). Further hydrogen bonds mediate the characteristic L-shaped molecular structure. Transfer RNAs have two regions of fundamental functional importance: the anti-codon, which is responsible for specific mRNA codon recognition, and the 3' end, to which the tRNA's corresponding amino acid is attached (by aminoacyl-tRNA synthetases). Transfer RNAs cope with the degeneracy of the genetic code in two manners: having more than one tRNA (with a specific anti-codon) for a particular amino acid; and 'wobble' base-pairing, i.e. permitting non-standard base-pairing at the 3rd anti-codon position."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000253 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/TRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000254 ; owl:annotatedTarget "A tRNA sequence that has an alanine anticodon, and a 3' alanine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000255 ; owl:annotatedTarget "A primary transcript encoding a small ribosomal subunit RNA."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000256 ; owl:annotatedTarget "A tRNA sequence that has an asparagine anticodon, and a 3' asparagine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000257 ; owl:annotatedTarget "A tRNA sequence that has an aspartic acid anticodon, and a 3' aspartic acid binding region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12515390"^^xsd:string, "PMID:12537576"^^xsd:string, "PMID:12651739"^^xsd:string, "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000015 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters; Positioned from +28 to +32 with respect to the TSS (+1). Experimental results suggest that the DPE acts in conjunction with the INR_motif to provide a binding site for TFIID in the absence of a TATA box to mediate transcription of TATA-less promoters. Consensus sequence (A|G)G(A|T)(C|T)(G|A|C)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000258 ; owl:annotatedTarget "A tRNA sequence that has a cysteine anticodon, and a 3' cysteine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000259 ; owl:annotatedTarget "A tRNA sequence that has a glutamine anticodon, and a 3' glutamine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000260 ; owl:annotatedTarget "A tRNA sequence that has a glutamic acid anticodon, and a 3' glutamic acid binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000261 ; owl:annotatedTarget "A tRNA sequence that has a glycine anticodon, and a 3' glycine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000262 ; owl:annotatedTarget "A tRNA sequence that has a histidine anticodon, and a 3' histidine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000263 ; owl:annotatedTarget "A tRNA sequence that has an isoleucine anticodon, and a 3' isoleucine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000264 ; owl:annotatedTarget "A tRNA sequence that has a leucine anticodon, and a 3' leucine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000265 ; owl:annotatedTarget "A tRNA sequence that has a lysine anticodon, and a 3' lysine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000266 ; owl:annotatedTarget "A tRNA sequence that has a methionine anticodon, and a 3' methionine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000267 ; owl:annotatedTarget "A tRNA sequence that has a phenylalanine anticodon, and a 3' phenylalanine binding region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:contains ; owl:annotatedTarget "The inverse of contained_by."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12651739"^^xsd:string, "PMID:16858867"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000016 ; owl:annotatedTarget "A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements at -37 to -32 with respect to the TSS (+1). Consensus sequence is (G|C)(G|C)(G|A)CGCC. Binds TFIIB."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000268 ; owl:annotatedTarget "A tRNA sequence that has a proline anticodon, and a 3' proline binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000269 ; owl:annotatedTarget "A tRNA sequence that has a serine anticodon, and a 3' serine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000270 ; owl:annotatedTarget "A tRNA sequence that has a threonine anticodon, and a 3' threonine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000271 ; owl:annotatedTarget "A tRNA sequence that has a tryptophan anticodon, and a 3' tryptophan binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000272 ; owl:annotatedTarget "A tRNA sequence that has a tyrosine anticodon, and a 3' tyrosine binding region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000273 ; owl:annotatedTarget "A tRNA sequence that has a valine anticodon, and a 3' valine binding region."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11733745"^^xsd:string, "WB:ems"^^xsd:string, "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000274 ; owl:annotatedTarget "A small nuclear RNA molecule involved in pre-mRNA splicing and processing."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000274 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/SnRNA"^^xsd:string . [] oboInOwl:hasDbXref "GOC:kgc"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000275 ; owl:annotatedTarget "A snoRNA (small nucleolar RNA) is any one of a class of small RNAs that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins. They participate in the processing or modifications of many RNAs, mostly ribosomal RNAs (rRNAs) though snoRNAs are also known to target other classes of RNA, including spliceosomal RNAs, tRNAs, and mRNAs via a stretch of sequence that is complementary to a sequence in the targeted RNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000275 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/SnoRNA"^^xsd:string . [] oboInOwl:hasDbXref "PMID:11081512"^^xsd:string, "PMID:12592000"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000276 ; owl:annotatedTarget "Small, ~22-nt, RNA molecule that is the endogenous transcript of a miRNA gene (or the product of other non coding RNA genes. Micro RNAs are produced from precursor molecules (SO:0000647) that can form local hairpin structures, which ordinarily are processed (usually via the Dicer pathway) such that a single miRNA molecule accumulates from one arm of a hairpin precursor molecule. Micro RNAs may trigger the cleavage of their target molecules or act as translational repressors."^^xsd:string . [] oboInOwl:hasDbXref "PMID:11390411"^^xsd:string, "PMID:12621023"^^xsd:string, "PMID:12651739"^^xsd:string, "PMID:23166507"^^xsd:string, "PMID:8339931"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000017 ; owl:annotatedTarget "A sequence element characteristic of the promoters of snRNA genes transcribed by RNA polymerase II or by RNA polymerase III. Located between -45 and -60 relative to the TSS. The human PSE_motif consensus sequence is TCACCNTNA(C|G)TNAAAAG(T|G). The basal transcription factor, snRNA-activating protein complex (SNAPc), binds the PSE_motif and is required for the transcription of both RNA polymerase II and III transcribed small-nuclear RNA genes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000276 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/MiRNA"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000276 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/StRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000277 ; owl:annotatedTarget "An attribute describing a sequence that is bound by another molecule."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000278 ; owl:annotatedTarget "A transcript that is bound by a nucleic acid."^^xsd:string . [] oboInOwl:hasDbXref "ISBN:038752046"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000018 ; owl:annotatedTarget "A group of loci that can be grouped in a linear order representing the different degrees of linkage among the genes concerned."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000279 ; owl:annotatedTarget "A transcript that is bound by a protein."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000018 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Linkage_group"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000280 ; owl:annotatedTarget "A gene that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000281 ; owl:annotatedTarget "A gene that is engineered and foreign."