VCL (vinculin)

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VCL (vinculin)

Identity

Other names	CMD1W
	CMH15
	HEL114
	MV
	MVCL
HGNC (Hugo)	VCL
LocusID (NCBI)	7414
Atlas_Id	42785
Location	10q22.2 [Link to chromosome band 10q22]
Location_base_pair	Starts at 75757872 and ends at 75879914 bp from pter ( according to hg19-Feb_2009)

Fusion genes (updated 2016)	C10orf11 (10q22.2) / VCL (10q22.2)	KIF1C (17p13.2) / VCL (10q22.2)	PPP1R10 (6p21.33) / VCL (10q22.2)
	SLC44A2 (19p13.2) / VCL (10q22.2)	VCL (10q22.2) / ABCC8 (11p15.1)	VCL (10q22.2) / ADK (10q22.2)
	VCL (10q22.2) / ALK (2p23.2)	VCL (10q22.2) / FGFR2 (10q26.13)	VCL (10q22.2) / NTRK2 (9q21.33)
	VCL (10q22.2) / SEC24C (10q22.2)	VCL (10q22.2) / SFTPD (10q22.3)	VCL (10q22.2) / VCL (10q22.2)
	VCL (10q22.2) / ZSWIM8 (10q22.2)	VCL 10q22.2 / ALK 2p23.2	C10orf11 10q22.2 / VCL 10q22.2
	VCL 10q22.2 / FGFR2 10q26.13	VCL 10q22.2 KIAA0913	VCL 10q22.2 / SEC24C 10q22.2
	VCL 10q22.2 / SFTPD 10q22.3

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 Leukemias implicated (Data extracted from papers in the Atlas) [ 1 ]

