XB-FEAT-22166507: Difference between revisions
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=synteny and orthology= | =synteny and orthology= | ||
The ''Xenopus'' ''hepacam2'' gene which is considered the true ortholog of Human HEPACAM2, based on conserved synteny and protein architecture, is found on Chr6/6l/6S in Xenopus | The ''Xenopus'' ''hepacam2'' gene which is considered the true ortholog of Human HEPACAM2, based on conserved synteny and protein architecture, is found on Chr6/6l/6S in ''Xenopus'' | ||
Synteny pattern: | Synteny pattern: | ||
Xenopus | ''Xenopus'' chr6/6L/6S: samd9l .. '''hepacam2''' ... vps50... Loc# ..LOC# ... calcr | ||
human: SAMD9L ... '''HEPACAM2''' ...VPS50 ....// | human: SAMD9L ... '''HEPACAM2''' ...VPS50 ....// | ||
This second 'hepacam2' like gene is found in ''Xenopus'' on chromosomes 1/1L/1S, and it is therefore '''NOT''' the true ortholog of the human HEPACAM2. | This second 'hepacam2' '''like''' gene is found in ''Xenopus'' on chromosomes 1/1L/1S, and it is therefore '''NOT''' the true ortholog of the human HEPACAM2. | ||
''Xenopus'' | ''Xenopus'' Chr1/1L/1S: adissp> ... hspa12b< ... lyrm2< ... '''hepacam2l'''< ... gpr151 ... rnf145l | ||
Revision as of 08:11, 25 April 2023
XB22166507 [provisonal]
This is the community wiki page for the gene XB22166507 [provisional] please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
nomenclature changes
11.30.2020.
This gene 's name was corrected by removing human loci number from the gene name and gene symbol, following notification of the issue by NCBIs refseq coordinator (RSCOM-106).
Name changed from: uncharacterized protein containing Ig superfamily v domain 100492381 [provisional] to uncharacterized protein containing Ig superfamily v domain [provisional]
Symbol changed from ig100492381 to XB22166507 [provisonal]
25April2023
based on DIOPT/homology group analysis of protein by Xenbase curation team:
Symbol changed from XB22166507 [provisonal] to hepacam2' provisional
Gene name changed from 'uncharacterized protein containing Ig superfamily v domain [provisional]' to 'HEPACAM family member 2'
homology of Xtrop protein
uncharacterized protein ig100492381 [Xenopus tropicalis]
NCBI Reference Sequence: XP_002936341.1
>XP_002936341.1 uncharacterized protein ig100492381 [Xenopus tropicalis] MLGTASALLLLPLFILSGSYEAFNISASRSHVRGTQNSSLLLSISYNILPETSWIQIKWDLLDPKTELVR CTIRGPNSSSEEENLSIKTFPPGGFEGRMHIIPENGSLVIHRLAQSDSGIYQVTLRDSKSSASATINVTV EDAKKAITSVWEHVPATPNNTETEMKTQTAPYCFCTSNSSSVSLPTSAGIVLGSRIFTMLITLTIFFCLG METKPPRRNMIRKYYGPTWIQ
DIOPT/EggNogg analysis of this protein identifies it as an ortholog of HEPACAM2 with high confidence, aligning it to the homology group with over 100 other species, including Xtropicalis accession 8364.ENSXETP00000030379
synteny and orthology
The Xenopus hepacam2 gene which is considered the true ortholog of Human HEPACAM2, based on conserved synteny and protein architecture, is found on Chr6/6l/6S in Xenopus
Synteny pattern:
Xenopus chr6/6L/6S: samd9l .. hepacam2 ... vps50... Loc# ..LOC# ... calcr
human: SAMD9L ... HEPACAM2 ...VPS50 ....//
This second 'hepacam2' like gene is found in Xenopus on chromosomes 1/1L/1S, and it is therefore NOT the true ortholog of the human HEPACAM2.
Xenopus Chr1/1L/1S: adissp> ... hspa12b< ... lyrm2< ... hepacam2l< ... gpr151 ... rnf145l