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000020 ; owl:annotatedTarget "A region of double stranded RNA where the bases do not conform to WC base pairing. The loop is closed on both sides by canonical base pairing. If the interruption to base pairing occurs on one strand only, it is known as a bulge."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000282 ; owl:annotatedTarget "An mRNA with a minus 1 frameshift."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000021 ; owl:annotatedTarget "An internal RNA loop where one of the strands includes more bases than the corresponding region on the other strand."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000283 ; owl:annotatedTarget "A transposable_element that is engineered and foreign."^^xsd:string . [] oboInOwl:hasDbXref "http://www.promega.com"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000284 ; owl:annotatedTarget "The recognition site is bipartite and interrupted."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000022 ; owl:annotatedTarget "A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000285 ; owl:annotatedTarget "A gene that is foreign."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000286 ; owl:annotatedTarget "A sequence directly repeated at both ends of a defined sequence, of the sort typically found in retroviruses."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000286 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Long_terminal_repeat"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000023 ; owl:annotatedTarget "The kink turn (K-turn) is an RNA structural motif that creates a sharp (~120 degree) bend between two continuous helices."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000287 ; owl:annotatedTarget "A gene that is a fusion."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000287 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Fusion_gene"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000288 ; owl:annotatedTarget "A fusion gene that is engineered."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:th"^^xsd:string, "http://www.informatics.jax.org/silver/glossary.shtml"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000289 ; owl:annotatedTarget "A repeat_region containing repeat_units of 2 to 10 bp repeated in tandem."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000289 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Microsatellite"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000023 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/K-turn"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/books/NBK21126/def-item/A9651/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000289 ; owl:annotatedTarget "STR"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000293 ; owl:annotatedTarget "A repetitive element that is engineered and foreign."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:disconnected_from ; owl:annotatedTarget "X is disconnected_from Y iff it is not the case that X overlaps Y."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/pubmed/7897662"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000024 ; owl:annotatedTarget "A loop in ribosomal RNA containing the sites of attack for ricin and sarcin."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000294 ; owl:annotatedTarget "The sequence is complementarily repeated on the opposite strand. It is a palindrome, and it may, or may not be hyphenated. Examples: GCTGATCAGC, or GCTGA-----TCAGC."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000294 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Inverted_repeat"^^xsd:string . [] oboInOwl:hasDbXref "PMID:9428511"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000295 ; owl:annotatedTarget "A type of spliceosomal intron spliced by the U12 spliceosome, that includes U11, U12, U4atac/U6atac and U5 snRNAs."^^xsd:string . [] oboInOwl:hasDbXref "NCBI:cf"^^xsd:string, "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000296 ; owl:annotatedTarget "A region of nucleic acid from which replication initiates; includes sequences that are recognized by replication proteins, the site from which the first separation of complementary strands occurs, and specific replication start sites."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000296 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Origin_of_replication"^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000297 ; owl:annotatedTarget "Displacement loop; a region within mitochondrial DNA in which a short stretch of RNA is paired with one strand of DNA, displacing the original partner DNA strand in this region; also used to describe the displacement of a region of one strand of duplex DNA by a single stranded invader in the reaction catalyzed by RecA protein."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000297 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/D_loop"^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000302 ; owl:annotatedTarget "Recombination signal including J-heptamer, J-spacer and J-nonamer in 5' of J-region of a J-gene or J-sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000303 ; owl:annotatedTarget "Part of the primary transcript that is clipped off during processing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000025 ; owl:annotatedTarget "An internal RNA loop where the extent of the loop on both stands is the same size."^^xsd:string . [] oboInOwl:hasDbXref "http://www.promega.com"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000304 ; owl:annotatedTarget "The recognition site is either palindromic, partially palindromic or an interrupted palindrome. Cleavage occurs within the recognition site."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000305 ; owl:annotatedTarget "A modified nucleotide, i.e. a nucleotide other than A, T, C. G."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000306 ; owl:annotatedTarget "A nucleotide modified by methylation."^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000307 ; owl:annotatedTarget "Regions of a few hundred to a few thousand bases in vertebrate genomes that are relatively GC and CpG rich; they are typically unmethylated and often found near the 5' ends of genes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000307 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/CpG_island"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000311 ; owl:annotatedTarget "."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000312 ; owl:annotatedTarget "Attribute to describe a feature that has been experimentally verified."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000313 ; owl:annotatedTarget "A double-helical region of nucleic acid formed by base-pairing between adjacent (inverted) complementary sequences."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000313 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Stem_loop"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000314 ; owl:annotatedTarget "A repeat where the same sequence is repeated in the same direction. Example: GCTGA-followed by-GCTGA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000028 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Base_pair"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000314 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Direct_repeat"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000315 ; owl:annotatedTarget "The first base where RNA polymerase begins to synthesize the RNA transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000316 ; owl:annotatedTarget "A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon."^^xsd:string . [] oboInOwl:hasDbXref "http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/mbglossary/mbgloss.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000317 ; owl:annotatedTarget "Complementary DNA; A piece of DNA copied from an mRNA and spliced into a vector for propagation in a suitable host."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000318 ; owl:annotatedTarget "First codon to be translated by a ribosome."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12177293"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000029 ; owl:annotatedTarget "The canonical base pair, where two bases interact via WC edges, with glycosidic bonds oriented cis relative to the axis of orientation."