XB-FEAT-5889258

mhc2-daa.2

This is the community wiki page for the gene mhc2-daa.2 please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase

nomenclature changes

18AUGUST2022

Xenopus MHC genes are currenly under nomenclature review by HGNC/VGNC. Current names are considered provisional.

gene symbol changed from hla-dqa2 to mhc2-daa

gene name changed from 'major histocompatibility complex, class II, DQ alpha 2' to 'major histocompatibility complex, class II, DA alpha'

18SEPT2023

Although these gene models (Xtrop GENEID:733992 and Xlaevis GENEID:779169) are not in the current v10 assembly, alignment of the proteins for X. laevis accession from v10 and v6.0 ( done using NCBIs COBALT tool ) and the phylogenetic tree/cladogram from these Xla proteins, show that these are very unlikely to be coding for the same gene.

File:Undefined.pdf

Cladogram produced in COBALT MSA program, 09.18.23

File:Mhc2.daa.2 msa

Therefore, I have provisionally added a 'gene 2 ' suffix to this gene page to distinguish it from mhc2-daa on XB-GENEPAGE-5999631

Protein Accessions & Sequences in FASTA format

Xlaevis seqs

>XBmRNA66883_Xlav10 MRSGEMISVCALLVLGLKASDAVTVDYIDYGAMFYQTYGPSGEYLMDYNGNELFHVDLESKSVVWTLPGLEKYTSFDPQGGLQQINVAKYNVDGYKKSRNSTPATSIPPLISLYAAKPVVLGEPNILICCVNNIFPPVMSTTWFKNGQKISDGFSETSYLPAQDHSFSRLHYLAFLPNEHDIYTCEVEHWGLEKPTRRIWEHEAPTPISEAYQNVICALGLAVGIIGIIAGVMLIIKGMKQSAAQGRSQR*

>lXelaev16058833m-Xlav7.2 MISVCALLVLGLKASDAVTVDYIDYGAMFYQTYGPSGEYLMDYNGNELFHVDLESKSVVWTLPGLEKYTSFDPQGGLQQINVAKYNVDGYKKSRNSTPATSIPPLISLYAAKPVVLGEPNILICCVNNIFPPVMSTTWFKNGQKISDGFSETSYLPAQDHSFSRLHYLAFLPNEHDIYTCEVEHWGLEKPTRRIWEHEAPTPISEAYQNVICALGLAVGIIGIIAGVMLIIKGMKQSAAQGRSQR*

>rna51160_Xla_v9.2 MRSGEMISVCALLVLGLKASDAVTVDYIDYGAMFYQTYGPSGEYLMDYNGNELFHVDLESKSVVWTLPGLEKYTSFDPQGGLQQINVAKYNVDGYKKSRNSTPATSIPPLISLYAAKPVVLGEPNILICCVNNIFPPVMSTTWFKNGQKISDGFSETSYLPAQDHSFSRLHYLAFLPNEHDIYTCEVEHWGLEKPTRRIWEHEAPTPISEAYQNVICALGLAVGIIGIIAGVMLIIKGMKQSAAQGRSQR*

>AAH84644|NCBI Protein_Xla_mhc2-daa_Scaffold279844_v6.0 MVPVCALLVLLLKASEAVTVDYFDYGADYYQTYGPSGQYLFDYNGNEMFHVDLESKSVVWTLPGLEKYASFDPQGGLQDINIAKYNLDIRIKRSNRTVAPNIPPLVSVYISNPVVLGEPNILICCTKNIFPPVMNTTWIKNGEIIREGFKETSYLPAQDGTFRKLHYLAFIPNDHDIYTCEVEHWGLEKPTKRIWKHEGSTPISEAYQNVICALGLAVGIIGIIAGVMLIIKGMKQSTAQGRNQR

>NP_001090263|RefSeq_Xla_Scaffold279844_v6.0 MVPVCALLVLLLKASEAVTVDYFDYGADYYQTYGPSGQYLFDYNGNEMFHVDLESKSVVWTLPGLEKYASFDPQGGLQDINIAKYNLDIRIKRSNRTVAPNIPPLVSVYISNPVVLGEPNILICCTKNIFPPVMNTTWIKNGEIIREGFKETSYLPAQDGTFRKLHYLAFIPNDHDIYTCEVEHWGLEKPTKRIWKHEGSTPISEAYQNVICALGLAVGIIGIIAGVMLIIKGMKQSTAQGRNQR

>XeXenL6RMv10024389m_Xla_mhc2-daa_Scaffold279844_v6.0x PPLVSVYISNAVVLGEPNILICCTKNIFPPVMNTTWIKNGEIIRGFKETSYLPAQDGTFRKLHYLAFIPNDHDIYTCEVEHWGLERPTKRIWSKYCTLLLQI*

>XeXenL6RMv10043591m_Xlav6.0 MSTTWFKNGQKISDGFSETSYLPAQDHSFSRLHYLAFLPNEHDIYTCEVEHWGLEKPTRRIWGKYVN*

X . tropicalis Seqs

>Novel protein similar to MHC class II antigen alpha chain [Xenopus tropicalis_GENEID:733992_v7.1] MLLLCALLALALKPSEAATVDCFDYGAEFYQTRRPTGEYLFDYNGNEMFHVDLESKSVVWTLPGLEKTASFDPQAALQDISVMKFSLDVFK

>Xetro.F00205.1[JGI_Xtrop_mhc.daa.2 model] MLLLCALLALALKPSEAATVDCFDYGAEFYQTRRPTGEYLFDYNGNEMFHVDLESKSVVWTLPGLEKTASFDPQAALQDISVMKFSLDVCMKISNTTAATNS*

>CAJ83087|NCBI Protein_Xtrop.mhc2-daa.2 MLLLCALLALALKPSEAATVDCFDYGAEFYQTRRPTGEYLFDYNGNEMFHVDLESKSVVWTLPGLEKTASFDPQAALQDISVMKFSLDVFK