Atlas of Genetics and Cytogenetics in Oncology and Haematology


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VCL (vinculin)

Identity

Other namesCMD1W
CMH15
HEL114
MV
MVCL
HGNC (Hugo) VCL
LocusID (NCBI) 7414
Atlas_Id 42785
Location 10q22.2
Location_base_pair Starts at 75757872 and ends at 75879914 bp from pter ( according to hg19-Feb_2009)

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)VCL   12665
Cards
Entrez_Gene (NCBI)VCL  7414  vinculin
GeneCards (Weizmann)VCL
Ensembl hg19 (Hinxton)ENSG00000035403 [Gene_View]  chr10:75757872-75879914 [Contig_View]  VCL [Vega]
Ensembl hg38 (Hinxton)ENSG00000035403 [Gene_View]  chr10:75757872-75879914 [Contig_View]  VCL [Vega]
ICGC DataPortalENSG00000035403
TCGA cBioPortalVCL
AceView (NCBI)VCL
Genatlas (Paris)VCL
WikiGenes7414
SOURCE (Princeton)VCL
Genomic and cartography
GoldenPath hg19 (UCSC)VCL  -     chr10:75757872-75879914 +  10q22.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)VCL  -     10q22.2   [Description]    (hg38-Dec_2013)
EnsemblVCL - 10q22.2 [CytoView hg19]  VCL - 10q22.2 [CytoView hg38]
Mapping of homologs : NCBIVCL [Mapview hg19]  VCL [Mapview hg38]
OMIM193065   611407   613255   
Gene and transcription
Genbank (Entrez)AA368699 AI290052 AK126978 AK296509 AK300280
RefSeq transcript (Entrez)NM_003373 NM_014000
RefSeq genomic (Entrez)NC_000010 NC_018921 NG_008868 NT_030059 NW_004929376
Consensus coding sequences : CCDS (NCBI)VCL
Cluster EST : UnigeneHs.643896 [ NCBI ]
CGAP (NCI)Hs.643896
Alternative Splicing : Fast-db (Paris)GSHG0003457
Alternative Splicing GalleryENSG00000035403
Gene ExpressionVCL [ NCBI-GEO ]     VCL [ SEEK ]   VCL [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP18206 (Uniprot)
NextProtP18206  [Medical]  [Publications]
With graphics : InterProP18206
Splice isoforms : SwissVarP18206 (Swissvar)
Domaine pattern : Prosite (Expaxy)VINCULIN_1 (PS00663)    VINCULIN_2 (PS00664)   
Domains : Interpro (EBI)Vinculin    Vinculin/catenin    Vinculin_CS   
Related proteins : CluSTrP18206
Domain families : Pfam (Sanger)Vinculin (PF01044)   
Domain families : Pfam (NCBI)pfam01044   
DMDM Disease mutations7414
Blocks (Seattle)P18206
PDB (SRS)1RKC    1RKE    1SYQ    1TR2    1YDI    2GWW    2HSQ    2IBF    3H2U    3H2V    3MYI    3RF3    3S90    3TJ5    3TJ6    3VF0    4DJ9    4EHP    4LN2    4LNP    4PR9   
PDB (PDBSum)1RKC    1RKE    1SYQ    1TR2    1YDI    2GWW    2HSQ    2IBF    3H2U    3H2V    3MYI    3RF3    3S90    3TJ5    3TJ6    3VF0    4DJ9    4EHP    4LN2    4LNP    4PR9   
PDB (IMB)1RKC    1RKE    1SYQ    1TR2    1YDI    2GWW    2HSQ    2IBF    3H2U    3H2V    3MYI    3RF3    3S90    3TJ5    3TJ6    3VF0    4DJ9    4EHP    4LN2    4LNP    4PR9   
PDB (RSDB)1RKC    1RKE    1SYQ    1TR2    1YDI    2GWW    2HSQ    2IBF    3H2U    3H2V    3MYI    3RF3    3S90    3TJ5    3TJ6    3VF0    4DJ9    4EHP    4LN2    4LNP    4PR9   
Human Protein AtlasENSG00000035403
Peptide AtlasP18206
HPRD01900
IPIIPI00307162   IPI00291175   IPI00384973   IPI00909711   IPI01011952   IPI00910496   IPI01014113   
Protein Interaction databases
DIP (DOE-UCLA)P18206
IntAct (EBI)P18206
FunCoupENSG00000035403
BioGRIDVCL
IntegromeDBVCL
STRING (EMBL)VCL
Ontologies - Pathways
QuickGOP18206