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000318 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Start_codon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000319 ; owl:annotatedTarget "In mRNA, a set of three nucleotides that indicates the end of information for protein synthesis."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000319 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Stop_codon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000320 ; owl:annotatedTarget "Sequences within the intron that modulate splice site selection for some introns."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12177293"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000030 ; owl:annotatedTarget "A type of non-canonical base-pairing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000321 ; owl:annotatedTarget "An mRNA with a plus 1 frameshift."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000323 ; owl:annotatedTarget "The first base to be translated into protein."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000324 ; owl:annotatedTarget "A nucleotide sequence that may be used to identify a larger sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000325 ; owl:annotatedTarget "A primary transcript encoding a large ribosomal subunit RNA."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=7570003&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000326 ; owl:annotatedTarget "A short diagnostic sequence tag, serial analysis of gene expression (SAGE), that allows the quantitative and simultaneous analysis of a large number of transcripts."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000327 ; owl:annotatedTarget "The last base to be translated into protein. It does not include the stop codon."^^xsd:string . [] oboInOwl:hasDbXref "http://aptamer.icmb.utexas.edu"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000031 ; owl:annotatedTarget "DNA or RNA molecules that have been selected from random pools based on their ability to bind other molecules."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000329 ; owl:annotatedTarget "An mRNA with a plus 2 frameshift."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000330 ; owl:annotatedTarget "Region of sequence similarity by descent from a common ancestor."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000330 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Conserved_region"^^xsd:string . [] oboInOwl:hasDbXref "http://www.biospace.com"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000331 ; owl:annotatedTarget "Short (typically a few hundred base pairs) DNA sequence that has a single occurrence in a genome and whose location and base sequence are known."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000332 ; owl:annotatedTarget "Coding region of sequence similarity by descent from a common ancestor."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000333 ; owl:annotatedTarget "The boundary between two exons in a processed transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000334 ; owl:annotatedTarget "Non-coding region of sequence similarity by descent from a common ancestor."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000031 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Aptamer"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000335 ; owl:annotatedTarget "A mRNA with a minus 2 frameshift."^^xsd:string . [] oboInOwl:hasDbXref "http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000336 ; owl:annotatedTarget "A sequence that closely resembles a known functional gene, at another locus within a genome, that is non-functional as a consequence of (usually several) mutations that prevent either its transcription or translation (or both). In general, pseudogenes result from either reverse transcription of a transcript of their \"normal\" paralog (SO:0000043) (in which case the pseudogene typically lacks introns and includes a poly(A) tail) or from recombination (SO:0000044) (in which case the pseudogene is typically a tandem duplication of its \"normal\" paralog)."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000336 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Pseudogene"^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000337 ; owl:annotatedTarget "A double stranded RNA duplex, at least 20bp long, used experimentally to inhibit gene function by RNA interference."^^xsd:string . [] oboInOwl:hasDbXref "http://www.pnas.org/cgi/content/full/97/18/10083"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000338 ; owl:annotatedTarget "A highly repetitive and short (100-500 base pair) transposable element with terminal inverted repeats (TIR) and target site duplication (TSD). MITEs do not encode proteins."^^xsd:string . [] oboInOwl:hasDbXref "http:aptamer.icmb.utexas.edu"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000032 ; owl:annotatedTarget "DNA molecules that have been selected from random pools based on their ability to bind other molecules."^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000339 ; owl:annotatedTarget "A region in a genome which promotes recombination."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000339 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Recombination_hotspot"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000340 ; owl:annotatedTarget "Structural unit composed of a nucleic acid molecule which controls its own replication through the interaction of specific proteins at one or more origins of replication."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000340 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Chromosome"^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000341 ; owl:annotatedTarget "A cytologically distinguishable feature of a chromosome, often made visible by staining, and usually alternating light and dark."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000341 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Cytological_band"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000343 ; owl:annotatedTarget "A region of sequence, aligned to another sequence with some statistical significance, using an algorithm such as BLAST or SIM4."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000344 ; owl:annotatedTarget "Region of a transcript that regulates splicing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000345 ; owl:annotatedTarget "A tag produced from a single sequencing read from a cDNA clone or PCR product; typically a few hundred base pairs long."^^xsd:string . [] oboInOwl:hasDbXref "http://aptamer.icmb.utexas.edu"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000033 ; owl:annotatedTarget "RNA molecules that have been selected from random pools based on their ability to bind other molecules."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000347 ; owl:annotatedTarget "A match against a nucleotide sequence."^^xsd:string . [] oboInOwl:hasDbXref "CHEBI:33696"^^xsd:string, "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000348 ; owl:annotatedTarget "An attribute describing a sequence consisting of nucleobases bound to repeating units. The forms found in nature are deoxyribonucleic acid (DNA), where the repeating units are 2-deoxy-D-ribose rings connected to a phosphate backbone, and ribonucleic acid (RNA), where the repeating units are D-ribose rings connected to a phosphate backbone."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000348 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Nucleic_acid"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000349 ; owl:annotatedTarget "A match against a protein sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000350 ; owl:annotatedTarget "An inversion site found on the Saccharomyces cerevisiae 2 micron plasmid."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000351 ; owl:annotatedTarget "An attribute to decide a sequence of nucleotides, nucleotide analogs, or amino acids that has been designed by an experimenter and which may, or may not, correspond with any natural sequence."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000352 ; owl:annotatedTarget "An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a 2-deoxy-D-ribose ring connected to a phosphate backbone."