Atlas of Genetics and Cytogenetics in Oncology and Haematology

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CD3D (CD3d molecule)

Identity

Alias (NCBI)CD3-DELTA
IMD19
T3D
HGNC (Hugo) CD3D
HGNC Previous nameT3D
HGNC Previous nameCD3d antigen, delta polypeptide (TiT3 complex)
 CD3d molecule, delta (CD3-TCR complex)
LocusID (NCBI) 915
Atlas_Id 52453
Location 11q23.3  [Link to chromosome band 11q23]
Location_base_pair Starts at 118338954 and ends at 118342705 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
CAT (11p13) / CD3D (11q23.3)CD3D (11q23.3) / KIAA0100 (17q11.2)CD3D (11q23.3) / MRPS5 (2q11.1)
SIK3 (11q23.3) / CD3D (11q23.3)CAT 11p13 / CD3D 11q23.3SIK3 11q23.3 / CD3D 11q23.3

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

 

Nomenclature
HGNC (Hugo)CD3D   1673
LRG (Locus Reference Genomic)LRG_37
Cards
Entrez_Gene (NCBI)CD3D    CD3d molecule
AliasesCD3-DELTA; IMD19; T3D
GeneCards (Weizmann)CD3D
Ensembl hg19 (Hinxton)ENSG00000167286 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000167286 [Gene_View]  ENSG00000167286 [Sequence]  chr11:118338954-118342705 [Contig_View]  CD3D [Vega]
ICGC DataPortalENSG00000167286
TCGA cBioPortalCD3D
AceView (NCBI)CD3D
Genatlas (Paris)CD3D
SOURCE (Princeton)CD3D
Genetics Home Reference (NIH)CD3D
Genomic and cartography
GoldenPath hg38 (UCSC)CD3D  -     chr11:118338954-118342705 -  11q23.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CD3D  -     11q23.3   [Description]    (hg19-Feb_2009)
GoldenPathCD3D - 11q23.3 [CytoView hg19]  CD3D - 11q23.3 [CytoView hg38]
ImmunoBaseENSG00000167286
Genome Data Viewer NCBICD3D [Mapview hg19]  
OMIM186790   615617   
Gene and transcription
Genbank (Entrez)AK093775 AK311971 BC039035 BC070321 CD014058
RefSeq transcript (Entrez)NM_000732 NM_001040651
Consensus coding sequences : CCDS (NCBI)CD3D
Gene ExpressionCD3D [ NCBI-GEO ]   CD3D [ EBI - ARRAY_EXPRESS ]   CD3D [ SEEK ]   CD3D [ MEM ]
Gene Expression Viewer (FireBrowse)CD3D [ Firebrowse - Broad ]
GenevisibleExpression of CD3D in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)915
GTEX Portal (Tissue expression)CD3D
Human Protein AtlasENSG00000167286-CD3D [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04234   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04234  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04234
PhosPhoSitePlusP04234
Domaine pattern : Prosite (Expaxy)ITAM_1 (PS51055)   
Domains : Interpro (EBI)CD3_esu/gsu/dsu    CD3D    Ig-like_dom_sf    Ig-like_fold    Ig_4    Phos_immunorcpt_sig_ITAM   
Domain families : Pfam (Sanger)Ig_4 (PF16680)    ITAM (PF02189)   
Domain families : Pfam (NCBI)pfam16680    pfam02189   
Domain families : Smart (EMBL)ITAM (SM00077)  
Conserved Domain (NCBI)CD3D
PDB (RSDB)1XIW    6JXR   
PDB Europe1XIW    6JXR   
PDB (PDBSum)1XIW    6JXR   
PDB (IMB)1XIW    6JXR   
Structural Biology KnowledgeBase1XIW    6JXR   
SCOP (Structural Classification of Proteins)1XIW    6JXR   
CATH (Classification of proteins structures)1XIW    6JXR   
SuperfamilyP04234
AlphaFold pdb e-kbP04234   
Human Protein Atlas [tissue]ENSG00000167286-CD3D [tissue]
HPRD01730
Protein Interaction databases
DIP (DOE-UCLA)P04234
IntAct (EBI)P04234
BioGRIDCD3D
STRING (EMBL)CD3D
ZODIACCD3D
Ontologies - Pathways
QuickGOP04234
Ontology : AmiGOadaptive immune response  transmembrane signaling receptor activity  transmembrane signaling receptor activity  protein binding  cytoplasm  plasma membrane  cell surface receptor signaling pathway  cell surface receptor signaling pathway  external side of plasma membrane  integral component of membrane  clathrin-coated endocytic vesicle membrane  T cell receptor complex  alpha-beta T cell receptor complex  alpha-beta T cell receptor complex  identical protein binding  positive thymic T cell selection  positive thymic T cell selection  regulation of immune response  T cell receptor signaling pathway  membrane organization  
