Atlas of Genetics and Cytogenetics in Oncology and Haematology

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ITGA4 (integrin subunit alpha 4)

Identity

Alias_namesCD49D
integrin
Alias_symbol (synonym)CD49d
Other aliasIA4
HGNC (Hugo) ITGA4
LocusID (NCBI) 3676
Atlas_Id 41005
Location 2q31.3  [Link to chromosome band 2q31]
Location_base_pair Starts at 181456892 and ends at 181476218 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)
ITGA4 (2q31.3) / FBXO32 (8q24.13)ITGA4 (2q31.3) / RPS6KA3 (Xp22.12)ITGA4 (2q31.3) / UBE2E2 (3p24.3)
ITGA4 2q31.3 / UBE2E2 3p24.3

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(2;3)(q31;p24) ITGA4/UBE2E2

External links

Nomenclature
HGNC (Hugo)ITGA4   6140
Cards
Entrez_Gene (NCBI)ITGA4  3676  integrin subunit alpha 4
AliasesCD49D; IA4
GeneCards (Weizmann)ITGA4
Ensembl hg19 (Hinxton)ENSG00000115232 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000115232 [Gene_View]  ENSG00000115232 [Sequence]  chr2:181456892-181476218 [Contig_View]  ITGA4 [Vega]
ICGC DataPortalENSG00000115232
TCGA cBioPortalITGA4
AceView (NCBI)ITGA4
Genatlas (Paris)ITGA4
WikiGenes3676
SOURCE (Princeton)ITGA4
Genetics Home Reference (NIH)ITGA4
Genomic and cartography
GoldenPath hg38 (UCSC)ITGA4  -     chr2:181456892-181476218 +  2q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)ITGA4  -     2q31.3   [Description]    (hg19-Feb_2009)
EnsemblITGA4 - 2q31.3 [CytoView hg19]  ITGA4 - 2q31.3 [CytoView hg38]
Mapping of homologs : NCBIITGA4 [Mapview hg19]  ITGA4 [Mapview hg38]
OMIM192975   
Gene and transcription
Genbank (Entrez)AB208885 AJ504733 AJ508356 AJ510246 AJ510247
RefSeq transcript (Entrez)NM_000885 NM_001316312
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)ITGA4
Cluster EST : UnigeneHs.440955 [ NCBI ]
CGAP (NCI)Hs.440955
Alternative Splicing GalleryENSG00000115232
Gene ExpressionITGA4 [ NCBI-GEO ]   ITGA4 [ EBI - ARRAY_EXPRESS ]   ITGA4 [ SEEK ]   ITGA4 [ MEM ]
Gene Expression Viewer (FireBrowse)ITGA4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3676
GTEX Portal (Tissue expression)ITGA4
Human Protein AtlasENSG00000115232-ITGA4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP13612   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP13612  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP13612
Splice isoforms : SwissVarP13612
PhosPhoSitePlusP13612
Domaine pattern : Prosite (Expaxy)FG_GAP (PS51470)    INTEGRIN_ALPHA (PS00242)   
Domains : Interpro (EBI)FG-GAP    Int_alpha_beta-p    Integrin_alpha    Integrin_alpha-2    Integrin_alpha_C_CS    Integrin_alpha_N    Integrin_dom_sf   
Domain families : Pfam (Sanger)FG-GAP (PF01839)    Integrin_alpha2 (PF08441)   
Domain families : Pfam (NCBI)pfam01839    pfam08441   
Domain families : Smart (EMBL)Int_alpha (SM00191)  
Conserved Domain (NCBI)ITGA4
DMDM Disease mutations3676
Blocks (Seattle)ITGA4
PDB (SRS)3V4P    3V4V    4HKC    5C7Z    5FPI   
PDB (PDBSum)3V4P    3V4V    4HKC    5C7Z    5FPI   
PDB (IMB)3V4P    3V4V    4HKC    5C7Z    5FPI   
PDB (RSDB)3V4P    3V4V    4HKC    5C7Z    5FPI   
Structural Biology KnowledgeBase3V4P    3V4V    4HKC    5C7Z    5FPI   
SCOP (Structural Classification of Proteins)3V4P    3V4V    4HKC    5C7Z    5FPI   
CATH (Classification of proteins structures)3V4P    3V4V    4HKC    5C7Z    5FPI   
SuperfamilyP13612
Human Protein Atlas [tissue]ENSG00000115232-ITGA4 [tissue]
Peptide AtlasP13612
HPRD01894
IPIIPI00916041   IPI00009803   IPI00385118   
Protein Interaction databases
DIP (DOE-UCLA)P13612
IntAct (EBI)P13612
FunCoupENSG00000115232
BioGRIDITGA4
STRING (EMBL)ITGA4
ZODIACITGA4
Ontologies - Pathways
QuickGOP13612
