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Aliases for CRTAM Gene

Aliases for CRTAM Gene

  • Cytotoxic And Regulatory T Cell Molecule 2 3
  • Class-I MHC-Restricted T-Cell-Associated Molecule 3 4
  • Cytotoxic And Regulatory T-Cell Molecule 3 5
  • Class I MHC Restricted T Cell Associated Molecule 2
  • CD355 Antigen 4
  • CD355 3

External Ids for CRTAM Gene

Previous GeneCards Identifiers for CRTAM Gene

  • GC11P124710
  • GC11P124222
  • GC11P122246
  • GC11P122214
  • GC11P118652

Summaries for CRTAM Gene

Entrez Gene Summary for CRTAM Gene

  • 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]

GeneCards Summary for CRTAM Gene

CRTAM (Cytotoxic And Regulatory T Cell Molecule) is a Protein Coding gene. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. Gene Ontology (GO) annotations related to this gene include receptor binding. An important paralog of this gene is CADM1.

UniProtKB/Swiss-Prot for CRTAM Gene

  • Interaction with CADM1 promotes natural killer (NK) cell cytotoxicity and interferon-gamma (IFN-gamma) secretion by CD8+ cells in vitro as well as NK cell-mediated rejection of tumors expressing CADM3 in vivo.

Additional gene information for CRTAM Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CRTAM Gene

Genomics for CRTAM Gene

GeneHancer (GH) Regulatory Elements for CRTAM Gene

Promoters and enhancers for CRTAM Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11I122837 Promoter/Enhancer 1.2 EPDnew ENCODE dbSUPER 550.8 +0.1 78 1 ZFHX2 CREB1 ATF7 MLLT1 ATF2 EGR2 ZBTB17 CRTAM JHY GC11P122841
GH11I122862 Promoter 0.5 EPDnew 561.3 +23.9 23881 0.1 CRTAM BSX JHY GC11P122841
GH11I122839 Enhancer 0.4 ENCODE dbSUPER 550.8 +1.7 1747 1.6 CRTAM GC11P122841 JHY
GH11I122882 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 19.2 +44.9 44877 2 FOXA2 SMAD1 ZNF76 SIN3A ZNF335 GLIS2 ZNF143 ZNF207 ATF7 SP3 JHY CRTAM BSX GC11P122895
GH11I122740 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 15.7 -93.2 -93223 9.2 HDGF PKNOX1 BMI1 BATF IRF4 ZNF121 ATF7 ETV6 FOS BCLAF1 GC11M122744 CRTAM UBASH3B ENSG00000239079
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CRTAM on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CRTAM gene promoter:

Genomic Locations for CRTAM Gene

Genomic Locations for CRTAM Gene
34,213 bases
Plus strand

Genomic View for CRTAM Gene

Genes around CRTAM on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CRTAM Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CRTAM Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CRTAM Gene

Proteins for CRTAM Gene

  • Protein details for CRTAM Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Cytotoxic and regulatory T-cell molecule
    Protein Accession:
    Secondary Accessions:
    • Q59EI1
    • Q6IRX2

    Protein attributes for CRTAM Gene

    393 amino acids
    Molecular mass:
    44641 Da
    Quaternary structure:
    • Interacts with CADM1.
    • Sequence=BAD93067.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CRTAM Gene

    Alternative splice isoforms for CRTAM Gene


neXtProt entry for CRTAM Gene

Post-translational modifications for CRTAM Gene

  • Glycosylation at posLast=2121, Asn87, and Asn178

Other Protein References for CRTAM Gene

No data available for DME Specific Peptides for CRTAM Gene

Domains & Families for CRTAM Gene

Protein Domains for CRTAM Gene

Suggested Antigen Peptide Sequences for CRTAM Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the nectin family.
  • Belongs to the nectin family.
genes like me logo Genes that share domains with CRTAM: view

Function for CRTAM Gene

Molecular function for CRTAM Gene

UniProtKB/Swiss-Prot Function:
Interaction with CADM1 promotes natural killer (NK) cell cytotoxicity and interferon-gamma (IFN-gamma) secretion by CD8+ cells in vitro as well as NK cell-mediated rejection of tumors expressing CADM3 in vivo.

Phenotypes From GWAS Catalog for CRTAM Gene

Gene Ontology (GO) - Molecular Function for CRTAM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity IBA --
GO:0005102 receptor binding IPI 15811952
GO:0042803 protein homodimerization activity IBA --
GO:0050839 cell adhesion molecule binding IBA --
genes like me logo Genes that share ontologies with CRTAM: view

Phenotypes for CRTAM Gene

genes like me logo Genes that share phenotypes with CRTAM: view

Animal Models for CRTAM Gene

MGI Knock Outs for CRTAM:

miRNA for CRTAM Gene

miRTarBase miRNAs that target CRTAM

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CRTAM Gene

Localization for CRTAM Gene

Subcellular locations from UniProtKB/Swiss-Prot for CRTAM Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CRTAM gene
Compartment Confidence
plasma membrane 5
peroxisome 2
extracellular 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for CRTAM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS,IDA --
GO:0005887 integral component of plasma membrane IBA --
GO:0005913 cell-cell adherens junction IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CRTAM: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CRTAM Gene