Ontology : EGO-EBIadaptive immune response  transmembrane signaling receptor activity  transmembrane signaling receptor activity  protein binding  cytoplasm  plasma membrane  cell surface receptor signaling pathway  cell surface receptor signaling pathway  external side of plasma membrane  integral component of membrane  clathrin-coated endocytic vesicle membrane  T cell receptor complex  alpha-beta T cell receptor complex  alpha-beta T cell receptor complex  identical protein binding  positive thymic T cell selection  positive thymic T cell selection  regulation of immune response  T cell receptor signaling pathway  membrane organization  
Pathways : BIOCARTAIL12 and Stat4 Dependent Signaling Pathway in Th1 Development [Genes]    The Co-Stimulatory Signal During T-cell Activation [Genes]    IL 17 Signaling Pathway [Genes]    Lck and Fyn tyrosine kinases in initiation of TCR Activation [Genes]    T Cytotoxic Cell Surface Molecules [Genes]    T Cell Receptor Signaling Pathway [Genes]    Activation of Csk by cAMP-dependent Protein Kinase Inhibits Signaling through the T Cell Receptor [Genes]    CTL mediated immune response against target cells [Genes]    HIV Induced T Cell Apoptosis [Genes]    T Helper Cell Surface Molecules [Genes]    Stathmin and breast cancer resistance to antimicrotubule agents [Genes]    T Cell Receptor and CD3 Complex [Genes]    NO2-dependent IL 12 Pathway in NK cells [Genes]    Role of Tob in T-cell activation [Genes]   
Pathways : KEGGHematopoietic cell lineage    T cell receptor signaling pathway    Chagas disease (American trypanosomiasis)    Measles    HTLV-I infection    Primary immunodeficiency   
NDEx NetworkCD3D
Atlas of Cancer Signalling NetworkCD3D
Wikipedia pathwaysCD3D
Orthology - Evolution
OrthoDB915
GeneTree (enSembl)ENSG00000167286
Phylogenetic Trees/Animal Genes : TreeFamCD3D
Homologs : HomoloGeneCD3D
Homology/Alignments : Family Browser (UCSC)CD3D
Gene fusions - Rearrangements
Fusion : MitelmanCAT/CD3D [11p13/11q23.3]  
Fusion : MitelmanSIK3/CD3D [11q23.3/11q23.3]  
Fusion : QuiverCD3D
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCD3D [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CD3D
dbVarCD3D
ClinVarCD3D
MonarchCD3D
1000_GenomesCD3D 
Exome Variant ServerCD3D
GNOMAD BrowserENSG00000167286
Varsome BrowserCD3D
ACMGCD3D variants
VarityP04234
Genomic Variants (DGV)CD3D [DGVbeta]
DECIPHERCD3D [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCD3D 
Mutations
ICGC Data PortalCD3D 
TCGA Data PortalCD3D 
Broad Tumor PortalCD3D
OASIS PortalCD3D [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCD3D  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DCD3D
Mutations and Diseases : HGMDCD3D
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaCD3D
DgiDB (Drug Gene Interaction Database)CD3D
DoCM (Curated mutations)CD3D
CIViC (Clinical Interpretations of Variants in Cancer)CD3D
Cancer3DCD3D
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM186790    615617   
Orphanet17831   
DisGeNETCD3D
MedgenCD3D
Genetic Testing Registry CD3D
NextProtP04234 [Medical]
GENETestsCD3D
Target ValidationCD3D
Huge Navigator CD3D [HugePedia]
ClinGenCD3D
Clinical trials, drugs, therapy
MyCancerGenomeCD3D
Protein Interactions : CTDCD3D
Pharm GKB GenePA26215
PharosP04234
Clinical trialCD3D
Miscellaneous
canSAR (ICR)CD3D
HarmonizomeCD3D
DataMed IndexCD3D
Probes
Litterature
PubMed116 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXCD3D
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 15:02:59 CEST 2021
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