Atlas of Genetics and Cytogenetics in Oncology and Haematology

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CD4 (CD4 molecule)

Identity

Alias_namesCD4 antigen (p55)
T-cell surface glycoprotein CD4
Other aliasCD4mut
HGNC (Hugo) CD4
LocusID (NCBI) 920
Atlas_Id 979
Location 12p13.31  [Link to chromosome band 12p13]
Location_base_pair Starts at 6789472 and ends at 6820810 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)
CD4 (12p13.31) / NEAT1 (11q13.1)CD4 (12p13.31) / PTPN11 (12q24.13)MED13L (12q24.21) / CD4 (12p13.31)

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  inv(12)(p13q24) MED13L/CD4

External links

Nomenclature
HGNC (Hugo)CD4   1678
Cards
Entrez_Gene (NCBI)CD4  920  CD4 molecule
AliasesCD4mut
GeneCards (Weizmann)CD4
Ensembl hg19 (Hinxton)ENSG00000010610 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000010610 [Gene_View]  ENSG00000010610 [Sequence]  chr12:6789472-6820810 [Contig_View]  CD4 [Vega]
ICGC DataPortalENSG00000010610
TCGA cBioPortalCD4
AceView (NCBI)CD4
Genatlas (Paris)CD4
WikiGenes920
SOURCE (Princeton)CD4
Genetics Home Reference (NIH)CD4
Genomic and cartography
GoldenPath hg38 (UCSC)CD4  -     chr12:6789472-6820810 +  12p13.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CD4  -     12p13.31   [Description]    (hg19-Feb_2009)
GoldenPathCD4 - 12p13.31 [CytoView hg19]  CD4 - 12p13.31 [CytoView hg38]
ImmunoBaseENSG00000010610
Mapping of homologs : NCBICD4 [Mapview hg19]  CD4 [Mapview hg38]
OMIM186940   613949   
Gene and transcription
Genbank (Entrez)AK300052 AK303968 AK308344 AK310652 AK310677
RefSeq transcript (Entrez)NM_000616 NM_001195014 NM_001195015 NM_001195016 NM_001195017
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CD4
Cluster EST : UnigeneHs.631659 [ NCBI ]
CGAP (NCI)Hs.631659
Alternative Splicing GalleryENSG00000010610
Gene ExpressionCD4 [ NCBI-GEO ]   CD4 [ EBI - ARRAY_EXPRESS ]   CD4 [ SEEK ]   CD4 [ MEM ]
Gene Expression Viewer (FireBrowse)CD4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)920
GTEX Portal (Tissue expression)CD4
Human Protein AtlasENSG00000010610-CD4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP01730   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP01730  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP01730
Splice isoforms : SwissVarP01730
PhosPhoSitePlusP01730
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)CD4    CD4-extracel    Ig-like_dom    Ig-like_dom_sf    Ig-like_fold    Ig_C2-set    Ig_sub    Ig_sub2    Ig_V-set    Immunoglobulin    Tcell_CD4_Cterm   
Domain families : Pfam (Sanger)C2-set (PF05790)    CD4-extracel (PF09191)    ig (PF00047)    Tcell_CD4_C (PF12104)   
Domain families : Pfam (NCBI)pfam05790    pfam09191    pfam00047    pfam12104   
Domain families : Smart (EMBL)IG (SM00409)  IGc2 (SM00408)  IGv (SM00406)  
Conserved Domain (NCBI)CD4
DMDM Disease mutations920
Blocks (Seattle)CD4
PDB (RSDB)1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
PDB Europe1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
PDB (PDBSum)1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
PDB (IMB)1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
Structural Biology KnowledgeBase1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
SCOP (Structural Classification of Proteins)1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
CATH (Classification of proteins structures)1CDH    1CDI    1CDJ    1CDU    1CDY    1G9M    1G9N    1GC1    1JL4    1OPN    1OPT    1OPW    1Q68    1RZJ    1RZK    1WBR    1WIO    1WIP    1WIQ    2B4C    2JKR    2JKT    2KLU    2NXY    2NXZ    2NY0    2NY1    2NY2    2NY3    2NY4    2NY5    2NY6    2QAD    3B71    3CD4    3J70    3JCB    3JCC    3JWD    3JWO    3LQA    3O2D    3S4S    3S5L    3T0E    4H8W    4JM2    4P9H    4Q6I    4R2G    4R4H    4RQS    5A7X    5A8H    5CAY    5THR    5U1F    5VN3   
SuperfamilyP01730
