Difference between revisions of "XB-FEAT-22249070"

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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.
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Summary of assessment:
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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.
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Their gene order is fairly well-conserved so orthology across tetrapods is easy to establish.
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The general gene order in coelocanth, caecilians and ancestral reptiles is <CRY2 <SLC35C1 CHST1> <TMEM263L *1> <*2 SYT13> <PRDM11.
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Frogs have broken synteny on one end of this chr 4 gene block: <ACCS <?? *1> <*2 SYT13> <PRDM11.
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Birds have broken this synteny block in two: <CRY2 <SLC35C1 CHST1> <TMEM263L *1> and <*2 SYT13> <PRDM11.
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Placental mammals have lost these two genes and TMEM263L but otherwise they retain the gene synteny of <CRY2 <SLC35C1 CHST1> SYT13> <PRDM11.
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Different gene models/annotations were moved between gene pages to create this ''accsl2'' genepage, as follows:
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''X. tropicalis'': GeneID: 100496122, gene model gene23854 (previously called ''syt13'')
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''X. laevis. L'': GeneID: 108713451, gene model gene 49793 (previously called LOC108713451 prov. astl)
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''X. laevis.S'': GeneID: 108715268, gene model gene2799 (previously called ''syt13.S'')

Latest revision as of 19:53, 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 create this accsl2 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)