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

    Gene ID: 14960, updated on 6-Oct-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. Involved in response to interferon-gamma. 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 several human genes including HLA-DQA1 (major histocompatibility complex, class II, DQ alpha 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in spleen adult (RPKM 791.4), large intestine adult (RPKM 638.1) and 14 other tissues See more
    Orthologs
    NEW
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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 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

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables MHC class II protein complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables peptide antigen binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables peptide antigen binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of MHC class II protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of MHC class II protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in late endosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in lysosomal membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in lysosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    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)