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{{UBERON
{{UBERON
|id=UBERON:0004128
|alt_id=
|name=optic vesicle
|namespace=
|def="The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." [GO:0003404, Wikipedia:Optic_vesicles]
|xref=AAO:0011039;;EHDAA2:0001320;;EMAPA:16540;;http://upload.wikimedia.org/wikipedia/commons/thumb/e/e0/Gray863.png/200px-Gray863.png;;ncithesaurus:Optic_Vesicle;;SCTID:362864008;;TAO:0000050;;VHOG:0000165;;XAO:0000228;;ZFA:0000050
|is_a=UBERON:0000479;;UBERON:0004121
|synonym="evagination" RELATED []
|comment=Genes: Six3, Pax6, Rx1 are expressed together in the tip of the neural plate [ISBN:9780878932504 "Developmental Biology"]. Development notes: During subsequent develop- ment, the optic vesicle invaginates and becomes a two-layered structure with an inner neural retina and outer retinal pigment epithelium. As soon as the developing optic vesicle makes contact with the overlying ectoderm, it induces the ectoderm to thicken and form the lens placode PMID:16496288
|comment=Genes: Six3, Pax6, Rx1 are expressed together in the tip of the neural plate [ISBN:9780878932504 "Developmental Biology"]. Development notes: During subsequent develop- ment, the optic vesicle invaginates and becomes a two-layered structure with an inner neural retina and outer retinal pigment epithelium. As soon as the developing optic vesicle makes contact with the overlying ectoderm, it induces the ectoderm to thicken and form the lens placode PMID:16496288
|alt_id=
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." [GO:0003404, Wikipedia:Optic_vesicles]
|subset=vertebrate_core
|derives_from=
|derives_from=
|develops_from=UBERON:0003071
|develops_from=UBERON:0002346;;UBERON:0003071
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0004128
|is_a=UBERON:0000479 ;;UBERON:0004121
|is_obsolete=
|located_in=
|located_in=
|name=optic vesicle
|namespace=FANTOM
|obo_creation_date=
|part_of=UBERON:0010312
|part_of=UBERON:0010312
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|is_obsolete=
|subset=vertebrate_core
|preceded_by=
|synonym="evagination" RELATED []
|union_of=
|xref=AAO:0011039;;EHDAA2:0001320;;EMAPA:16540;;http://upload.wikimedia.org/wikipedia/commons/thumb/e/e0/Gray863.png/200px-Gray863.png;;ncithesaurus:Optic_Vesicle;;SCTID:362864008;;TAO:0000050;;VHOG:0000165;;XAO:0000228;;ZFA:0000050
}}
}}

Latest revision as of 17:43, 12 September 2014

Name:optic vesicle
Namespace:FANTOM
Definition:"The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." [GO:0003404, Wikipedia:Optic_vesicles]
Xrefs:
links:

AAO:0011039
EHDAA2:0001320
EMAPA:16540
[ 200px-Gray863.png 200px-Gray863.png]
ncithesaurus:Optic_Vesicle
SCTID:362864008
TAO:0000050
VHOG:0000165
XAO:0000228

ZFA:0000050
Synonyms: "evagination" RELATED []
Comments:Genes: Six3, Pax6, Rx1 are expressed together in the tip of the neural plate [ISBN:9780878932504 "Developmental Biology"]. Development notes: During subsequent develop- ment, the optic vesicle invaginates and becomes a two-layered structure with an inner neural retina and outer retinal pigment epithelium. As soon as the developing optic vesicle makes contact with the overlying ectoderm, it induces the ectoderm to thicken and form the lens placode PMID:16496288
Subset: vertebrate_core

Ontology association<br>Each term has an is_a parent in the Uberon Ontology, which has a linkage to an another entity and FANTOM5 samples.Libraries were grouped into mutually exclusive facets according to the FANTOM5 sample ontology mapping to UBERON ontologies.<br><br>link to ontology dataset<br>data

Parents

is_a:UBERON:0000479(tissue),UBERON:0004121(ectoderm-derived structure)
develops_from:UBERON:0002346(neurectoderm),UBERON:0003071(eye primordium)
part_of:UBERON:0010312(immature eye)



Children

develops from:UBERON:0001769 (iris),UBERON:0003072 (optic cup)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)