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000353 ; owl:annotatedTarget "A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000353 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Sequence_assembly"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000354 ; owl:annotatedTarget "A region of intronic nucleotide sequence targeted by a nuclease enzyme."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000355 ; owl:annotatedTarget "A region of the genome which is co-inherited as the result of the lack of historic recombination within it."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000356 ; owl:annotatedTarget "An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a D-ribose ring connected to a phosphate backbone."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000357 ; owl:annotatedTarget "An attribute describing a region that is bounded either side by a particular kind of region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000359 ; owl:annotatedTarget "An attribute describing sequence that is flanked by Lox-P sites."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000359 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Floxed"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000360 ; owl:annotatedTarget "A set of (usually) three nucleotide bases in a DNA or RNA sequence, which together code for a unique amino acid or the termination of translation and are contained within the CDS."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000360 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Codon"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000361 ; owl:annotatedTarget "An attribute to describe sequence that is flanked by the FLP recombinase recognition site, FRT."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000362 ; owl:annotatedTarget "A cDNA clone constructed from more than one mRNA. Usually an experimental artifact."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:evidence_for_feature ; owl:annotatedTarget "B is evidence_for_feature A, if an instance of B supports the existence of A."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000363 ; owl:annotatedTarget "A transgene that is floxed."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000364 ; owl:annotatedTarget "The region of sequence surrounding a transposable element."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000365 ; owl:annotatedTarget "A region encoding an integrase which acts at a site adjacent to it (attI_site) to insert DNA which must include but is not limited to an attC_site."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000365 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Integron"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000366 ; owl:annotatedTarget "The junction where an insertion occurred."^^xsd:string . [] oboInOwl:hasDbXref "SO:as"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000367 ; owl:annotatedTarget "A region within an integron, adjacent to an integrase, at which site specific recombination involving an attC_site takes place."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000368 ; owl:annotatedTarget "The junction in a genome where a transposable_element has inserted."^^xsd:string . [] oboInOwl:hasDbXref "PMID:28541282"^^xsd:string, "PomBase:al"^^xsd:string, "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000370 ; owl:annotatedTarget "A non-coding RNA less than 200 nucleotides long, usually with a specific secondary structure, that acts to regulate gene expression. These include short ncRNAs such as piRNA, miRNA and siRNAs (among others)."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sci.sdsu.edu/~smaloy/Glossary/C.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000371 ; owl:annotatedTarget "A transposon that encodes function required for conjugation."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000372 ; owl:annotatedTarget "An RNA sequence that has catalytic activity with or without an associated ribonucleoprotein."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000373 ; owl:annotatedTarget "A recombinationally rearranged gene by inversion."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000374 ; owl:annotatedTarget "An RNA with catalytic activity."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000374 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Ribozyme"^^xsd:string . [] oboInOwl:hasDbXref "https://rfam.xfam.org/family/RF00002"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000375 ; owl:annotatedTarget "Cytosolic 5.8S rRNA is an RNA component of the large subunit of cytosolic ribosomes in eukaryotes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000375 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/5.8S_ribosomal_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00013"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000376 ; owl:annotatedTarget "A small (184-nt in E. coli) RNA that forms a hairpin type structure. 6S RNA associates with RNA polymerase in a highly specific manner. 6S RNA represses expression from a sigma70-dependent promoter during stationary phase."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000376 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/6S_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00018"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000377 ; owl:annotatedTarget "An enterobacterial RNA that binds the CsrA protein. The CsrB RNAs contain a conserved motif CAGGXXG that is found in up to 18 copies and has been suggested to bind CsrA. The Csr regulatory system has a strong negative regulatory effect on glycogen biosynthesis, glyconeogenesis and glycogen catabolism and a positive regulatory effect on glycolysis. In other bacteria such as Erwinia caratovara the RsmA protein has been shown to regulate the production of virulence determinants, such extracellular enzymes. RsmA binds to RsmB regulatory RNA which is also a member of this family."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00014"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000378 ; owl:annotatedTarget "DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress sigma factor, RpoS. These two activities of DsrA can be separated by mutation: the first of three stem-loops of the 85 nucleotide RNA is necessary for RpoS translation but not for anti-H-NS action, while the second stem-loop is essential for antisilencing and less critical for RpoS translation. The third stem-loop, which behaves as a transcription terminator, can be substituted by the trp transcription terminator without loss of either DsrA function. The sequence of the first stem-loop of DsrA is complementary with the upstream leader portion of RpoS messenger RNA, suggesting that pairing of DsrA with the RpoS message might be important for translational regulation."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000378 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/DsrA_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.gene-tools.com/"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000034 ; owl:annotatedTarget "Morpholino oligos are synthesized from four different Morpholino subunits, each of which contains one of the four genetic bases (A, C, G, T) linked to a 6-membered morpholine ring. Eighteen to 25 subunits of these four subunit types are joined in a specific order by non-ionic phosphorodiamidate intersubunit linkages to give a Morpholino."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00022"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000379 ; owl:annotatedTarget "A small untranslated RNA involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000379 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/GcvB_RNA"^^xsd:string . [] oboInOwl:hasDbXref "PMID:2436805"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000380 ; owl:annotatedTarget "A small catalytic RNA motif that catalyzes self-cleavage reaction. Its name comes from its secondary structure which resembles a carpenter's hammer. The hammerhead ribozyme is involved in the replication of some viroid and some satellite RNAs."