XB-FEAT-22249070: Difference between revisions
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This new genepage was created following a review of astacin-like metalloproteinase genes. See RSCOM-64 and RS-COM50 in RefSeq Communication/JIRA for full discussion. Feel free to record here any information now represented elsewhere on Xenbase. | |||
Summary of assessment: | |||
There's a tandem pair of astacin-like genes genes ( *1 and *2 below) that are common to tetrapods but have been lost in mammals. | |||
Their gene order is fairly well-conserved so orthology across tetrapods is easy to establish. | |||
The general gene order in coelocanth, caecilians and ancestral reptiles is <CRY2 <SLC35C1 CHST1> <TMEM263L *1> <*2 SYT13> <PRDM11. | |||
Frogs have broken synteny on one end of this chr 4 gene block: <ACCS <?? *1> <*2 SYT13> <PRDM11. | |||
Birds have broken this synteny block in two: <CRY2 <SLC35C1 CHST1> <TMEM263L *1> and <*2 SYT13> <PRDM11. | |||
Placental mammals have lost these two genes and TMEM263L but otherwise they retain the gene synteny of <CRY2 <SLC35C1 CHST1> SYT13> <PRDM11. | |||
Different gene models/annotations were moved between gene pages to crest this genepage, as follows: | |||
''X. tropicalis'': GeneID: 100496122, gene model gene23854 (previously called ''syt13'') | |||
''X. laevis. L'': GeneID: 108713451, gene model gene 49793 (previously called LOC108713451 prov. astl) | |||
''X. laevis.S'': GeneID: 108715268, gene model gene2799 (previously called ''syt13.S'') | |||
Revision as of 12:51, 28 July 2020
accsl2
This new genepage was created following a review of astacin-like metalloproteinase genes. See RSCOM-64 and RS-COM50 in RefSeq Communication/JIRA for full discussion. Feel free to record here any information now represented elsewhere on Xenbase.
Summary of assessment: There's a tandem pair of astacin-like genes genes ( *1 and *2 below) that are common to tetrapods but have been lost in mammals.
Their gene order is fairly well-conserved so orthology across tetrapods is easy to establish.
The general gene order in coelocanth, caecilians and ancestral reptiles is <CRY2 <SLC35C1 CHST1> <TMEM263L *1> <*2 SYT13> <PRDM11.
Frogs have broken synteny on one end of this chr 4 gene block: <ACCS <?? *1> <*2 SYT13> <PRDM11.
Birds have broken this synteny block in two: <CRY2 <SLC35C1 CHST1> <TMEM263L *1> and <*2 SYT13> <PRDM11.
Placental mammals have lost these two genes and TMEM263L but otherwise they retain the gene synteny of <CRY2 <SLC35C1 CHST1> SYT13> <PRDM11.
Different gene models/annotations were moved between gene pages to crest this genepage, as follows:
X. tropicalis: GeneID: 100496122, gene model gene23854 (previously called syt13)
X. laevis. L: GeneID: 108713451, gene model gene 49793 (previously called LOC108713451 prov. astl)
X. laevis.S: GeneID: 108715268, gene model gene2799 (previously called syt13.S)