FF samples<br>It includes FANTOM5 samples that overlay the Uberon ontology



Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0004128 (optic vesicle), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
1.31e-86FFCP PHASE1:Mm9::chr2:90827760..90827769,+#_081e6863227a6e39750b1a0122c57c6fp6@Celf1
1.31e-86FFCP PHASE1:Mm9::chr17:31818106..31818119,+#_081e6863227a6e39750b1a0122c57c6fp@chr17:31818106..31818119, +
1.31e-86FFCP PHASE2:Mm9::chr11:77532283..77532316,-#_081e6863227a6e39750b1a0122c57c6fp@chr11:77532283..77532316, -
1.31e-86FFCP PHASE1:Mm9::chr16:21743134..21743139,-#_081e6863227a6e39750b1a0122c57c6fp@chr16:21743134..21743139, -
1.31e-86FFCP PHASE2:Mm9::chr11:3622192..3622225,-#_081e6863227a6e39750b1a0122c57c6fp3@Osbp2
1.31e-86FFCP PHASE2:Mm9::chr10:127668442..127668453,+#_081e6863227a6e39750b1a0122c57c6fp@chr10:127668442..127668453, +
1.31e-86FFCP PHASE2:Mm9::chr2:90827760..90827769,+#_081e6863227a6e39750b1a0122c57c6fp6@Celf1
1.31e-86FFCP PHASE1:Mm9::chr11:3622163..3622187,-#_081e6863227a6e39750b1a0122c57c6fp8@Osbp2
1.31e-86FFCP PHASE2:Mm9::chr17:31818263..31818276,+#_081e6863227a6e39750b1a0122c57c6fp@chr17:31818263..31818276, +
1.31e-86FFCP PHASE1:Mm9::chr11:77532391..77532408,-#_081e6863227a6e39750b1a0122c57c6fp@chr11:77532391..77532408, -
1.31e-86FFCP PHASE1:Mm9::chr4:133799669..133799683,+#_081e6863227a6e39750b1a0122c57c6fp1@E130218I03Rik
1.31e-86FFCP PHASE1:Mm9::chr17:31815126..31815139,-#_081e6863227a6e39750b1a0122c57c6fp@chr17:31815126..31815139, -
1.31e-86FFCP PHASE1:Mm9::chr11:3622192..3622225,-#_081e6863227a6e39750b1a0122c57c6fp3@Osbp2
1.31e-86FFCP PHASE2:Mm9::chr10:67364011..67364018,-#_081e6863227a6e39750b1a0122c57c6fp5@Zfp365
1.31e-86FFCP PHASE2:Mm9::chr17:31815126..31815139,-#_081e6863227a6e39750b1a0122c57c6fp@chr17:31815126..31815139, -
1.31e-86FFCP PHASE2:Mm9::chr17:31818106..31818119,+#_081e6863227a6e39750b1a0122c57c6fp@chr17:31818106..31818119, +
1.31e-86FFCP PHASE1:Mm9::chr11:77532283..77532316,-#_081e6863227a6e39750b1a0122c57c6fp@chr11:77532283..77532316, -
1.31e-86FFCP PHASE2:Mm9::chr4:133799669..133799683,+#_081e6863227a6e39750b1a0122c57c6fp1@E130218I03Rik
1.31e-86FFCP PHASE1:Mm9::chr17:31817987..31818013,+#_081e6863227a6e39750b1a0122c57c6fp@chr17:31817987..31818013, +
1.31e-86FFCP PHASE2:Mm9::chr14:118451218..118451221,-#_081e6863227a6e39750b1a0122c57c6fp4@Dct
1.31e-86FFCP PHASE2:Mm9::chr11:3622163..3622187,-#_081e6863227a6e39750b1a0122c57c6fp8@Osbp2
1.31e-86FFCP PHASE1:Mm9::chr14:118451218..118451221,-#_081e6863227a6e39750b1a0122c57c6fp4@Dct
1.31e-86FFCP PHASE1:Mm9::chr10:127668442..127668453,+#_081e6863227a6e39750b1a0122c57c6fp@chr10:127668442..127668453, +
1.31e-86FFCP PHASE1:Mm9::chr3:129525389..129525400,-#_081e6863227a6e39750b1a0122c57c6fp@chr3:129525389..129525400, -
