U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Havcr2 hepatitis A virus cellular receptor 2 [ Mus musculus (house mouse) ]

    Gene ID: 171285, updated on 9-Dec-2024

    Summary

    Official Symbol
    Havcr2provided by MGI
    Official Full Name
    hepatitis A virus cellular receptor 2provided by MGI
    Primary source
    MGI:MGI:2159682
    See related
    Ensembl:ENSMUSG00000020399 AllianceGenome:MGI:2159682
    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
    Tim3; TIM-3; Timd3
    Summary
    Predicted to enable metal ion binding activity. Involved in several processes, including regulation of cytokine production; regulation of defense response; and regulation of leukocyte activation. Located in cell surface; early endosome; and immunological synapse. Is expressed in several structures, including aorta-gonad-mesonephros; gut; liver; lung; and reproductive system. Human ortholog(s) of this gene implicated in hepatocellular carcinoma and renal cell carcinoma. Orthologous to human HAVCR2 (hepatitis A virus cellular receptor 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in spleen adult (RPKM 1.3), lung adult (RPKM 0.8) and 22 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Havcr2 in Genome Data Viewer
    Location:
    11 B1.1; 11 27.9 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (46345758..46372082)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (46454931..46481255)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E1415 Neighboring gene mediator complex subunit 7 Neighboring gene predicted gene 12168 Neighboring gene STARR-seq mESC enhancer starr_29329 Neighboring gene T cell immunoglobulin and mucin domain containing 5 Neighboring gene developmental pluripotency associated 1 family member pseudogene

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    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

    Clone Names

    • MGC124149, MGC124150

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to lipopolysaccharide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in defense response to Gram-positive bacterium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in macrophage activation involved in immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in maternal process involved in female pregnancy IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in maternal process involved in female pregnancy ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in natural killer cell tolerance induction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in natural killer cell tolerance induction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of T cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of T-helper 1 type immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of defense response to bacterium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of granulocyte colony-stimulating factor production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of granulocyte colony-stimulating factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of immune response to tumor cell IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of immunological synapse formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of innate immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of interferon-alpha production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of interferon-alpha production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-2 production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of interleukin-2 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-3 production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of interleukin-3 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-6 production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of myeloid dendritic cell activation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of myeloid dendritic cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of natural killer cell activation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of tumor necrosis factor production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of type I interferon production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of type II interferon production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of type II interferon production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of ERK1 and ERK2 cascade IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of T cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of chemokine production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of cytokine production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of defense response to bacterium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of innate immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of interleukin-1 production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of interleukin-4 production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of interleukin-4 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of macrophage activation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of non-canonical NF-kappaB signal transduction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of tumor necrosis factor production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of type II interferon production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of tolerance induction dependent upon immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in toll-like receptor 3 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in toll-like receptor 7 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in toll-like receptor 9 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in anchoring junction IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell surface ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in early endosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    located_in immunological synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of mediator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    hepatitis A virus cellular receptor 2 homolog
    Names
    HAVcr-2
    T-cell immunoglobulin and mucin domain containing 3
    T-cell immunoglobulin and mucin domain-containing protein 3
    T-cell immunoglobulin mucin receptor 3
    T-cell membrane protein 3
    TIMD-3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_134250.2NP_599011.2  hepatitis A virus cellular receptor 2 homolog precursor

      See identical proteins and their annotated locations for NP_599011.2

      Status: VALIDATED

      Source sequence(s)
      AK148474, AL669948
      Consensus CDS
      CCDS36135.1
      UniProtKB/Swiss-Prot
      Q8VIM0
      UniProtKB/TrEMBL
      Q3KP82
      Related
      ENSMUSP00000020668.9, ENSMUST00000020668.15
      Conserved Domains (2) summary
      smart00410
      Location:26112
      IG_like; Immunoglobulin like
      pfam07686
      Location:29117
      V-set; Immunoglobulin V-set 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_000077.7 Reference GRCm39 C57BL/6J

      Range
      46345758..46372082
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)