Human Protein Atlas [tissue]ENSG00000010610-CD4 [tissue]
Peptide AtlasP01730
HPRD01740
IPIIPI00003983   IPI00885119   IPI00975822   IPI01015346   IPI01009643   
Protein Interaction databases
DIP (DOE-UCLA)P01730
IntAct (EBI)P01730
FunCoupENSG00000010610
BioGRIDCD4
STRING (EMBL)CD4
ZODIACCD4
Ontologies - Pathways
QuickGOP01730
Ontology : AmiGOvirus receptor activity  cytokine production  positive regulation of protein phosphorylation  adaptive immune response  transmembrane signaling receptor activity  extracellular matrix structural constituent  protein binding  early endosome  endoplasmic reticulum lumen  endoplasmic reticulum membrane  plasma membrane  plasma membrane  integral component of plasma membrane  induction by virus of host cell-cell fusion  immune response  cell adhesion  signal transduction  cell surface receptor signaling pathway  enzyme linked receptor protein signaling pathway  transmembrane receptor protein tyrosine kinase signaling pathway  zinc ion binding  external side of plasma membrane  external side of plasma membrane  positive regulation of calcium ion transport into cytosol  coreceptor activity  fusion of virus membrane with host plasma membrane  cytokine-mediated signaling pathway  immunoglobulin binding  enzyme binding  protein kinase binding  T cell differentiation  macrophage differentiation  entry into host cell  clathrin-coated vesicle membrane  response to estradiol  maintenance of protein location in cell  response to vitamin D  positive regulation of kinase activity  helper T cell enhancement of adaptive immune response  interleukin-15-mediated signaling pathway  interleukin-15-mediated signaling pathway  signaling receptor activity  interleukin-16 binding  interleukin-16 receptor activity  T cell receptor complex  positive regulation of T cell proliferation  T cell activation  MHC class II protein binding  MHC class II protein binding  MHC class II protein binding  MHC class II protein binding  identical protein binding  protein homodimerization activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of MAPK cascade  T cell selection  positive regulation of interleukin-2 biosynthetic process  membrane raft  membrane raft  positive regulation of monocyte differentiation  positive regulation of protein kinase activity  positive regulation of transcription, DNA-templated  positive regulation of viral entry into host cell  regulation of defense response to virus by virus  positive regulation of peptidyl-tyrosine phosphorylation  defense response to Gram-negative bacterium  positive regulation of calcium-mediated signaling  T cell receptor signaling pathway  regulation of T cell activation  regulation of calcium ion transport  membrane organization  positive regulation of ERK1 and ERK2 cascade  positive regulation of ERK1 and ERK2 cascade  cellular response to granulocyte macrophage colony-stimulating factor stimulus  protein tyrosine kinase binding  protein tyrosine kinase binding  
Ontology : EGO-EBIvirus receptor activity  cytokine production  positive regulation of protein phosphorylation  adaptive immune response  transmembrane signaling receptor activity  extracellular matrix structural constituent  protein binding  early endosome  endoplasmic reticulum lumen  endoplasmic reticulum membrane  plasma membrane  plasma membrane  integral component of plasma membrane  induction by virus of host cell-cell fusion  immune response  cell adhesion  signal transduction  cell surface receptor signaling pathway  enzyme linked receptor protein signaling pathway  transmembrane receptor protein tyrosine kinase signaling pathway  zinc ion binding  external side of plasma membrane  external side of plasma membrane  positive regulation of calcium ion transport into cytosol  coreceptor activity  fusion of virus membrane with host plasma membrane  cytokine-mediated signaling pathway  immunoglobulin binding  