1.31e-86FFCP PHASE1:Mm9::chr9:89697580..89697585,-#_081e6863227a6e39750b1a0122c57c6fp1@Mir184
1.31e-86FFCP PHASE1:Mm9::chr17:31818263..31818276,+#_081e6863227a6e39750b1a0122c57c6fp@chr17:31818263..31818276, +
1.31e-86FFCP PHASE2:Mm9::chr17:31817987..31818013,+#_081e6863227a6e39750b1a0122c57c6fp@chr17:31817987..31818013, +
1.31e-86FFCP PHASE2:Mm9::chr16:21743134..21743139,-#_081e6863227a6e39750b1a0122c57c6fp@chr16:21743134..21743139, -
1.31e-86FFCP PHASE1:Mm9::chr10:67364011..67364018,-#_081e6863227a6e39750b1a0122c57c6fp5@Zfp365
1.31e-86FFCP PHASE2:Mm9::chr11:77532391..77532408,-#_081e6863227a6e39750b1a0122c57c6fp@chr11:77532391..77532408, -
1.31e-86FFCP PHASE2:Mm9::chr3:129525389..129525400,-#_081e6863227a6e39750b1a0122c57c6fp@chr3:129525389..129525400, -
1.31e-86FFCP PHASE2:Mm9::chr9:89697580..89697585,-#_081e6863227a6e39750b1a0122c57c6fp1@Mir184
2.3e-78FFCP PHASE1:Mm9::chr10:127668637..127668650,+#_6b5b733c81d23353b222115c18812150p3@LOC100504989, p3@Timeless
2.3e-78FFCP PHASE2:Mm9::chr10:127668637..127668650,+#_6b5b733c81d23353b222115c18812150p3@LOC100504989, p3@Timeless
2.3e-78FFCP PHASE2:Mm9::chr7:64675015..64675028,+#_6b5b733c81d23353b222115c18812150p@chr7:64675015..64675028, +
2.3e-78FFCP PHASE1:Mm9::chr7:64675015..64675028,+#_6b5b733c81d23353b222115c18812150p@chr7:64675015..64675028, +
2.82e-78FFCP PHASE2:Mm9::chr6:97891135..97891147,+#_1d3f4e8da18b9890b27d634a2a7aa446p@chr6:97891135..97891147, +
2.82e-78FFCP PHASE1:Mm9::chr6:97891135..97891147,+#_1d3f4e8da18b9890b27d634a2a7aa446p@chr6:97891135..97891147, +
2.82e-78FFCP PHASE1:Mm9::chr2:105509100..105509107,+#_1d3f4e8da18b9890b27d634a2a7aa446p6@Pax6
2.82e-78FFCP PHASE2:Mm9::chr2:105509100..105509107,+#_1d3f4e8da18b9890b27d634a2a7aa446p6@Pax6
3.46e-78FFCP PHASE1:Mm9::chr14:49498256..49498278,+#_853aae653feee41b5307b0b9aeb8a1acp1@4933429O19Rik
3.46e-78FFCP PHASE2:Mm9::chr14:49498256..49498278,+#_853aae653feee41b5307b0b9aeb8a1acp1@4933429O19Rik
4.97e-77FFCP PHASE2:Mm9::chr7:28282354..28282365,+#_86194975a725ddb50b763593c96cbad4p@chr7:28282354..28282365, +
4.97e-77FFCP PHASE1:Mm9::chr5:112681470..112681483,-#_86194975a725ddb50b763593c96cbad4p@chr5:112681470..112681483, -
4.97e-77FFCP PHASE2:Mm9::chr5:113506006..113506025,-#_86194975a725ddb50b763593c96cbad4p@chr5:113506006..113506025, -
4.97e-77FFCP PHASE1:Mm9::chr5:112698505..112698537,-#_86194975a725ddb50b763593c96cbad4p@chr5:112698505..112698537, -
4.97e-77FFCP PHASE2:Mm9::chr3:34488839..34488876,+#_86194975a725ddb50b763593c96cbad4p1@ENSMUST00000173365
4.97e-77FFCP PHASE1:Mm9::chr3:129525405..129525428,-#_86194975a725ddb50b763593c96cbad4p1@Rrh
4.97e-77FFCP PHASE1:Mm9::chr8:77582194..77582219,+#_86194975a725ddb50b763593c96cbad4p@chr8:77582194..77582219, +
4.97e-77FFCP PHASE2:Mm9::chr5:112690744..112690755,+#_86194975a725ddb50b763593c96cbad4p@chr5:112690744..112690755, +
