XB-FEAT-12564498: Difference between revisions
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2 different 'collagen type XI alpha 2 chain' genes are annotated on Chromosome 8 in the v10 ''X. tropicalis'' genome: | 2 different 'collagen type XI alpha 2 chain' genes are annotated on Chromosome 8 in the v10 ''X. tropicalis'' genome: | ||
1 | 1) GeneID:448277 on this gene page XB-GENEPAGE-12564498 | ||
2) GeneID:100488265 (not represented on a Xenbase genepage) | |||
Synteny supports the ''X. tropicalis'' GeneID:448277 as the true ortholog of human COL11A2, as it is flanked by a MHC-gene and ''rxrb'': | Synteny supports the ''X. tropicalis'' GeneID:448277 as the true ortholog of human COL11A2, as it is flanked by a MHC-gene and ''rxrb'', and X.tropChr8 GeneID:100488265 as a 2nd col11a2 gene. | ||
Synteny: | Synteny: | ||
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HUMAN Chr6: LOC(UNCH)< '''MHC/HLA-DPA3> HCG24> '''COL11A2'''< RXRB<''' SLC39A7> | HUMAN Chr6: LOC(UNCH)< '''MHC/HLA-DPA3> HCG24> '''COL11A2'''< RXRB<''' SLC39A7> | ||
X.tropChr8 GeneID: | X.tropChr8 GeneID:448277: kifcl< mgc147402< '''rxrb> '''col11a2'''> mhc-dab<''' loc100487257< | ||
X.tropChr8 GeneID: | X.tropChr8 GeneID:100488265: loc(ficolin1b) loc(ficolin1b-like) '''col11a2.2'''> Xb5814630 loc(inkt) loc(nnmt) | ||
This indicates the need for nomenclature change for ''X.trop'' GeneID: | This indicates the need for nomenclature change for ''X.trop'' GeneID:100488265 from ''col11a2 to col11a2.2'', and a new gene page has been requested) for the ''col11a2.2''. | ||
Revision as of 12:12, 1 May 2023
col11a2
This is the community wiki page for the gene col11a2' please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
nomenclature changes
01MAY2023
Xenopus gene symbol was changed from col11a2 to col11a2.2
Xenopus gene name was changed from collagen type XI alpha 2 chain to collagen type XI alpha 2 chain gene 2
orthology and synteny
1MAY2023
2 different 'collagen type XI alpha 2 chain' genes are annotated on Chromosome 8 in the v10 X. tropicalis genome:
1) GeneID:448277 on this gene page XB-GENEPAGE-12564498
2) GeneID:100488265 (not represented on a Xenbase genepage)
Synteny supports the X. tropicalis GeneID:448277 as the true ortholog of human COL11A2, as it is flanked by a MHC-gene and rxrb, and X.tropChr8 GeneID:100488265 as a 2nd col11a2 gene.
Synteny:
HUMAN Chr6: LOC(UNCH)< MHC/HLA-DPA3> HCG24> COL11A2< RXRB< SLC39A7>
X.tropChr8 GeneID:448277: kifcl< mgc147402< rxrb> col11a2> mhc-dab< loc100487257<
X.tropChr8 GeneID:100488265: loc(ficolin1b) loc(ficolin1b-like) col11a2.2> Xb5814630 loc(inkt) loc(nnmt)
This indicates the need for nomenclature change for X.trop GeneID:100488265 from col11a2 to col11a2.2, and a new gene page has been requested) for the col11a2.2.