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000380 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Hammerhead_ribozyme"^^xsd:string . [] oboInOwl:hasDbXref "PMID:20463000"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000381 ; owl:annotatedTarget "A group II intron that recognizes IBS1/EBS1 and IBS2/EBS2 for the 5-prime exon and gamma/gamma-prime for the 3-prime exon."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20463000"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000382 ; owl:annotatedTarget "A group II intron that recognizes IBS1/EBS1 and IBS2/EBS2 for the 5-prime exon and IBS3/EBS3 for the 3-prime exon."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00033"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000383 ; owl:annotatedTarget "A non-translated 93 nt antisense RNA that binds its target ompF mRNA and regulates ompF expression by inhibiting translation and inducing degradation of the message."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000383 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/MicF_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00035"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000384 ; owl:annotatedTarget "A small untranslated RNA which is induced in response to oxidative stress in Escherichia coli. Acts as a global regulator to activate or repress the expression of as many as 40 genes, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s) subunit of RNA polymerase. OxyS is bound by the Hfq protein, that increases the OxyS RNA interaction with its target messages."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000384 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/OxyS_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00030"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000385 ; owl:annotatedTarget "The RNA molecule essential for the catalytic activity of RNase MRP, an enzymatically active ribonucleoprotein with two distinct roles in eukaryotes. In mitochondria it plays a direct role in the initiation of mitochondrial DNA replication. In the nucleus it is involved in precursor rRNA processing, where it cleaves the internal transcribed spacer 1 between 18S and 5.8S rRNAs."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00010"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000386 ; owl:annotatedTarget "The RNA component of Ribonuclease P (RNase P), a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterized activity is the generation of mature 5 prime ends of tRNAs by cleaving the 5 prime leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzymes have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous. Helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00034"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000387 ; owl:annotatedTarget "Translational regulation of the stationary phase sigma factor RpoS is mediated by the formation of a double-stranded RNA stem-loop structure in the upstream region of the rpoS messenger RNA, occluding the translation initiation site. Clones carrying rprA (RpoS regulator RNA) increased the translation of RpoS. The rprA gene encodes a 106 nucleotide regulatory RNA. As with DsrA Rfam:RF00014, RprA is predicted to form three stem-loops. Thus, at least two small RNAs, DsrA and RprA, participate in the positive regulation of RpoS translation. Unlike DsrA, RprA does not have an extensive region of complementarity to the RpoS leader, leaving its mechanism of action unclear. RprA is non-essential."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000387 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/RprA_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00036"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000388 ; owl:annotatedTarget "The Rev response element (RRE) is encoded within the HIV-env gene. Rev is an essential regulatory protein of HIV that binds an internal loop of the RRE leading, encouraging further Rev-RRE binding. This RNP complex is critical for mRNA export and hence for expression of the HIV structural proteins."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2820954"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000035 ; owl:annotatedTarget "A riboswitch is a part of an mRNA that can act as a direct sensor of small molecules to control their own expression. A riboswitch is a cis element in the 5' end of an mRNA, that acts as a direct sensor of metabolites."^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00021"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000389 ; owl:annotatedTarget "A 109-nucleotide RNA of E. coli that seems to have a regulatory role on the galactose operon. Changes in Spot 42 levels are implicated in affecting DNA polymerase I levels."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000389 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Spot_42_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00025"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000390 ; owl:annotatedTarget "The RNA component of telomerase, a reverse transcriptase that synthesizes telomeric DNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000390 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Telomerase_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00003"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000391 ; owl:annotatedTarget "U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000391 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U1_snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000391 ; owl:annotatedTarget "U1 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000391 ; owl:annotatedTarget "small nuclear RNA U1"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000391 ; owl:annotatedTarget "snRNA U1"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00004"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000392 ; owl:annotatedTarget "U2 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Complementary binding between U2 snRNA (in an area lying towards the 5' end but 3' to hairpin I) and the branchpoint sequence (BPS) of the intron results in the bulging out of an unpaired adenine, on the BPS, which initiates a nucleophilic attack at the intronic 5' splice site, thus starting the first of two transesterification reactions that mediate splicing."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000035 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Riboswitch"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000392 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U2_snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:CB"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000392 ; owl:annotatedTarget "U2 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:CB"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000392 ; owl:annotatedTarget "small nuclear RNA U2"^^xsd:string . [] oboInOwl:hasDbXref "RSC:CB"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000392 ; owl:annotatedTarget "snRNA U2"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00015"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000393 ; owl:annotatedTarget "U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to refold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000393 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U4_snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000393 ; owl:annotatedTarget "U4 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000393 ; owl:annotatedTarget "small nuclear RNA U4"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000393 ; owl:annotatedTarget "snRNA U4"^^xsd:string . [] oboInOwl:hasDbXref "PMID:=12409455"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000394 ; owl:annotatedTarget "An snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U6atac_snRNA (SO:0000397)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000036 ; owl:annotatedTarget "A DNA region that is required for the binding of chromatin to the nuclear matrix."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000394 ; owl:annotatedTarget "U4atac small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000394 ; owl:annotatedTarget "small nuclear RNA U4atac"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000394 ; owl:annotatedTarget "snRNA U4atac"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00020"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000395 ; owl:annotatedTarget "U5 RNA is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5' loop is required for splice site selection and p220 binding, and that both the 3' stem-loop and the Sm site are important for Sm protein binding and cap methylation."