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    Cd84 CD84 antigen [ Mus musculus (house mouse) ]

    Gene ID: 12523, updated on 26-Feb-2013
    Official Symbol
    Cd84provided by MGI
    Official Full Name
    CD84 antigenprovided by MGI
    Primary source
    MGI:1336885
    See related
    Ensembl:ENSMUSG00000038147; Vega:OTTMUSG00000026928
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    CDw84; SLAMF5; A130013D22Rik
    Location :
    1 H3; 1 79.54 cM
    Sequence :
    Chromosome: 1; NC_000067.6 (171839697..171890718)
    See Cd84 in Epigenomics, MapViewer

    Chromosome 1 - NC_000067.6Genomic Context describing neighboring genes Neighboring gene adaptor-related protein complex 3, sigma 1 subunit pseudogene Neighboring gene signaling lymphocytic activation molecule family member 1 Neighboring gene predicted gene 10521 Neighboring gene SLAM family member 6

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details

    Related articles in PubMed

    1. The receptor Ly108 functions as a SAP adaptor-dependent on-off switch for T cell help to B cells and NKT cell development. Kageyama R, et al. Immunity, 2012 Jun 29. PMID 22683125.
    2. Susceptibility loci for the defective foreign protein-induced tolerance in New Zealand Black mice: implication of epistatic effects of Fcgr2b and Slam family genes. Fujii T, et al. Eur J Immunol, 2011 Aug. PMID 21604261.
    3. Mouse CD84 is a pan-leukocyte cell-surface molecule that modulates LPS-induced cytokine secretion by macrophages. Sintes J, et al. J Leukoc Biol, 2010 Oct. PMID 20628063.
    4. Optimal germinal center responses require a multistage T cell:B cell adhesion process involving integrins, SLAM-associated protein, and CD84. Cannons JL, et al. Immunity, 2010 Feb 26. PMID 20153220.
    5. Identification of chromosome intervals from 129 and C57BL/6 mouse strains linked to the development of systemic lupus erythematosus. Heidari Y, et al. Genes Immun, 2006 Oct. PMID 16943797.

    See all (23) citations in PubMed

    See citations in PubMed for homologs of this gene provided by HomoloGene

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. Data show that defective tolerance was observed only in Fcgr2b-deficient mice with autoimmune-type Slam family genes, indicating that epistatic effects of both genes are involved.
      Title: Susceptibility loci for the defective foreign protein-induced tolerance in New Zealand Black mice: implication of epistatic effects of Fcgr2b and Slam family genes.
    2. CD84 is a pan-leukocyte receptor, able to modulate signaling pathways downstream of TLR4, and regulates macrophage cell-fate decisions and effector functions.
      Title: Mouse CD84 is a pan-leukocyte cell-surface molecule that modulates LPS-induced cytokine secretion by macrophages.
    Submit: New GeneRIF Correction
    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Markers

    Genotypes

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    integral to membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    Preferred Names
    SLAM family member 5
    Names
    SLAM family member 5
    leukocyte differentiation antigen CD84
    signaling lymphocytic activation molecule 5

    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_001252472.1 → NP_001239401.1  SLAM family member 5 isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several exons and its transcription extends past a splice site that is used in variant 1, resulting in a novel 3' coding region and 3' UTR compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC091523, BY207887
      Consensus CDS
      CCDS56657.1
      UniProtKB/Swiss-Prot
      Q18PI6
      Conserved Domains (2) summary
      cd05775
      Location:31 – 126
      Blast Score: 248
      Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
      pfam07686
      Location:24 – 105
      Blast Score: 95
      V-set; Immunoglobulin V-set domain

    2. NM_013489.3 → NP_038517.1  SLAM family member 5 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC091523, BY207887
      Consensus CDS
      CCDS15503.1
      UniProtKB/Swiss-Prot
      Q18PI6
      Related
      ENSMUSP00000120881, OTTMUSP00000033388, ENSMUST00000155802, OTTMUST00000066580
      Conserved Domains (3) summary
      cd05775
      Location:31 – 126
      Blast Score: 249
      Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
      pfam07686
      Location:24 – 105
      Blast Score: 89
      V-set; Immunoglobulin V-set domain
      pfam13927
      Location:131 – 194
      Blast Score: 116
      Ig_3; Immunoglobulin domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 103

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

    Reference GRCm38.p1 C57BL/6J

    Genomic

    1. NC_000067.6 Reference GRCm38.p1 C57BL/6J

      Range
      171839697..171890718
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Mm_Celera

