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CD47 (CD47 molecule)

Identity

Alias_namesMER6
CD47 antigen (Rh-related antigen
Alias_symbol (synonym)IAP
OA3
Other alias
HGNC (Hugo) CD47
LocusID (NCBI) 961
Atlas_Id 981
Location 3q13.12  [Link to chromosome band 3q13]
Location_base_pair Starts at 108043094 and ends at 108091088 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)
ANKRD17 (4q13.3) / CD47 (3q13.12)CD47 (3q13.12) / IGFBP3 (7p12.3)CD47 (3q13.12) / ZFR (5p13.3)
DIP2C (10p15.3) / CD47 (3q13.12)TBC1D1 (4p14) / CD47 (3q13.12)CD47 3q13.12 / ZFR 5p13.3

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)CD47   1682
Cards
Entrez_Gene (NCBI)CD47  961  CD47 molecule
AliasesIAP; MER6; OA3
GeneCards (Weizmann)CD47
Ensembl hg19 (Hinxton)ENSG00000196776 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000196776 [Gene_View]  chr3:108043094-108091088 [Contig_View]  CD47 [Vega]
ICGC DataPortalENSG00000196776
TCGA cBioPortalCD47
AceView (NCBI)CD47
Genatlas (Paris)CD47
WikiGenes961
SOURCE (Princeton)CD47
Genetics Home Reference (NIH)CD47
Genomic and cartography
GoldenPath hg38 (UCSC)CD47  -     chr3:108043094-108091088 -  3q13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CD47  -     3q13.12   [Description]    (hg19-Feb_2009)
EnsemblCD47 - 3q13.12 [CytoView hg19]  CD47 - 3q13.12 [CytoView hg38]
Mapping of homologs : NCBICD47 [Mapview hg19]  CD47 [Mapview hg38]
OMIM601028   
Gene and transcription
Genbank (Entrez)AI701980 AK096670 AK124152 AK289813 AL832675
RefSeq transcript (Entrez)NM_001025079 NM_001025080 NM_001777 NM_198793
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CD47
Cluster EST : UnigeneHs.446414 [ NCBI ]
CGAP (NCI)Hs.446414
Alternative Splicing GalleryENSG00000196776
Gene ExpressionCD47 [ NCBI-GEO ]   CD47 [ EBI - ARRAY_EXPRESS ]   CD47 [ SEEK ]   CD47 [ MEM ]
Gene Expression Viewer (FireBrowse)CD47 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)961
GTEX Portal (Tissue expression)CD47
Human Protein AtlasENSG00000196776-CD47 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ08722   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ08722  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ08722
Splice isoforms : SwissVarQ08722
PhosPhoSitePlusQ08722
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)CD47    CD47_TM    CD47_Vset    Ig-like_dom    Ig-like_fold   
Domain families : Pfam (Sanger)CD47 (PF04549)    V-set_CD47 (PF08204)   
Domain families : Pfam (NCBI)pfam04549    pfam08204   
Conserved Domain (NCBI)CD47
DMDM Disease mutations961
Blocks (Seattle)CD47
PDB (SRS)2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
PDB (PDBSum)2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
PDB (IMB)2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
PDB (RSDB)2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
Structural Biology KnowledgeBase2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
SCOP (Structural Classification of Proteins)2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
CATH (Classification of proteins structures)2JJS    2JJT    2VSC    4CMM    4KJY    5IWL   
SuperfamilyQ08722
Human Protein Atlas [tissue]ENSG00000196776-CD47 [tissue]
Peptide AtlasQ08722
HPRD03017
IPIIPI00374740   IPI00216514   IPI00872082   IPI00216516   IPI00795679   IPI00983236   
Protein Interaction databases
DIP (DOE-UCLA)Q08722
IntAct (EBI)Q08722
FunCoupENSG00000196776
BioGRIDCD47
STRING (EMBL)CD47
ZODIACCD47
Ontologies - Pathways
QuickGOQ08722
Ontology : AmiGOprotein binding  plasma membrane  integral component of plasma membrane  cell adhesion  integrin-mediated signaling pathway  opsonization  positive regulation of cell proliferation  response to bacterium  positive regulation of cell-cell adhesion  extracellular matrix organization  specific granule membrane  neutrophil degranulation  positive regulation of inflammatory response  positive regulation of phagocytosis  positive regulation of T cell activation  leukocyte migration  thrombospondin receptor activity  extracellular exosome  tertiary granule membrane  
Ontology : EGO-EBIprotein binding  plasma membrane  integral component of plasma membrane  cell adhesion  integrin-mediated signaling pathway  opsonization  positive regulation of cell proliferation  response to bacterium  positive regulation of cell-cell adhesion  extracellular matrix organization  specific granule membrane  neutrophil degranulation  positive regulation of inflammatory response  positive regulation of phagocytosis  positive regulation of T cell activation  leukocyte migration  thrombospondin receptor activity  extracellular exosome  tertiary granule membrane  
Pathways : KEGGECM-receptor interaction   
NDEx NetworkCD47
Atlas of Cancer Signalling NetworkCD47
Wikipedia pathwaysCD47
Orthology - Evolution
OrthoDB961
GeneTree (enSembl)ENSG00000196776
Phylogenetic Trees/Animal Genes : TreeFamCD47
HOVERGENQ08722
HOGENOMQ08722
Homologs : HomoloGeneCD47
Homology/Alignments : Family Browser (UCSC)CD47
Gene fusions - Rearrangements
Fusion : MitelmanCD47/ZFR [3q13.12/5p13.3]  
Fusion: TCGA_MDACCCD47 3q13.12 ZFR 5p13.3 PRAD
Tumor Fusion PortalCD47
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCD47 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CD47
dbVarCD47
ClinVarCD47
1000_GenomesCD47 
Exome Variant ServerCD47
ExAC (Exome Aggregation Consortium)ENSG00000196776
GNOMAD BrowserENSG00000196776
Genetic variants : HAPMAP961
Genomic Variants (DGV)CD47 [DGVbeta]
DECIPHERCD47 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCD47 
Mutations
ICGC Data PortalCD47 
TCGA Data PortalCD47 
Broad Tumor PortalCD47
OASIS PortalCD47 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCD47  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCD47
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CD47
DgiDB (Drug Gene Interaction Database)CD47
DoCM (Curated mutations)CD47 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CD47 (select a term)
intoGenCD47
Cancer3DCD47(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601028   
Orphanet
DisGeNETCD47
MedgenCD47
Genetic Testing Registry CD47
NextProtQ08722 [Medical]
TSGene961
GENETestsCD47
Target ValidationCD47
Huge Navigator CD47 [HugePedia]
snp3D : Map Gene to Disease961
BioCentury BCIQCD47
ClinGenCD47
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD961
Chemical/Pharm GKB GenePA26222
Clinical trialCD47
Miscellaneous
canSAR (ICR)CD47 (select the gene name)
Probes
Litterature
PubMed145 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCD47
EVEXCD47
GoPubMedCD47
iHOPCD47
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Nov 20 20:30:14 CET 2017

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