Atlas of Genetics and Cytogenetics in Oncology and Haematology

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CD5 (CD5 molecule)

Identity

Alias_namesLEU1
CD5 antigen (p56-62)
Alias_symbol (synonym)T1
Other alias
HGNC (Hugo) CD5
LocusID (NCBI) 921
Atlas_Id 46449
Location 11q12.2  [Link to chromosome band 11q12]
Location_base_pair Starts at 61102458 and ends at 61127851 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)
NTRK1 (1q23.1) / CD5 (11q12.2)

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)CD5   1685
Cards
Entrez_Gene (NCBI)CD5  921  CD5 molecule
AliasesLEU1; T1
GeneCards (Weizmann)CD5
Ensembl hg19 (Hinxton)ENSG00000110448 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000110448 [Gene_View]  ENSG00000110448 [Sequence]  chr11:61102458-61127851 [Contig_View]  CD5 [Vega]
ICGC DataPortalENSG00000110448
TCGA cBioPortalCD5
AceView (NCBI)CD5
Genatlas (Paris)CD5
WikiGenes921
SOURCE (Princeton)CD5
Genetics Home Reference (NIH)CD5
Genomic and cartography
GoldenPath hg38 (UCSC)CD5  -     chr11:61102458-61127851 +  11q12.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CD5  -     11q12.2   [Description]    (hg19-Feb_2009)
GoldenPathCD5 - 11q12.2 [CytoView hg19]  CD5 - 11q12.2 [CytoView hg38]
ImmunoBaseENSG00000110448
Mapping of homologs : NCBICD5 [Mapview hg19]  CD5 [Mapview hg38]
OMIM153340   
Gene and transcription
Genbank (Entrez)AK292698 AY541703 AY541704 BC027901 DB143341
RefSeq transcript (Entrez)NM_001346456 NM_014207
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CD5
Cluster EST : UnigeneHs.58685 [ NCBI ]
CGAP (NCI)Hs.58685
Alternative Splicing GalleryENSG00000110448
Gene ExpressionCD5 [ NCBI-GEO ]   CD5 [ EBI - ARRAY_EXPRESS ]   CD5 [ SEEK ]   CD5 [ MEM ]
Gene Expression Viewer (FireBrowse)CD5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)921
GTEX Portal (Tissue expression)CD5
Human Protein AtlasENSG00000110448-CD5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP06127   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP06127  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP06127
Splice isoforms : SwissVarP06127
PhosPhoSitePlusP06127
Domaine pattern : Prosite (Expaxy)SRCR_2 (PS50287)   
Domains : Interpro (EBI)SRCR    SRCR-like_dom    SRCR-like_dom_sf    Tcell_CD5   
Domain families : Pfam (Sanger)SRCR (PF00530)   
Domain families : Pfam (NCBI)pfam00530   
Domain families : Smart (EMBL)SR (SM00202)  
Conserved Domain (NCBI)CD5
DMDM Disease mutations921
Blocks (Seattle)CD5
PDB (RSDB)2JA4    2JOP    2JP0    2OTT   
PDB Europe2JA4    2JOP    2JP0    2OTT   
PDB (PDBSum)2JA4    2JOP    2JP0    2OTT   
PDB (IMB)2JA4    2JOP    2JP0    2OTT   
Structural Biology KnowledgeBase2JA4    2JOP    2JP0    2OTT   
SCOP (Structural Classification of Proteins)2JA4    2JOP    2JP0    2OTT   
CATH (Classification of proteins structures)2JA4    2JOP    2JP0    2OTT   
SuperfamilyP06127
Human Protein Atlas [tissue]ENSG00000110448-CD5 [tissue]
Peptide AtlasP06127
HPRD01078
IPIIPI00025383   IPI01013773   
Protein Interaction databases
DIP (DOE-UCLA)P06127
IntAct (EBI)P06127
FunCoupENSG00000110448
BioGRIDCD5
STRING (EMBL)CD5
ZODIACCD5
Ontologies - Pathways
QuickGOP06127
Ontology : AmiGOtransmembrane signaling receptor activity  scavenger receptor activity  protein binding  plasma membrane  plasma membrane  integral component of plasma membrane  endocytosis  cell recognition  cell proliferation  external side of plasma membrane  T cell costimulation  signaling receptor activity  apoptotic signaling pathway  
Ontology : EGO-EBItransmembrane signaling receptor activity  scavenger receptor activity  protein binding  plasma membrane  plasma membrane  integral component of plasma membrane  endocytosis  cell recognition  cell proliferation  external side of plasma membrane  T cell costimulation  signaling receptor activity  apoptotic signaling pathway  
Pathways : KEGGHematopoietic cell lineage   
NDEx NetworkCD5
Atlas of Cancer Signalling NetworkCD5
Wikipedia pathwaysCD5
Orthology - Evolution
OrthoDB921
GeneTree (enSembl)ENSG00000110448
Phylogenetic Trees/Animal Genes : TreeFamCD5
HOGENOMP06127
Homologs : HomoloGeneCD5
Homology/Alignments : Family Browser (UCSC)CD5
Gene fusions - Rearrangements
Fusion : QuiverCD5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCD5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CD5
dbVarCD5
ClinVarCD5
1000_GenomesCD5 
Exome Variant ServerCD5
ExAC (Exome Aggregation Consortium)ENSG00000110448
GNOMAD BrowserENSG00000110448
Varsome BrowserCD5
Genetic variants : HAPMAP921
Genomic Variants (DGV)CD5 [DGVbeta]
DECIPHERCD5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCD5 
Mutations
ICGC Data PortalCD5 
TCGA Data PortalCD5 
Broad Tumor PortalCD5
OASIS PortalCD5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCD5  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DCD5
Mutations and Diseases : HGMDCD5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CD5
DgiDB (Drug Gene Interaction Database)CD5
DoCM (Curated mutations)CD5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CD5 (select a term)
intoGenCD5
Cancer3DCD5(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM153340   
Orphanet
DisGeNETCD5
MedgenCD5
Genetic Testing Registry CD5
NextProtP06127 [Medical]
TSGene921
GENETestsCD5
Target ValidationCD5
Huge Navigator CD5 [HugePedia]
snp3D : Map Gene to Disease921
BioCentury BCIQCD5
ClinGenCD5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD921
Chemical/Pharm GKB GenePA26224
Clinical trialCD5
Miscellaneous
canSAR (ICR)CD5 (select the gene name)
DataMed IndexCD5
Probes
Litterature
PubMed99 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCD5
EVEXCD5
GoPubMedCD5
iHOPCD5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Nov 13 17:36:16 CET 2019
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