U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Cd6 CD6 antigen [ Mus musculus (house mouse) ]

    Gene ID: 12511, updated on 4-Jan-2025

    Summary

    Official Symbol
    Cd6provided by MGI
    Official Full Name
    CD6 antigenprovided by MGI
    Primary source
    MGI:MGI:103566
    See related
    Ensembl:ENSMUSG00000024670 AllianceGenome:MGI:103566
    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
    Summary
    Predicted to enable several functions, including identical protein binding activity; lipopolysaccharide binding activity; and lipoteichoic acid binding activity. Predicted to be involved in several processes, including heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules; lipopolysaccharide-mediated signaling pathway; and positive regulation of macromolecule metabolic process. Predicted to be located in cell surface and immunological synapse. Predicted to be part of T cell receptor complex. Orthologous to human CD6 (CD6 molecule). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Biased expression in thymus adult (RPKM 87.0), spleen adult (RPKM 18.0) and 1 other tissue See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Cd6 in Genome Data Viewer
    Location:
    19 A; 19 7.16 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (10766703..10807427, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (10789339..10830062, complement)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene CD5 antigen 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 CapStarr-seq enhancer MGSCv37_chr19:10903953-10904062 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:10904315-10904608 Neighboring gene STARR-seq mESC enhancer starr_45559 Neighboring gene STARR-positive B cell enhancer ABC_E5688 Neighboring gene solute carrier family 15, member 3 Neighboring gene transmembrane protein 132A Neighboring gene STARR-positive B cell enhancer ABC_E2520 Neighboring gene transmembrane protein 109

    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

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables identical protein binding  
    enables identical protein binding  
    enables lipopolysaccharide binding  
    enables lipopolysaccharide binding  
    enables lipoteichoic acid binding  
    enables lipoteichoic acid binding  
    enables protein binding PubMed 
    enables protein kinase binding  
    enables protein kinase binding  
    Process Evidence Code Pubs
    involved_in acute inflammatory response to antigenic stimulus  
    involved_in acute inflammatory response to antigenic stimulus  
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  
    involved_in immunological synapse formation  
    involved_in immunological synapse formation  
    involved_in lipopolysaccharide-mediated signaling pathway  
    involved_in lipopolysaccharide-mediated signaling pathway  
    involved_in positive regulation of T cell proliferation  
    involved_in positive regulation of T cell proliferation  
    involved_in positive regulation of cytokine production involved in inflammatory response  
    involved_in positive regulation of cytokine production involved in inflammatory response  
    involved_in positive regulation of protein phosphorylation  
    involved_in response to lipopolysaccharide  
    involved_in response to lipopolysaccharide  
    Component Evidence Code Pubs
    part_of T cell receptor complex  
    part_of T cell receptor complex  
    located_in cell surface  
    located_in cell surface  
    located_in immunological synapse  
    located_in immunological synapse  
    located_in plasma membrane  
    located_in plasma membrane  

    General protein information

    Preferred Names
    T-cell differentiation antigen CD6

    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_001037801.2NP_001032890.1  T-cell differentiation antigen CD6 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001032890.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) lacks an in-frame segment in the coding region, compared to variant 2. The resulting protein (isoform 1) is shorter when it is compared to isoform 2.
      Source sequence(s)
      AK030823, BQ553341
      Consensus CDS
      CCDS50391.1
      UniProtKB/TrEMBL
      Q8BJC2
      Related
      ENSMUSP00000046861.9, ENSMUST00000039043.15
      Conserved Domains (2) summary
      smart00202
      Location:160259
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:165259
      SRCR; Scavenger receptor cysteine-rich domain
    2. NM_009852.3NP_033982.3  T-cell differentiation antigen CD6 isoform 2 precursor

      See identical proteins and their annotated locations for NP_033982.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents the longer transcript and encodes the longer protein (isoform 2).
      Source sequence(s)
      AK030823, BQ553341
      Consensus CDS
      CCDS37917.1
      UniProtKB/Swiss-Prot
      Q60679, Q61003, Q61004, Q8BGK1
      UniProtKB/TrEMBL
      Q91WN5
      Related
      ENSMUSP00000079172.6, ENSMUST00000080292.12
      Conserved Domains (2) summary
      smart00202
      Location:160259
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:165259
      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
      10766703..10807427 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036161415.1XP_036017308.1  T-cell differentiation antigen CD6 isoform X2

      UniProtKB/TrEMBL
      Q8BJC2
      Conserved Domains (1) summary
      smart00202
      Location:160259
      SR; Scavenger receptor Cys-rich
    2. XM_006526622.3XP_006526685.1  T-cell differentiation antigen CD6 isoform X1

      UniProtKB/TrEMBL
      Q91WN5
      Conserved Domains (1) summary
      smart00202
      Location:160259
      SR; Scavenger receptor Cys-rich
    External link. Please review our privacy policy.