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000395 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U5_snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000395 ; owl:annotatedTarget "U5 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000395 ; owl:annotatedTarget "small nuclear RNA U5"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000395 ; owl:annotatedTarget "snRNA U5"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00015"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000396 ; owl:annotatedTarget "U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5' stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000396 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U6_snRNA"^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000036 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Matrix_attachment_site"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000396 ; owl:annotatedTarget "U6 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000396 ; owl:annotatedTarget "small nuclear RNA U6"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000396 ; owl:annotatedTarget "snRNA U6"^^xsd:string . [] oboInOwl:hasDbXref "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=retrieve&db=pubmed&list_uids=12409455&dopt=Abstract"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000397 ; owl:annotatedTarget "U6atac_snRNA is an snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U4atac_snRNA (SO:0000394)."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000397 ; owl:annotatedTarget "U6atac small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000397 ; owl:annotatedTarget "U6atac snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000397 ; owl:annotatedTarget "snRNA U6atac"^^xsd:string . [] oboInOwl:hasDbXref "PMID:9622129"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000398 ; owl:annotatedTarget "U11 snRNA plays a role in splicing of the minor U12-dependent class of eukaryotic nuclear introns, similar to U1 snRNA in the major class spliceosome it base pairs to the conserved 5' splice site sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000398 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U11_snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000398 ; owl:annotatedTarget "U11 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:exemplar_of ; owl:annotatedTarget "X is exemplar of Y if X is the best evidence for Y."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000037 ; owl:annotatedTarget "A DNA region that includes DNAse hypersensitive sites located near a gene that confers the high-level, position-independent, and copy number-dependent expression to that gene."^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000398 ; owl:annotatedTarget "small nuclear RNA U11"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000398 ; owl:annotatedTarget "snRNA U11"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00007"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000399 ; owl:annotatedTarget "The U12 small nuclear (snRNA), together with U4atac/U6atac, U5, and U11 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000399 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/U12_snRNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000399 ; owl:annotatedTarget "U12 small nuclear RNA"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000399 ; owl:annotatedTarget "small nuclear RNA U12"^^xsd:string . [] oboInOwl:hasDbXref "RSC:cb"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000399 ; owl:annotatedTarget "snRNA U12"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000400 ; owl:annotatedTarget "An attribute describes a quality of sequence."^^xsd:string . [] oboInOwl:hasDbXref "PMID:2551119"^^xsd:string, "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00016"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000403 ; owl:annotatedTarget "U14 small nucleolar RNA (U14 snoRNA) is required for early cleavages of eukaryotic precursor rRNAs. In yeasts, this molecule possess a stem-loop region (known as the Y-domain) which is essential for function. A similar structure, but with a different consensus sequence, is found in plants, but is absent in vertebrates."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000037 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Locus_control_region"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00006"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000404 ; owl:annotatedTarget "A family of RNAs are found as part of the enigmatic vault ribonucleoprotein complex. The complex consists of a major vault protein (MVP), two minor vault proteins (VPARP and TEP1), and several small untranslated RNA molecules. It has been suggested that the vault complex is involved in drug resistance."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000404 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Vault_RNA"^^xsd:string . [] oboInOwl:hasDbXref "http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?RF00019"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000405 ; owl:annotatedTarget "Y RNAs are components of the Ro ribonucleoprotein particle (Ro RNP), in association with Ro60 and La proteins. The Y RNAs and Ro60 and La proteins are well conserved, but the function of the Ro RNP is not known. In humans the RNA component can be one of four small RNAs: hY1, hY3, hY4 and hY5. These small RNAs are predicted to fold into a conserved secondary structure containing three stem structures. The largest of the four, hY1, contains an additional hairpin."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000405 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Y_RNA"^^xsd:string . [] oboInOwl:hasDbXref "PMID:1899376"^^xsd:string, "PMID:7823908"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000406 ; owl:annotatedTarget "An intron within an intron. Twintrons are group II or III introns, into which another group II or III intron has been transposed."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000406 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Twintron"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000407 ; owl:annotatedTarget "Cytosolic 18S rRNA is an RNA component of the small subunit of cytosolic ribosomes in eukaryotes."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000407 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/18S_ribosomal_RNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000408 ; owl:annotatedTarget "The interbase position where something (eg an aberration) occurred."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000409 ; owl:annotatedTarget "A biological_region of sequence that, in the molecule, interacts selectively and non-covalently with other molecules. A region on the surface of a molecule that may interact with another molecule. When applied to polypeptides: Amino acids involved in binding or interactions. It can also apply to an amino acid bond which is represented by the positions of the two flanking amino acids."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000038 ; owl:annotatedTarget "A collection of match parts."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000409 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Binding_site"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000410 ; owl:annotatedTarget "A binding site that, in the molecule, interacts selectively and non-covalently with polypeptide molecules."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000411 ; owl:annotatedTarget "A region that rescues."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000412 ; owl:annotatedTarget "A region of polynucleotide sequence produced by digestion with a restriction endonuclease."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000412 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Restriction_fragment"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000413 ; owl:annotatedTarget "A region where the sequence differs from that of a specified sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000414 ; owl:annotatedTarget "An attribute to describe a feature that is invalidated due to genomic contamination."