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H2-Aa histocompatibility 2, class II antigen A, alpha [ Mus musculus (house mouse) ]

Gene ID: 14960, updated on 9-Dec-2024

Summary

Official Symbol
H2-Aaprovided by MGI
Official Full Name
histocompatibility 2, class II antigen A, alphaprovided by MGI
Primary source
MGI:MGI:95895
See related
Ensembl:ENSMUSG00000036594 AllianceGenome:MGI:95895
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Ia1; H2Aa; Ia-1; H-2Aa; Aalpha; IAalpha; I-Aalpha
Summary
Enables peptide antigen binding activity. Acts upstream of or within antigen processing and presentation of exogenous peptide antigen via MHC class II and positive regulation of T cell differentiation. Located in external side of plasma membrane and lysosome. Part of MHC class II protein complex. Is expressed in central nervous system; retina; and thymus primordium. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); gastrointestinal system cancer (multiple); glomerulonephritis (multiple); hematologic cancer (multiple); and systemic scleroderma (multiple). Orthologous to human HLA-DQA1 (major histocompatibility complex, class II, DQ alpha 1) and HLA-DQA2 (major histocompatibility complex, class II, DQ alpha 2). [provided by Alliance of Genome Resources, Dec 2024]
Expression
Biased expression in spleen adult (RPKM 791.4), large intestine adult (RPKM 638.1) and 14 other tissues See more
Orthologs
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Genomic context

See H2-Aa in Genome Data Viewer
Location:
17 B1; 17 17.98 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (34501718..34506797, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (34282744..34287823, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E7524 Neighboring gene predicted gene 20506 Neighboring gene STARR-positive B cell enhancer ABC_E768 Neighboring gene STARR-positive B cell enhancer ABC_E1193 Neighboring gene STARR-positive B cell enhancer ABC_E8669 Neighboring gene histocompatibility 2, class II antigen A, beta 1 Neighboring gene STARR-positive B cell enhancer ABC_E1194 Neighboring gene STARR-positive B cell enhancer ABC_E2485 Neighboring gene STARR-positive B cell enhancer ABC_E397 Neighboring gene STARR-positive B cell enhancer ABC_E1505 Neighboring gene STARR-positive B cell enhancer ABC_E1940 Neighboring gene STARR-positive B cell enhancer ABC_E957 Neighboring gene STARR-seq mESC enhancer starr_42428 Neighboring gene histocompatibility 2, class II antigen E beta Neighboring gene STARR-positive B cell enhancer ABC_E8670 Neighboring gene STARR-positive B cell enhancer ABC_E8919 Neighboring gene histocompatibility 2, class II antigen E beta2 Neighboring gene STARR-seq mESC enhancer starr_42429

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

General gene information

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables MHC class II protein complex binding  
enables peptide antigen binding  
enables peptide antigen binding PubMed 
enables protein binding PubMed 
enables protein-containing complex binding  
Component Evidence Code Pubs
part_of MHC class II protein complex  
part_of MHC class II protein complex PubMed 
located_in external side of plasma membrane PubMed 
is_active_in late endosome membrane  
is_active_in lysosomal membrane  
located_in lysosome PubMed 
located_in plasma membrane PubMed 

General protein information

Preferred Names
histocompatibility 2, class II antigen A, alpha
Names
H-2 class II histocompatibility antigen, A-B alpha chain
H-2 class II histocompatibility antigen, A-F alpha chain
H-2 class II histocompatibility antigen, A-K alpha chain
H-2 class II histocompatibility antigen, A-Q alpha chain
H-2 class II histocompatibility antigen, A-R alpha chain
H-2 class II histocompatibility antigen, A-S alpha chain
H-2 class II histocompatibility antigen, A-U alpha chain
MHC class II antigen alpha chain
MHC-II I-A(d) alpha
histocompatibility 2, class II antigen A, alpha, promoter 1
major histocompatibility protein class II alpha chain

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_010378.3NP_034508.2  histocompatibility 2, class II antigen A, alpha precursor

    See identical proteins and their annotated locations for NP_034508.2

    Status: VALIDATED

    Source sequence(s)
    AK002532, BY604245, CR974422
    Consensus CDS
    CCDS28645.1
    UniProtKB/Swiss-Prot
    O78195, P01910, P14434
    Related
    ENSMUSP00000046105.7, ENSMUST00000040655.14
    Conserved Domains (3) summary
    cd05767
    Location:113206
    IgC_MHC_II_alpha; Class II major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    pfam00993
    Location:31109
    MHC_II_alpha; Class II histocompatibility antigen, alpha domain
    pfam16196
    Location:204255
    C1-set_C; C1-set C-terminal domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    34501718..34506797 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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