Ontology : AmiGOmorphogenesis of an epithelium  dystroglycan binding  platelet degranulation  actin binding  actin binding  structural molecule activity  protein binding  extracellular region  cytosol  cytoskeleton  plasma membrane  plasma membrane  cell-cell junction  adherens junction  cell-cell adherens junction  fascia adherens  focal adhesion  focal adhesion  movement of cell or subcellular component  muscle contraction  cell adhesion  cell-matrix adhesion  blood coagulation  beta-catenin binding  actin cytoskeleton  lamellipodium assembly  cell-substrate junction  platelet activation  negative regulation of cell migration  vesicle  adherens junction assembly  protein localization to cell surface  costamere  costamere  protein complex  apical junction assembly  alpha-catenin binding  cadherin binding  axon extension  extracellular exosome  platelet aggregation  epithelial cell-cell adhesion  
Ontology : EGO-EBImorphogenesis of an epithelium  dystroglycan binding  platelet degranulation  actin binding  actin binding  structural molecule activity  protein binding  extracellular region  cytosol  cytoskeleton  plasma membrane  plasma membrane  cell-cell junction  adherens junction  cell-cell adherens junction  fascia adherens  focal adhesion  focal adhesion  movement of cell or subcellular component  muscle contraction  cell adhesion  cell-matrix adhesion  blood coagulation  beta-catenin binding  actin cytoskeleton  lamellipodium assembly  cell-substrate junction  platelet activation  negative regulation of cell migration  vesicle  adherens junction assembly  protein localization to cell surface  costamere  costamere  protein complex  apical junction assembly  alpha-catenin binding  cadherin binding  axon extension  extracellular exosome  platelet aggregation  epithelial cell-cell adhesion  
Pathways : BIOCARTARho cell motility signaling pathway [Genes]    Integrin Signaling Pathway [Genes]    Cell to Cell Adhesion Signaling [Genes]   
Pathways : KEGGFocal adhesion    Adherens junction    Leukocyte transendothelial migration    Regulation of actin cytoskeleton    Bacterial invasion of epithelial cells    Shigellosis    Amoebiasis   
Protein Interaction DatabaseVCL
DoCM (Curated mutations)VCL
Wikipedia pathwaysVCL
Gene fusion - Rearrangements
Rearrangement : COSMICVCL [10q22.2]  -  ALK [2p23.2]  [fusion_1056]  [fusion_1057]
Gene fusion: TCGA
Polymorphisms : SNP, variants
NCBI Variation ViewerVCL [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VCL
dbVarVCL
ClinVarVCL
1000_GenomesVCL 
Exome Variant ServerVCL
SNP (GeneSNP Utah)VCL
SNP : HGBaseVCL
Genetic variants : HAPMAPVCL
Genomic Variants (DGV)VCL [DGVbeta]
Mutations
ICGC Data PortalVCL 
TCGA Data PortalVCL 
Tumor PortalVCL
Somatic Mutations in Cancer : COSMICVCL 
LOVD (Leiden Open Variation Database)genes/VCL
LOVD (Leiden Open Variation Database)genes/VCL
LOVD (Leiden Open Variation Database)genes/VCL
LOVD (Leiden Open Variation Database)genes/VCL
LOVD (Leiden Open Variation Database)genes/VCL
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)10:75757872-75879914
CONAN: Copy Number AnalysisVCL 
Mutations and Diseases : HGMDVCL
OMIM193065    611407    613255   
MedgenVCL
NextProtP18206 [Medical]
GENETestsVCL
Disease Genetic AssociationVCL
Huge Navigator VCL [HugePedia]  VCL [HugeCancerGEM]
snp3D : Map Gene to Disease7414
DGIdb (Drug Gene Interaction db)VCL
BioCentury BCIQVCL
General knowledge
Homologs : HomoloGeneVCL
Homology/Alignments : Family Browser (UCSC)VCL
Phylogenetic Trees/Animal Genes : TreeFamVCL
Chemical/Protein Interactions : CTD7414
Chemical/Pharm GKB GenePA37288
Clinical trialVCL
Cancer Resource (Charite)ENSG00000035403
Other databases
Probes
Litterature
PubMed156 Pubmed reference(s) in Entrez
CoreMineVCL
GoPubMedVCL
iHOPVCL
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri May 29 19:33:07 CEST 2015

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