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    Cd4 CD4 antigen [ Mus musculus (house mouse) ]

    Gene ID: 12504, updated on 17-Jul-2024

    Summary

    Official Symbol
    Cd4provided by MGI
    Official Full Name
    CD4 antigenprovided by MGI
    Primary source
    MGI:MGI:88335
    See related
    Ensembl:ENSMUSG00000023274 AllianceGenome:MGI:88335
    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
    L3T4; Ly-4
    Summary
    Predicted to enable several functions, including interleukin-16 binding activity; interleukin-16 receptor activity; and protein homodimerization activity. Involved in helper T cell enhancement of adaptive immune response. Acts upstream of or within several processes, including defense response to Gram-negative bacterium; positive regulation of calcium-mediated signaling; and positive regulation of peptidyl-tyrosine phosphorylation. Located in endoplasmic reticulum; external side of plasma membrane; and membrane raft. Is expressed in several structures, including alimentary system; brain; genitourinary system; hemolymphoid system; and liver and biliary system. Used to study type 1 diabetes mellitus. Human ortholog(s) of this gene implicated in immunodeficiency 79. Orthologous to human CD4 (CD4 molecule). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in thymus adult (RPKM 167.0), spleen adult (RPKM 15.0) and 1 other tissue See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Cd4 in Genome Data Viewer
    Location:
    6 F2; 6 59.17 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (124841656..124865210, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (124864693..124888247, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6487 Neighboring gene prolyl 3-hydroxylase 3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:124812982-124813183 Neighboring gene predicted gene, 32404 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:124814119-124814302 Neighboring gene G protein-coupled receptor 162 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:124829493-124829732 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:124836126-124836313 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:124850419-124850700 Neighboring gene STARR-positive B cell enhancer ABC_E4863 Neighboring gene STARR-positive B cell enhancer ABC_E1710 Neighboring gene lymphocyte-activation gene 3 Neighboring gene RIKEN cDNA A230083G16 gene Neighboring gene parathymosin

    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)

    Pathways from PubChem

    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 binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables MHC class II protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables MHC class II protein complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables coreceptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables immunoglobulin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables interleukin-16 binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables interleukin-16 receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipid binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein tyrosine kinase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein tyrosine kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in T cell activation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of T cell activation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in T cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in T cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in T cell selection ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in T cell selection ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    acts_upstream_of_or_within adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of calcium-mediated signaling IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell surface receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell surface receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to granulocyte macrophage colony-stimulating factor stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cytokine production IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within cytokine production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within defense response to Gram-negative bacterium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in helper T cell enhancement of adaptive immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in interleukin-15-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in interleukin-15-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in macrophage differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within maintenance of protein location in cell ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    acts_upstream_of peptidyl-tyrosine phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of ERK1 and ERK2 cascade IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of ERK1 and ERK2 cascade ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of MAPK cascade ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of T cell activation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of T cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of calcium ion transport into cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of calcium-mediated signaling IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of monocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of peptidyl-tyrosine phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of protein kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of viral entry into host cell ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of T cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of calcium ion transport ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    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 endoplasmic reticulum lumen IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in membrane raft IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane raft ISO
    Inferred from Sequence Orthology
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    T-cell surface glycoprotein CD4
    Names
    T-cell differentiation antigen L3T4
    T-cell surface antigen T4/Leu-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_013488.3NP_038516.1  T-cell surface glycoprotein CD4 precursor

      See identical proteins and their annotated locations for NP_038516.1

      Status: VALIDATED

      Source sequence(s)
      AK153707, AK161775, BX639790
      Consensus CDS
      CCDS20535.1
      UniProtKB/Swiss-Prot
      P06332
      UniProtKB/TrEMBL
      Q3TSV7, Q61396
      Related
      ENSMUSP00000024044.7, ENSMUST00000024044.7
      Conserved Domains (5) summary
      smart00410
      Location:131205
      IG_like; Immunoglobulin like
      pfam05790
      Location:128207
      C2-set; Immunoglobulin C2-set domain
      pfam09191
      Location:212316
      CD4-extracel; CD4, extracellular
      pfam12104
      Location:425452
      Tcell_CD4_C; T cell CD4 receptor C terminal region
      cl11960
      Location:29124
      Ig; Immunoglobulin 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_000072.7 Reference GRCm39 C57BL/6J

      Range
      124841656..124865210 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006505462.2XP_006505525.1  T-cell surface glycoprotein CD4 isoform X2

      UniProtKB/TrEMBL
      Q61396
      Conserved Domains (3) summary
      pfam05790
      Location:317387
      C2-set; Immunoglobulin C2-set domain
      pfam09191
      Location:212316
      CD4-extracel; CD4, extracellular
      cl11960
      Location:29124
      Ig; Immunoglobulin domain
    2. XM_006505461.4XP_006505524.1  T-cell surface glycoprotein CD4 isoform X1

      UniProtKB/TrEMBL
      Q61396
      Conserved Domains (3) summary
      pfam05790
      Location:317387
      C2-set; Immunoglobulin C2-set domain
      pfam09191
      Location:212316
      CD4-extracel; CD4, extracellular
      cl11960
      Location:29124
      Ig; Immunoglobulin domain