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000415 ; owl:annotatedTarget "An attribute to describe a feature that is invalidated due to polyA priming."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000416 ; owl:annotatedTarget "An attribute to describe a feature that is invalidated due to partial processing."^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000417 ; owl:annotatedTarget "A structurally or functionally defined protein region. In proteins with multiple domains, the combination of the domains determines the function of the protein. A region which has been shown to recur throughout evolution."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasBroadSynonym ; owl:annotatedSource obo:SO_0000417 ; owl:annotatedTarget "domain"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasBroadSynonym ; owl:annotatedSource obo:SO_0000417 ; owl:annotatedTarget "structural domain"^^xsd:string . [] oboInOwl:hasSynonymType so:BS ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasExactSynonym ; owl:annotatedSource obo:SO_0000417 ; owl:annotatedTarget "polypeptide_structural_domain"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000039 ; owl:annotatedTarget "A part of a match, for example an hsp from blast is a match_part."^^xsd:string . [] oboInOwl:hasDbXref "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000418 ; owl:annotatedTarget "The signal_peptide is a short region of the peptide located at the N-terminus that directs the protein to be secreted or part of membrane components."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000418 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Signal_peptide"^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0000418 ; owl:annotatedTarget "signal"^^xsd:string . [] oboInOwl:hasDbXref "EBIBS:GAR"^^xsd:string, "SO:cb"^^xsd:string, "http://www.insdc.org/files/feature_table.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000419 ; owl:annotatedTarget "The polypeptide sequence that remains when the cleaved peptide regions have been cleaved from the immature peptide."^^xsd:string . [] oboInOwl:hasDbXref "uniprot:feature_type"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty oboInOwl:hasRelatedSynonym ; owl:annotatedSource obo:SO_0000419 ; owl:annotatedTarget "chain"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000433 ; owl:annotatedTarget "A polymeric tract, such as poly(dA), within a non_LTR_retrotransposon."^^xsd:string . [] oboInOwl:hasDbXref "http://www.koko.gov.my/CocoaBioTech/Glossaryt.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000434 ; owl:annotatedTarget "A sequence of the target DNA that is duplicated when a transposable element or phage inserts; usually found at each end the insertion."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000435 ; owl:annotatedTarget "A polypurine tract within an LTR_retrotransposon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000436 ; owl:annotatedTarget "A sequence that can autonomously replicate, as a plasmid, when transformed into a bacterial host."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000440 ; owl:annotatedTarget "A replicon that has been modified to act as a vector for foreign sequence."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000440 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Vector_(molecular_biology)"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000441 ; owl:annotatedTarget "A single stranded oligonucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000442 ; owl:annotatedTarget "A double stranded oligonucleotide."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000443 ; owl:annotatedTarget "An attribute to describe the kind of biological sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000444 ; owl:annotatedTarget "Non-coding exon in the 3' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000445 ; owl:annotatedTarget "Non-coding exon in the 5' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000446 ; owl:annotatedTarget "Intron located in the untranslated region."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000447 ; owl:annotatedTarget "An intron located in the 5' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000448 ; owl:annotatedTarget "An intron located in the 3' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000449 ; owl:annotatedTarget "A sequence of nucleotides or amino acids which, by design, has a \"random\" order of components, given a predetermined input frequency of these components."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000450 ; owl:annotatedTarget "A light region between two darkly staining bands in a polytene chromosome."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000451 ; owl:annotatedTarget "A gene that encodes a polyadenylated mRNA."^^xsd:string . [] oboInOwl:hasDbXref "FB:reference_manual"^^xsd:string, "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000453 ; owl:annotatedTarget "A chromosome structure variant whereby a region of a chromosome has been transferred to another position. Among interchromosomal rearrangements, the term transposition is reserved for that class in which the telomeres of the chromosomes involved are coupled (that is to say, form the two ends of a single DNA molecule) as in wild-type."^^xsd:string . [] oboInOwl:hasDbXref "http://www.developmentalcell.com/content/article/abstract?uid=PIIS1534580703002284"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000454 ; owl:annotatedTarget "A 17-28-nt, small interfering RNA derived from transcripts of repetitive elements."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000454 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/RasiRNA"^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000455 ; owl:annotatedTarget "A gene that encodes an mRNA with a frameshift."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000456 ; owl:annotatedTarget "A gene that is recombinationally rearranged."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000457 ; owl:annotatedTarget "A chromosome duplication involving an insertion from another chromosome."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000458 ; owl:annotatedTarget "Germline genomic DNA including D-region with 5' UTR and 3' UTR, also designated as D-segment."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000459 ; owl:annotatedTarget "A gene with a transcript that is trans-spliced."^^xsd:string . [] oboInOwl:hasDbXref "PMID:20226267"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource so:finished_by ; owl:annotatedTarget "Xy is finished_by Y if Y part of X, and X and Y share a 3' boundary."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000040 ; owl:annotatedTarget "A clone of a DNA region of a genome."^^xsd:string . [] oboInOwl:hasDbXref "FB:km"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000461 ; owl:annotatedTarget "A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at each end of the inversion."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000462 ; owl:annotatedTarget "A non-functional descendant of a functional entity."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000463 ; owl:annotatedTarget "A gene that encodes more than one transcript."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000464 ; owl:annotatedTarget "A non-functional descendant of an exon."^^xsd:string . [] oboInOwl:hasDbXref "FB:km"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000465 ; owl:annotatedTarget "A chromosome deletion whereby a chromosome is generated by recombination between two inversions; there is a deficiency at one end of the inversion and a duplication at the other end of the inversion."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000466 ; owl:annotatedTarget "Germline genomic DNA including L-part1, V-intron and V-exon, with the 5' UTR and 3' UTR."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000467 ; owl:annotatedTarget "An attribute describing a gene sequence where the resulting protein is regulated by the stability of the resulting protein."^^xsd:string . [] oboInOwl:hasDbXref "SO:rd"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000468 ; owl:annotatedTarget "One of the pieces of sequence that make up a golden path."