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    CRTAM cytotoxic and regulatory T cell molecule [ Homo sapiens (human) ]

    Gene ID: 56253, updated on 27-Nov-2024

    Summary

    Official Symbol
    CRTAMprovided by HGNC
    Official Full Name
    cytotoxic and regulatory T cell moleculeprovided by HGNC
    Primary source
    HGNC:HGNC:24313
    See related
    Ensembl:ENSG00000109943 MIM:612597; AllianceGenome:HGNC:24313
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CD355
    Summary
    The CRTAM gene is upregulated in CD4 (see MIM 186940)-positive and CD8 (see CD8A; MIM 186910)-positive T cells and encodes a type I transmembrane protein with V and C1-like Ig domains (Yeh et al., 2008 [PubMed 18329370]).[supplied by OMIM, Feb 2009]
    Expression
    Biased expression in lymph node (RPKM 4.2), spleen (RPKM 1.7) and 11 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See CRTAM in Genome Data Viewer
    Location:
    11q24.1
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (122838500..122872643)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (122866290..122900405)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (122709208..122743351)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:122489240-122489740 Neighboring gene Sharpr-MPRA regulatory region 14714 Neighboring gene glutamate-ammonia ligase pseudogene 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:122526335-122526836 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4009 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:122541852-122542352 Neighboring gene ubiquitin associated and SH3 domain containing B Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:122558486-122558986 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5668 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:122615185-122616152 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5669 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:122625977-122626130 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:122673978-122674720 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:122675524-122676042 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:122683300-122683908 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:122683909-122684516 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:122702884-122703556 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5670 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5671 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5672 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5673 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5674 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4010 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:122791170-122791781 Neighboring gene junctional cadherin complex regulator Neighboring gene RNA, U4 small nuclear 23, pseudogene Neighboring gene ATP synthase peripheral stalk-membrane subunit b pseudogene 5

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables signaling receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables signaling receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    NOT involved_in T cell mediated cytotoxicity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT involved_in activated T cell proliferation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell recognition IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in detection of stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in detection of tumor cell IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in detection of tumor cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in establishment of T cell polarity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in lymphocyte migration into lymphoid organs ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of activated T cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cytokine production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of natural killer cell mediated cytotoxicity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of type II interferon production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of CD8-positive, alpha-beta T cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of T cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of T cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in immunological synapse ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    cytotoxic and regulatory T-cell molecule
    Names
    class-I MHC-restricted T-cell-associated molecule

    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_001304782.2NP_001291711.1  cytotoxic and regulatory T-cell molecule isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and therefore differs in the 5' UTR and 5' coding region, compared to variant 1. These differences cause translation initiation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AB209830, AF001622, AP004318, BC070266, DC305734
      Consensus CDS
      CCDS76489.1
      UniProtKB/TrEMBL
      B4DE52
      Related
      ENSP00000433728.1, ENST00000533709.1
    2. NM_019604.4NP_062550.2  cytotoxic and regulatory T-cell molecule isoform 1 precursor

      See identical proteins and their annotated locations for NP_062550.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AB209830, AF001622, AP004318, BC070266
      Consensus CDS
      CCDS8437.1
      UniProtKB/Swiss-Prot
      O95727, Q59EI1, Q6IRX2
      UniProtKB/TrEMBL
      B2R902
      Related
      ENSP00000227348.4, ENST00000227348.9
      Conserved Domains (2) summary
      smart00410
      Location:24114
      IG_like; Immunoglobulin like
      cl11960
      Location:20114
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      122838500..122872643
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011542900.3XP_011541202.1  cytotoxic and regulatory T-cell molecule isoform X1

      UniProtKB/TrEMBL
      B2R902
      Conserved Domains (1) summary
      cl11960
      Location:2065
      Ig; Immunoglobulin domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      122866290..122900405
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054369354.1XP_054225329.1  cytotoxic and regulatory T-cell molecule isoform X1