Pathways & Interactions for CRTAM Gene

genes like me logo Genes that share pathways with CRTAM: view

Pathways by source for CRTAM Gene

Gene Ontology (GO) - Biological Process for CRTAM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001913 NOT T cell mediated cytotoxicity IDA 15811952
GO:0002355 detection of tumor cell IDA 15811952
GO:0002376 immune system process IEA --
GO:0002860 positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target IDA 15811952
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IBA --
genes like me logo Genes that share ontologies with CRTAM: view

No data available for SIGNOR curated interactions for CRTAM Gene

Drugs & Compounds for CRTAM Gene

No Compound Related Data Available

Transcripts for CRTAM Gene

Unigene Clusters for CRTAM Gene

Cytotoxic and regulatory T cell molecule:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CRTAM Gene

No ASD Table

Relevant External Links for CRTAM Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CRTAM Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CRTAM Gene

mRNA differential expression in normal tissues according to GTEx for CRTAM Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x26.3) and Brain - Cerebellum (x22.3).

Protein differential expression in normal tissues from HIPED for CRTAM Gene

This gene is overexpressed in CD8 Tcells (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CRTAM Gene

Protein tissue co-expression partners for CRTAM Gene

NURSA nuclear receptor signaling pathways regulating expression of CRTAM Gene:


SOURCE GeneReport for Unigene cluster for CRTAM Gene:


mRNA Expression by UniProt/SwissProt for CRTAM Gene:

Tissue specificity: In the immune system, expression is restricted to activated class-I MHC-restricted cells, including NKT and CD8 cells. Strongly expressed in spleen, thymus, small intestine, peripheral blood leukocyte, and in Purkinje neurons in cerebellum. Expressed at much lower levels in testis, ovary, colon, lung and lymphoid tissues.

Evidence on tissue expression from TISSUES for CRTAM Gene

  • Nervous system(2.8)
  • Blood(2)
genes like me logo Genes that share expression patterns with CRTAM: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for CRTAM Gene

Orthologs for CRTAM Gene

This gene was present in the common ancestor of chordates.

Orthologs for CRTAM Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CRTAM 33 34
  • 99.07 (n)
(Canis familiaris)
Mammalia CRTAM 33 34
  • 84.9 (n)
(Bos Taurus)
Mammalia CRTAM 33 34
  • 83.5 (n)
(Mus musculus)
Mammalia Crtam 33 16 34
  • 77.46 (n)
(Rattus norvegicus)
Mammalia Crtam 33
  • 75.45 (n)
(Monodelphis domestica)
Mammalia CRTAM 34
  • 61 (a)
(Ornithorhynchus anatinus)
Mammalia CRTAM 34
  • 53 (a)
(Gallus gallus)
Aves CRTAM 33 34
  • 56.29 (n)
(Anolis carolinensis)
Reptilia CRTAM 34
  • 35 (a)
(Danio rerio)
Actinopterygii LOC101884219 33
  • 47.12 (n)
BX120005.1 34
  • 26 (a)
Species where no ortholog for CRTAM was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CRTAM Gene

Gene Tree for CRTAM (if available)
Gene Tree for CRTAM (if available)

Paralogs for CRTAM Gene

Paralogs for CRTAM Gene

genes like me logo Genes that share paralogs with CRTAM: view

Variants for CRTAM Gene

Sequence variations from dbSNP and Humsavar for CRTAM Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000068747 -- 122,853,366(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000276762 -- 122,864,000(+) C/A/T intron_variant
rs1000316721 -- 122,870,517(+) A/T intron_variant
rs1000329491 -- 122,864,335(+) A/T intron_variant
rs1000441076 -- 122,839,882(+) A/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CRTAM Gene

Variant ID Type Subtype PubMed ID
nsv556482 CNV loss 21841781
nsv556481 CNV loss 21841781
nsv520988 CNV gain 19592680
nsv480269 CNV novel sequence insertion 20440878
nsv1140492 CNV tandem duplication 24896259
nsv1133175 CNV tandem duplication 24896259
esv3627947 CNV gain 21293372

Variation tolerance for CRTAM Gene

Residual Variation Intolerance Score: 46.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.36; 76.90% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CRTAM Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CRTAM Gene

Disorders for CRTAM Gene

Additional Disease Information for CRTAM

No disorders were found for CRTAM Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CRTAM Gene

Publications for CRTAM Gene

  1. Human class-I restricted T cell associated molecule is highly expressed in the cerebellum and is a marker for activated NKT and CD8+ T lymphocytes. (PMID: 16300832) Patiño-Lopez G … Zlotnik A (Journal of neuroimmunology 2006) 2 3 4 58
  2. A molecular analysis of NKT cells: identification of a class-I restricted T cell-associated molecule (CRTAM). (PMID: 10811014) Kennedy J … Zlotnik A (Journal of leukocyte biology 2000) 2 3 4 58
  3. Characterization of CRTAM gene promoter: AP-1 transcription factor control its expression in human T CD8 lymphocytes. (PMID: 19695707) Valle-Rios R … Ortiz-Navarrete V (Molecular immunology 2009) 3 22 58
  4. Nectin-like protein 2 defines a subset of T-cell zone dendritic cells and is a ligand for class-I-restricted T-cell-associated molecule. (PMID: 15781451) Galibert L … Yan W (The Journal of biological chemistry 2005) 3 4 58
  5. The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAM. (PMID: 15811952) Boles KS … Colonna M (Blood 2005) 3 4 58

Products for CRTAM Gene

Sources for CRTAM Gene

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