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000041 ; owl:annotatedTarget "An operation that can be applied to a sequence, that results in a change."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000469 ; owl:annotatedTarget "An attribute describing a gene sequence where the resulting protein is modified to regulate it."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000470 ; owl:annotatedTarget "Germline genomic DNA of an immunoglobulin/T-cell receptor gene including J-region with 5' UTR (SO:0000204) and 3' UTR (SO:0000205), also designated as J-segment."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000471 ; owl:annotatedTarget "The gene product is involved in its own transcriptional regulation."^^xsd:string . [] oboInOwl:hasDbXref "SO:cjm"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000472 ; owl:annotatedTarget "A set of regions which overlap with minimal polymorphism to form a linear sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000473 ; owl:annotatedTarget "The gene product is involved in its own transcriptional regulation where it decreases transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000474 ; owl:annotatedTarget "A piece of sequence that makes up a tiling_path (SO:0000472)."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000475 ; owl:annotatedTarget "The gene product is involved in its own transcriptional regulation, where it increases transcription."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000476 ; owl:annotatedTarget "A DNA sequencer read which is part of a contig."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000477 ; owl:annotatedTarget "A gene that is polycistronic."^^xsd:string . [] oboInOwl:hasDbXref "SO:ma"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000042 ; owl:annotatedTarget "An attribute of a pseudogene (SO:0000336)."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000478 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene including C-region (and introns if present) with 5' UTR (SO:0000204) and 3' UTR (SO:0000205)."^^xsd:string . [] oboInOwl:hasDbXref "SO:xp"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000479 ; owl:annotatedTarget "A transcript that is trans-spliced."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000480 ; owl:annotatedTarget "A clone which is part of a tiling path. A tiling path is a set of sequencing substrates, typically clones, which have been selected in order to efficiently cover a region of the genome in preparation for sequencing and assembly."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000481 ; owl:annotatedTarget "An inverted repeat (SO:0000294) occurring at the termini of a DNA transposon."^^xsd:string . [] oboInOwl:hasDbXref "GENCODE:http://www.gencodegenes.org/gencode_biotypes.html"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000043 ; owl:annotatedTarget "A pseudogene created via retrotranposition of the mRNA of a functional protein-coding parent gene followed by accumulation of deleterious mutations lacking introns and promoters, often including a polyA tail."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000483 ; owl:annotatedTarget "A primary transcript that is never translated into a protein."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000484 ; owl:annotatedTarget "The sequence of the 3' exon that is not coding."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000485 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene, and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000486 ; owl:annotatedTarget "The sequence of the 5' exon preceding the start codon."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000044 ; owl:annotatedTarget "A pseudogene caused by unequal crossing over at recombination."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000487 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000488 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000489 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000045 ; owl:annotatedTarget "To remove a subsection of sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000490 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000491 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000493 ; owl:annotatedTarget "7 nucleotide recombination site like CACAGTG, part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000494 ; owl:annotatedTarget "A 9 nucleotide recombination site (e.g. ACAAAAACC), part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000046 ; owl:annotatedTarget "To insert a subsection of sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000495 ; owl:annotatedTarget "A 12 or 23 nucleotide spacer between the 3'D-HEPTAMER and 3'D-NONAMER of a 3'D-RS."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000496 ; owl:annotatedTarget "7 nucleotide recombination site (e.g. CACTGTG), part of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000497 ; owl:annotatedTarget "9 nucleotide recombination site (e.g. GGTTTTTGT), part of a five_prime_D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000498 ; owl:annotatedTarget "12 or 23 nucleotide spacer between the 5' D-heptamer (SO:0000496) and 5' D-nonamer (SO:0000497) of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000499 ; owl:annotatedTarget "A continuous piece of sequence similar to the 'virtual contig' concept of the Ensembl database."^^xsd:string . [] oboInOwl:hasDbXref "PMID:12177293"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000500 ; owl:annotatedTarget "A type of non-canonical base-pairing. This is less energetically favourable than watson crick base pairing. Hoogsteen GC base pairs only have two hydrogen bonds."^^xsd:string . [] a owl:Axiom ; rdfs:label "wiki"^^xsd:string ; owl:annotatedProperty oboInOwl:hasDbXref ; owl:annotatedSource obo:SO_0000500 ; owl:annotatedTarget "http://en.wikipedia.org/wiki/Hoogsteen_base_pair"^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000047 ; owl:annotatedTarget "To invert a subsection of sequence."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000501 ; owl:annotatedTarget "A type of non-canonical base-pairing."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000502 ; owl:annotatedTarget "A region of sequence that is transcribed. This region may cover the transcript of a gene, it may emcompas the sequence covered by all of the transcripts of a alternately spliced gene, or it may cover the region transcribed by a polycistronic transcript. A gene may have 1 or more transcribed regions and a transcribed_region may belong to one or more genes."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000504 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000505 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene and one DJ-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000048 ; owl:annotatedTarget "To substitute a subsection of sequence for another."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000506 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000507 ; owl:annotatedTarget "A non functional descendant of an exon, part of a pseudogene."^^xsd:string . [] oboInOwl:hasDbXref "SO:ke"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000049 ; owl:annotatedTarget "To translocate a subsection of sequence."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000508 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, and one J-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000509 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene, one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000510 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including L-part1, V-intron and V-D-exon, with the 5' UTR (SO:0000204) and 3' UTR (SO:0000205)."^^xsd:string . [] oboInOwl:hasDbXref "http://www.imgt.org/cgi-bin/IMGTlect.jv?query=7#"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000511 ; owl:annotatedTarget "Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one J-gene and one C-gene."^^xsd:string . [] oboInOwl:hasDbXref "FB:km"^^xsd:string ; a owl:Axiom ; owl:annotatedProperty obo:IAO_0000115 ; owl:annotatedSource obo:SO_0000512 ; owl:annotatedTarget "A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at one end and presumed to have a deficiency or duplication at the other end of the inversion."^^xsd:string .