Ontology : AmiGOfibronectin binding  cell-matrix adhesion involved in ameboidal cell migration  protein binding  plasma membrane  plasma membrane  focal adhesion  leukocyte cell-cell adhesion  cell-matrix adhesion  integrin-mediated signaling pathway  cell surface  coreceptor activity  membrane  C-X3-C chemokine binding  B cell differentiation  extracellular matrix organization  heterotypic cell-cell adhesion  substrate adhesion-dependent cell spreading  integrin alpha4-beta7 complex  endodermal cell differentiation  receptor clustering  metal ion binding  regulation of immune response  cell adhesion molecule binding  cell adhesion molecule binding  leukocyte migration  leukocyte tethering or rolling  diapedesis  extracellular exosome  cellular response to cytokine stimulus  negative regulation of protein homodimerization activity  positive regulation of leukocyte tethering or rolling  positive regulation of vascular endothelial cell proliferation  protein antigen binding  clathrin-dependent extracellular exosome endocytosis  positive regulation of endothelial cell apoptotic process  positive regulation of T cell migration  
Ontology : EGO-EBIfibronectin binding  cell-matrix adhesion involved in ameboidal cell migration  protein binding  plasma membrane  plasma membrane  focal adhesion  leukocyte cell-cell adhesion  cell-matrix adhesion  integrin-mediated signaling pathway  cell surface  coreceptor activity  membrane  C-X3-C chemokine binding  B cell differentiation  extracellular matrix organization  heterotypic cell-cell adhesion  substrate adhesion-dependent cell spreading  integrin alpha4-beta7 complex  endodermal cell differentiation  receptor clustering  metal ion binding  regulation of immune response  cell adhesion molecule binding  cell adhesion molecule binding  leukocyte migration  leukocyte tethering or rolling  diapedesis  extracellular exosome  cellular response to cytokine stimulus  negative regulation of protein homodimerization activity  positive regulation of leukocyte tethering or rolling  positive regulation of vascular endothelial cell proliferation  protein antigen binding  clathrin-dependent extracellular exosome endocytosis  positive regulation of endothelial cell apoptotic process  positive regulation of T cell migration  
Pathways : KEGG   
NDEx NetworkITGA4
Atlas of Cancer Signalling NetworkITGA4
Wikipedia pathwaysITGA4
Orthology - Evolution
OrthoDB3676
GeneTree (enSembl)ENSG00000115232
Phylogenetic Trees/Animal Genes : TreeFamITGA4
HOVERGENP13612
HOGENOMP13612
Homologs : HomoloGeneITGA4
Homology/Alignments : Family Browser (UCSC)ITGA4
Gene fusions - Rearrangements
Fusion : MitelmanITGA4/UBE2E2 [2q31.3/3p24.3]  
Fusion PortalITGA4 2q31.3 UBE2E2 3p24.3 LGG
Fusion Cancer (Beijing)ITGA4 [2q31.3]  -  FBXO32 [8q24.13]  [FUSC003449]
Fusion : QuiverITGA4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerITGA4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ITGA4
dbVarITGA4
ClinVarITGA4
1000_GenomesITGA4 
Exome Variant ServerITGA4
ExAC (Exome Aggregation Consortium)ENSG00000115232
GNOMAD BrowserENSG00000115232
Varsome BrowserITGA4
Genetic variants : HAPMAP3676
Genomic Variants (DGV)ITGA4 [DGVbeta]
DECIPHERITGA4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisITGA4 
Mutations
ICGC Data PortalITGA4 
TCGA Data PortalITGA4 
Broad Tumor PortalITGA4
OASIS PortalITGA4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICITGA4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDITGA4
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 ITGA4
DgiDB (Drug Gene Interaction Database)ITGA4
DoCM (Curated mutations)ITGA4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ITGA4 (select a term)
intoGenITGA4
Cancer3DITGA4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM192975   
Orphanet
DisGeNETITGA4
MedgenITGA4
Genetic Testing Registry ITGA4
NextProtP13612 [Medical]
TSGene3676
GENETestsITGA4
Target ValidationITGA4
Huge Navigator ITGA4 [HugePedia]
snp3D : Map Gene to Disease3676
BioCentury BCIQITGA4
ClinGenITGA4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3676
Chemical/Pharm GKB GenePA29940
Clinical trialITGA4
Miscellaneous
canSAR (ICR)ITGA4 (select the gene name)
Probes
Litterature
PubMed269 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineITGA4
EVEXITGA4
GoPubMedITGA4
iHOPITGA4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Aug 27 11:29:43 CEST 2018
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