    Genomic

    1. AC_000023.1 Alternate Mm_Celera

      Range
      174695682..174739215
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    genomic AAHY01001564.1 (11136..54669) None
    genomic AC091523.23 (82927..133065) None C57BL/6J
    genomic CH466520.2 EDL39052.1 mixed
    mRNA AB196812.1 BAE96315.1 MRL/MpJ
    mRNA AB196813.1 BAE96316.1 NZB/BlNJ
    mRNA AB196814.1 BAE96317.1 NZW/LacJ
    mRNA AB196815.1 BAE96318.1 BXSB/MpJ
    mRNA AF043445.1 AAD02273.1
    mRNA AK037385.1 BAC29799.1 C57BL/6J
    mRNA AK040694.1 BAC30670.1 C57BL/6J
    mRNA AK154834.1 BAE32863.1 NOD
    mRNA AK155531.1 None NOD
    mRNA AK156464.1 BAE33721.1 NOD
    mRNA AK157075.1 BAE33953.1 NOD
    mRNA AK171067.1 BAE42226.1 NOD
    mRNA AK171188.1 None NOD
    mRNA BC140952.1 AAI40953.1
    mRNA BC144736.1 AAI44737.1
    mRNA BY205033.1 None C57BL/6J
    mRNA BY207887.1 None C57BL/6J
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q18PI6.1 GenPept UniProtKB/Swiss-Prot:Q18PI6

    Additional Links

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous

      Supplemental Content

      Table of contents

      Related information

      • Order cDNA clone
        Order cDNA clone
      • BioProjects
        BioProjects related to a gene
      • BioSystems
        BioSystems
      • CCDS
        Links from Gene to CCDS are established if a gene encodes a protein sequence that is a member of a Consensus CDS (CCDS).
      • Conserved Domains
        Conserved Domain Database Links between Entrez Gene and Conserved Domain Database (CDD) are calculated from the domains annotated by the CDD group on Reference Sequence proteins.
      • dbVar
        Link from Gene to dbVar
      • EST
        Link to related EST entry
      • Full text in PMC
        PMC links
      • Full text in PMC_nucleotide
        Full text in PubMedCentral identified from shared sequence links
      • Genome
        Genome records having the gene annotated on corresponding genomic reference sequence.
      • GEO Profiles
        Related GEO
      • HomoloGene
        Links between HomoloGene and Gene are provided by the HomoloGene group when a gene is included in a HomoloGene record.
      • Map Viewer
        These links are maintained by the Map Viewer group and are provided when a GeneID is annotated on a map for the same species.
      • Nucleotide
        Link to related Nucleotide entry
      • Probe
        Related Probe entry
      • Protein
        Link to related protein entry
      • PubChem Compound
        PubChem Compounds
      • PubChem Substance
        PubChem Substances
      • PubMed
        Links between Gene and PubMed are the result of the following: 1. Manual curation within NCBI. Part of the process of generating a REVIEWED RefSeq is an analysis of the current literature. Papers that are seminal in defining the gene, its sequence, and its function are added to the record at that time. Alert users point out gaps or errors in papers associated with a Gene record. These messages are reviewed and implemented as required. 2. Integration of information from other public databases. Gene integrates gene-citation from resources external to NCBI such as model organism-specific databases, Gene Ontology (GO), groups curating interactions, and sequence databases. The assumption in using these source is that they report citations specific to a gene in a known species. Gene does not process citations from OMIM automatically, because many of citations in OMIM refer to studies of genes in species other than human.
      • PubMed (GeneRIF)
        GeneRIF -- Gene Reference Into Function Staff of the Index Section in the National Library of Medicine review the current literature. When they find articles focused on the structure and function of a gene, they write a brief summary of the impact of the paper and make the connection between the citation (PubMed) and Gene. An interface exists for interested users to submit such data as well. http://www.ncbi.nlm.nih.gov/projects/GeneRIF/GeneRIFhelp.html
      • PubMed(nucleotide/PMC)
        Citations in PubMed identified from shared sequence and PMC links.
      • RefSeq Proteins
        Link to Protein RefSeqs
      • RefSeq RNAs
        Link to Nucleotide RefSeq RNAs
      • SNP
        Related SNP records
      • SNP: GeneView
        SNPs linked from GeneView
      • SNP: Genotype
        Gene Genotype Report
      • Taxonomy
        Link to related taxonomy entry
      • UniGene
        Links are provided between Gene and UniGene when both databases calculate links to the same mRNA record (gi).
      • UniSTS
        Related UniSTS records

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