t(4;11)(q35;q23) KMT2A/SORBS2

External links

	Nomenclature
HGNC (Hugo)	VCL 12665
	Cards
Entrez_Gene (NCBI)	VCL 7414 vinculin
Aliases	CMD1W; CMH15; HEL114; MV;
	MVCL
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 DataPortal	ENSG00000035403
TCGA cBioPortal	VCL
AceView (NCBI)	VCL
Genatlas (Paris)	VCL
WikiGenes	7414
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)
Ensembl	VCL - 10q22.2 [CytoView hg19] VCL - 10q22.2 [CytoView hg38]
Mapping of homologs : NCBI	VCL [Mapview hg19] VCL [Mapview hg38]
OMIM	193065 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 : Unigene	Hs.643896 [ NCBI ]
CGAP (NCI)	Hs.643896
Alternative Splicing Gallery	ENSG00000035403
Gene Expression	VCL [ NCBI-GEO ] VCL [ EBI - ARRAY_EXPRESS ] VCL [ SEEK ] VCL [ MEM ]
Gene Expression Viewer (FireBrowse)	VCL [ Firebrowse - Broad ]
SOURCE (Princeton)	Expression in : [Datasets] [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
Genevisible	Expression in : [tissues] [cell-lines] [cancer] [perturbations]
BioGPS (Tissue expression)	7414
GTEX Portal (Tissue expression)	VCL
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	P18206 (Uniprot)
NextProt	P18206 [Sequence] [Exons] [Medical] [Publications]
With graphics : InterPro	P18206
Splice isoforms : SwissVar	P18206 (Swissvar)
PhosPhoSitePlus	P18206
Domaine pattern : Prosite (Expaxy)	VINCULIN_1 (PS00663) VINCULIN_2 (PS00664)
Domains : Interpro (EBI)	Vinculin/catenin Vinculin_CS
Domain families : Pfam (Sanger)	Vinculin (PF01044)
Domain families : Pfam (NCBI)	pfam01044
DMDM Disease mutations	7414
Blocks (Seattle)	VCL
PDB (SRS)	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
PDB (PDBSum)	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
PDB (IMB)	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
PDB (RSDB)	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
Structural Biology KnowledgeBase	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
SCOP (Structural Classification of Proteins)	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
CATH (Classification of proteins structures)	1RKC 1RKE 1SYQ 1TR2 1YDI 2GWW 2HSQ 2IBF 3H2U 3H2V 3JBK 3MYI 3RF3 3S90 3TJ5 3TJ6 3VF0 4DJ9 4EHP 4LN2 4LNP 4PR9
Superfamily	P18206
Human Protein Atlas	ENSG00000035403
Peptide Atlas	P18206
HPRD	01900
IPI	IPI00307162 IPI00291175 IPI00384973 IPI00909711 IPI01011952 IPI00910496 IPI01014113
	Protein Interaction databases
DIP (DOE-UCLA)	P18206
IntAct (EBI)	P18206
FunCoup	ENSG00000035403
BioGRID	VCL
STRING (EMBL)	VCL
ZODIAC	VCL
	Ontologies - Pathways
QuickGO	P18206
Ontology : AmiGO	morphogenesis of an epithelium dystroglycan binding platelet degranulation actin binding actin binding structural molecule activity protein binding extracellular region cell cytosol cytoskeleton plasma membrane plasma membrane brush border cell-cell junction adherens junction cell-cell adherens junction zonula adherens fascia adherens focal adhesion focal adhesion movement of cell or subcellular component muscle contraction cell adhesion cell-matrix adhesion beta-catenin binding actin cytoskeleton lamellipodium assembly cell-substrate junction negative regulation of cell migration ubiquitin protein ligase binding adherens junction assembly protein localization to cell surface costamere costamere protein complex apical junction assembly membrane raft alpha-catenin binding cadherin binding axon extension extracellular exosome platelet aggregation epithelial cell-cell adhesion outer dense plaque of desmosome inner dense plaque of desmosome extracellular vesicle terminal web
Ontology : EGO-EBI	morphogenesis of an epithelium dystroglycan binding platelet degranulation actin binding actin binding structural molecule activity protein binding extracellular region cell cytosol cytoskeleton plasma membrane plasma membrane brush border cell-cell junction adherens junction cell-cell adherens junction zonula adherens fascia adherens focal adhesion focal adhesion movement of cell or subcellular component muscle contraction cell adhesion cell-matrix adhesion beta-catenin binding actin cytoskeleton lamellipodium assembly cell-substrate junction negative regulation of cell migration ubiquitin protein ligase binding adherens junction assembly protein localization to cell surface costamere costamere protein complex apical junction assembly membrane raft alpha-catenin binding cadherin binding axon extension extracellular exosome platelet aggregation epithelial cell-cell adhesion outer dense plaque of desmosome inner dense plaque of desmosome extracellular vesicle terminal web
Pathways : BIOCARTA	Rho cell motility signaling pathway [Genes] Integrin Signaling Pathway [Genes] Cell to Cell Adhesion Signaling [Genes]
Pathways : KEGG	Focal adhesion Adherens junction Leukocyte transendothelial migration Regulation of actin cytoskeleton Bacterial invasion of epithelial cells Shigellosis Amoebiasis
NDEx Network	VCL
Atlas of Cancer Signalling Network	VCL
Wikipedia pathways	VCL
	Orthology - Evolution
OrthoDB	7414
GeneTree (enSembl)	ENSG00000035403
Phylogenetic Trees/Animal Genes : TreeFam	VCL
Homologs : HomoloGene	VCL
Homology/Alignments : Family Browser (UCSC)	VCL
	Gene fusions - Rearrangements
Fusion: TCGA	C10orf11 10q22.2 VCL 10q22.2 LUAD
Fusion: TCGA	VCL 10q22.2 FGFR2 10q26.13 THCA
Fusion: TCGA	VCL 10q22.2 KIAA0913 OV
Fusion: TCGA	VCL 10q22.2 SEC24C 10q22.2 HNSC
Fusion: TCGA	VCL 10q22.2 SFTPD 10q22.3 LUSC
	Polymorphisms : SNP, variants
NCBI Variation Viewer	VCL [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	VCL
dbVar	VCL
ClinVar	VCL
1000_Genomes	VCL
Exome Variant Server	VCL
ExAC (Exome Aggregation Consortium)	VCL (select the gene name)
Genetic variants : HAPMAP	7414
Genomic Variants (DGV)	VCL [DGVbeta]
	Mutations
ICGC Data Portal	VCL
TCGA Data Portal	VCL
Broad Tumor Portal	VCL
OASIS Portal	VCL [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMIC	VCL
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
LOVD (Leiden Open Variation Database)	Zhejiang University Center for Genetic and Genomic Medicine (ZJU-CGGM)
LOVD (Leiden Open Variation Database)	MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMuta	search VCL
DgiDB (Drug Gene Interaction Database)	VCL
DoCM (Curated mutations)	VCL (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)	VCL (select a term)
intoGen	VCL
Impact of mutations	[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor]
	Diseases
DECIPHER (Syndromes)	10:75757872-75879914 ENSG00000035403
CONAN: Copy Number Analysis	VCL
Mutations and Diseases : HGMD	VCL
OMIM	193065 611407 613255
Medgen	VCL
Genetic Testing Registry	VCL
NextProt	P18206 [Medical]
TSGene	7414
GENETests	VCL
Huge Navigator	VCL [HugePedia]
snp3D : Map Gene to Disease	7414
BioCentury BCIQ	VCL
ClinGen	VCL
	Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD	7414
Chemical/Pharm GKB Gene	PA37288
Clinical trial	VCL
	Miscellaneous
canSAR (ICR)	VCL (select the gene name)
	Probes
	Litterature
PubMed	167 Pubmed reference(s) in Entrez
GeneRIFs	Gene References Into Functions (Entrez)
CoreMine	VCL
EVEX	VCL
GoPubMed	VCL
iHOP	VCL

Genes in title	automatic search in PubMed
REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

indexed on : Mon Sep 19 19:19:21 CEST 2016

Home Genes Leukemias Solid Tumours Cancer-Prone Deep Insight Case Reports Journals Portal Teaching

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.

Atlas of Genetics and Cytogenetics in Oncology and Haematology

VCL (vinculin)

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

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