enzyme binding  protein kinase binding  T cell differentiation  macrophage differentiation  entry into host cell  clathrin-coated vesicle membrane  response to estradiol  maintenance of protein location in cell  response to vitamin D  positive regulation of kinase activity  helper T cell enhancement of adaptive immune response  interleukin-15-mediated signaling pathway  interleukin-15-mediated signaling pathway  signaling receptor activity  interleukin-16 binding  interleukin-16 receptor activity  T cell receptor complex  positive regulation of T cell proliferation  T cell activation  MHC class II protein binding  MHC class II protein binding  MHC class II protein binding  MHC class II protein binding  identical protein binding  protein homodimerization activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of MAPK cascade  T cell selection  positive regulation of interleukin-2 biosynthetic process  membrane raft  membrane raft  positive regulation of monocyte differentiation  positive regulation of protein kinase activity  positive regulation of transcription, DNA-templated  positive regulation of viral entry into host cell  regulation of defense response to virus by virus  positive regulation of peptidyl-tyrosine phosphorylation  defense response to Gram-negative bacterium  positive regulation of calcium-mediated signaling  T cell receptor signaling pathway  regulation of T cell activation  regulation of calcium ion transport  membrane organization  positive regulation of ERK1 and ERK2 cascade  positive regulation of ERK1 and ERK2 cascade  cellular response to granulocyte macrophage colony-stimulating factor stimulus  protein tyrosine kinase binding  protein tyrosine kinase binding  
Pathways : KEGGCell adhesion molecules (CAMs)    Antigen processing and presentation    Hematopoietic cell lineage    T cell receptor signaling pathway    Primary immunodeficiency   
NDEx NetworkCD4
Atlas of Cancer Signalling NetworkCD4
Wikipedia pathwaysCD4
Orthology - Evolution
OrthoDB920
GeneTree (enSembl)ENSG00000010610
Phylogenetic Trees/Animal Genes : TreeFamCD4
HOGENOMP01730
Homologs : HomoloGeneCD4
Homology/Alignments : Family Browser (UCSC)CD4
Gene fusions - Rearrangements
Fusion : MitelmanMED13L/CD4 [12q24.21/12p13.31]  [inv(12)(p13q24)]  
Fusion : QuiverCD4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCD4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CD4
dbVarCD4
ClinVarCD4
1000_GenomesCD4 
Exome Variant ServerCD4
ExAC (Exome Aggregation Consortium)ENSG00000010610
GNOMAD BrowserENSG00000010610
Varsome BrowserCD4
Genetic variants : HAPMAP920
Genomic Variants (DGV)CD4 [DGVbeta]
DECIPHERCD4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCD4 
Mutations
ICGC Data PortalCD4 
TCGA Data PortalCD4 
Broad Tumor PortalCD4
OASIS PortalCD4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCD4  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DCD4
Mutations and Diseases : HGMDCD4
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 CD4
DgiDB (Drug Gene Interaction Database)CD4
DoCM (Curated mutations)CD4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CD4 (select a term)
intoGenCD4
Cancer3DCD4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM186940    613949   
Orphanet
DisGeNETCD4
MedgenCD4
Genetic Testing Registry CD4
NextProtP01730 [Medical]
TSGene920
GENETestsCD4
Target ValidationCD4
Huge Navigator CD4 [HugePedia]
snp3D : Map Gene to Disease920
BioCentury BCIQCD4
ClinGenCD4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD920
Chemical/Pharm GKB GenePA26220
Clinical trialCD4
Miscellaneous
canSAR (ICR)CD4 (select the gene name)
DataMed IndexCD4
Probes
Litterature
PubMed499 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCD4
EVEXCD4
GoPubMedCD4
iHOPCD4
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 17:36:15 CET 2019
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