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    Cd5 CD5 antigen [ Mus musculus (house mouse) ]

    Gene ID: 12507, updated on 1-Oct-2024

    Summary

    Official Symbol
    Cd5provided by MGI
    Official Full Name
    CD5 antigenprovided by MGI
    Primary source
    MGI:MGI:88340
    See related
    Ensembl:ENSMUSG00000024669 AllianceGenome:MGI:88340
    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
    Ly-1; Ly-A; Ly-12; Lyt-1
    Summary
    Predicted to enable scavenger receptor activity. Acts upstream of or within T cell costimulation and apoptotic signaling pathway. Located in external side of plasma membrane. Is expressed in gut and male reproductive gland or organ. Orthologous to human CD5 (CD5 molecule). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in thymus adult (RPKM 77.3), spleen adult (RPKM 17.0) and 1 other tissue See more
    Orthologs
    NEW
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    Genomic context

    See Cd5 in Genome Data Viewer
    Location:
    19 A; 19 7.16 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (10695471..10716390, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (10718107..10739026, complement)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2210404E10 gene Neighboring gene vacuolar protein sorting 37C Neighboring gene RIKEN cDNA A430093F15 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:10861955-10862189 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:10862842-10863029 Neighboring gene CD6 antigen Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:10903953-10904062 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:10904315-10904608

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in T cell costimulation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within T cell costimulation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within apoptotic signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    T-cell surface glycoprotein CD5
    Names
    lymphocyte antigen 1

    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_007650.3NP_031676.3  T-cell surface glycoprotein CD5 precursor

      See identical proteins and their annotated locations for NP_031676.3

      Status: VALIDATED

      Source sequence(s)
      AC132247, AI528619, AK143736
      Consensus CDS
      CCDS29586.1
      UniProtKB/Swiss-Prot
      P13379
      UniProtKB/TrEMBL
      Q3UP78, Q91X69
      Related
      ENSMUSP00000025571.8, ENSMUST00000025571.9
      Conserved Domains (2) summary
      smart00202
      Location:34133
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:168268
      SRCR; Scavenger receptor cysteine-rich 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_000085.7 Reference GRCm39 C57BL/6J

      Range
      10695471..10716390 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006526621.2XP_006526684.1  T-cell surface glycoprotein CD5 isoform X1

      UniProtKB/TrEMBL
      A0A494BB49
      Related
      ENSMUSP00000158313.2, ENSMUST00000238167.2
      Conserved Domains (1) summary
      smart00202
      Location:34133
      SR; Scavenger receptor Cys-rich