4.97e-77FFCP PHASE1:Mm9::chr10:93761330..93761358,-#_86194975a725ddb50b763593c96cbad4p1@Gm4792
4.97e-77FFCP PHASE1:Mm9::chr2:93906955..93906973,-#_86194975a725ddb50b763593c96cbad4p2@Hsd17b12
4.97e-77FFCP PHASE1:Mm9::chr5:112690744..112690755,+#_86194975a725ddb50b763593c96cbad4p@chr5:112690744..112690755, +
4.97e-77FFCP PHASE2:Mm9::chr8:77582194..77582219,+#_86194975a725ddb50b763593c96cbad4p@chr8:77582194..77582219, +
4.97e-77FFCP PHASE2:Mm9::chr5:112675556..112675574,-#_86194975a725ddb50b763593c96cbad4p@chr5:112675556..112675574, -
4.97e-77FFCP PHASE2:Mm9::chr17:31816514..31816526,+#_86194975a725ddb50b763593c96cbad4p@chr17:31816514..31816526, +
4.97e-77FFCP PHASE1:Mm9::chr1:65147224..65147236,-#_86194975a725ddb50b763593c96cbad4p@chr1:65147224..65147236, -
4.97e-77FFCP PHASE2:Mm9::chr1:65146997..65147021,-#_86194975a725ddb50b763593c96cbad4p@chr1:65146997..65147021, -
4.97e-77FFCP PHASE2:Mm9::chr16:56204438..56204451,+#_86194975a725ddb50b763593c96cbad4p1@Impg2
4.97e-77FFCP PHASE2:Mm9::chr3:129525405..129525428,-#_86194975a725ddb50b763593c96cbad4p1@Rrh
4.97e-77FFCP PHASE1:Mm9::chr17:31816584..31816600,+#_86194975a725ddb50b763593c96cbad4p@chr17:31816584..31816600, +
4.97e-77FFCP PHASE1:Mm9::chr11:95705150..95705170,+#_86194975a725ddb50b763593c96cbad4p3@Gngt2
4.97e-77FFCP PHASE1:Mm9::chr17:31818629..31818644,+#_86194975a725ddb50b763593c96cbad4p@chr17:31818629..31818644, +
4.97e-77FFCP PHASE2:Mm9::chr1:38092538..38092550,+#_86194975a725ddb50b763593c96cbad4p@chr1:38092538..38092550, +
4.97e-77FFCP PHASE2:Mm9::chr5:112698505..112698537,-#_86194975a725ddb50b763593c96cbad4p@chr5:112698505..112698537, -
4.97e-77FFCP PHASE1:Mm9::chr5:113506006..113506025,-#_86194975a725ddb50b763593c96cbad4p@chr5:113506006..113506025, -
4.97e-77FFCP PHASE2:Mm9::chr17:31816584..31816600,+#_86194975a725ddb50b763593c96cbad4p@chr17:31816584..31816600, +
4.97e-77FFCP PHASE1:Mm9::chr14:52730585..52730607,+#_86194975a725ddb50b763593c96cbad4p1@Rpgrip1
4.97e-77FFCP PHASE1:Mm9::chr1:65146997..65147021,-#_86194975a725ddb50b763593c96cbad4p@chr1:65146997..65147021, -
4.97e-77FFCP PHASE1:Mm9::chr1:65149656..65149674,-#_86194975a725ddb50b763593c96cbad4p2@Cryga
4.97e-77FFCP PHASE1:Mm9::chr3:129525435..129525448,-#_86194975a725ddb50b763593c96cbad4p2@Rrh
4.97e-77FFCP PHASE1:Mm9::chr17:31818215..31818239,-#_86194975a725ddb50b763593c96cbad4p@chr17:31818215..31818239, -
4.97e-77FFCP PHASE1:Mm9::chr9:107964319..107964338,-#_86194975a725ddb50b763593c96cbad4p11@Rnf123
4.97e-77FFCP PHASE1:Mm9::chr5:112692580..112692595,+#_86194975a725ddb50b763593c96cbad4p@chr5:112692580..112692595, +
4.97e-77FFCP PHASE2:Mm9::chr10:127668480..127668491,+#_86194975a725ddb50b763593c96cbad4p@chr10:127668480..127668491, +
4.97e-77FFCP PHASE2:Mm9::chr5:112688342..112688357,+#_86194975a725ddb50b763593c96cbad4p@chr5:112688342..112688357, +
4.97e-77FFCP PHASE2:Mm9::chr6:115162924..115162933,+#_86194975a725ddb50b763593c96cbad4p@chr6:115162924..115162933, +
4.97e-77FFCP PHASE1:Mm9::chr5:112688342..112688357,+#_86194975a725ddb50b763593c96cbad4p@chr5:112688342..112688357, +
4.97e-77FFCP PHASE2:Mm9::chr5:113506190..113506202,-#_86194975a725ddb50b763593c96cbad4p@chr5:113506190..113506202, -
4.97e-77FFCP PHASE1:Mm9::chr11:77532270..77532280,-#_86194975a725ddb50b763593c96cbad4p@chr11:77532270..77532280, -
4.97e-77FFCP PHASE1:Mm9::chr10:127668686..127668697,+#_86194975a725ddb50b763593c96cbad4p4@LOC100504989, p4@Timeless
4.97e-77FFCP PHASE2:Mm9::chr15:36655026..36655032,+#_86194975a725ddb50b763593c96cbad4p@chr15:36655026..36655032, +
4.97e-77FFCP PHASE1:Mm9::chr14:49501519..49501530,-#_86194975a725ddb50b763593c96cbad4p@chr14:49501519..49501530, -
4.97e-77FFCP PHASE2:Mm9::chr5:112690963..112690994,+#_86194975a725ddb50b763593c96cbad4p@chr5:112690963..112690994, +
4.97e-77FFCP PHASE1:Mm9::chr1:152166537..152166579,+#_86194975a725ddb50b763593c96cbad4p1@Pdc
4.97e-77FFCP PHASE2:Mm9::chr3:129525435..129525448,-#_86194975a725ddb50b763593c96cbad4p2@Rrh
4.97e-77FFCP PHASE1:Mm9::chr17:31817947..31817965,+#_86194975a725ddb50b763593c96cbad4p@chr17:31817947..31817965, +
4.97e-77FFCP PHASE1:Mm9::chr5:112690963..112690994,+#_86194975a725ddb50b763593c96cbad4p@chr5:112690963..112690994, +
4.97e-77FFCP PHASE1:Mm9::chr6:115162924..115162933,+#_86194975a725ddb50b763593c96cbad4p@chr6:115162924..115162933, +
4.97e-77FFCP PHASE1:Mm9::chr15:36655026..36655032,+#_86194975a725ddb50b763593c96cbad4p@chr15:36655026..36655032, +
4.97e-77FFCP PHASE2:Mm9::chr5:113507470..113507483,-#_86194975a725ddb50b763593c96cbad4p@chr5:113507470..113507483, -
4.97e-77FFCP PHASE2:Mm9::chr5:112686483..112686494,+#_86194975a725ddb50b763593c96cbad4p@chr5:112686483..112686494, +
4.97e-77FFCP PHASE2:Mm9::chr5:112692580..112692595,+#_86194975a725ddb50b763593c96cbad4p@chr5:112692580..112692595, +
4.97e-77FFCP PHASE1:Mm9::chr3:129525452..129525463,-#_86194975a725ddb50b763593c96cbad4p3@Rrh
4.97e-77FFCP PHASE2:Mm9::chr17:31818629..31818644,+#_86194975a725ddb50b763593c96cbad4p@chr17:31818629..31818644, +
4.97e-77FFCP PHASE2:Mm9::chr14:49501519..49501530,-#_86194975a725ddb50b763593c96cbad4p@chr14:49501519..49501530, -
4.97e-77FFCP PHASE1:Mm9::chr7:29477874..29477889,+#_86194975a725ddb50b763593c96cbad4p6@Fbxo27
4.97e-77FFCP PHASE1:Mm9::chr5:113507470..113507483,-#_86194975a725ddb50b763593c96cbad4p@chr5:113507470..113507483, -
4.97e-77FFCP PHASE2:Mm9::chr1:152166537..152166579,+#_86194975a725ddb50b763593c96cbad4p1@Pdc
4.97e-77FFCP PHASE1:Mm9::chr10:127668799..127668810,+#_86194975a725ddb50b763593c96cbad4p5@LOC100504989, p5@Timeless

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