Atlas of Genetics and Cytogenetics in Oncology and Haematology

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VTN (vitronectin)

Identity

Alias (NCBI)V75
VN
VNT
HGNC (Hugo) VTN
HGNC Alias symbVN
HGNC Alias nameserum spreading factor
 somatomedin B
 complement S-protein
HGNC Previous namevitronectin (serum spreading factor, somatomedin B, complement S-protein)
LocusID (NCBI) 7448
Atlas_Id 42800
Location 17q11.2  [Link to chromosome band 17q11]
Location_base_pair Starts at 28367284 and ends at 28370307 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)
TJP1 (15q13.1) / VTN (17q11.2)

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)VTN   12724
Cards
Entrez_Gene (NCBI)VTN    vitronectin
AliasesV75; VN; VNT
GeneCards (Weizmann)VTN
Ensembl hg19 (Hinxton)ENSG00000109072 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000109072 [Gene_View]  ENSG00000109072 [Sequence]  chr17:28367284-28370307 [Contig_View]  VTN [Vega]
ICGC DataPortalENSG00000109072
TCGA cBioPortalVTN
AceView (NCBI)VTN
Genatlas (Paris)VTN
SOURCE (Princeton)VTN
Genetics Home Reference (NIH)VTN
Genomic and cartography
GoldenPath hg38 (UCSC)VTN  -     chr17:28367284-28370307 -  17q11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VTN  -     17q11.2   [Description]    (hg19-Feb_2009)
GoldenPathVTN - 17q11.2 [CytoView hg19]  VTN - 17q11.2 [CytoView hg38]
ImmunoBaseENSG00000109072
genome Data Viewer NCBIVTN [Mapview hg19]  
OMIM193190   
Gene and transcription
Genbank (Entrez)AI352496 AK298441 AK312968 BC005046 BG470977
RefSeq transcript (Entrez)NM_000638
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VTN
Alternative Splicing GalleryENSG00000109072
Gene ExpressionVTN [ NCBI-GEO ]   VTN [ EBI - ARRAY_EXPRESS ]   VTN [ SEEK ]   VTN [ MEM ]
Gene Expression Viewer (FireBrowse)VTN [ Firebrowse - Broad ]
GenevisibleExpression of VTN in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7448
GTEX Portal (Tissue expression)VTN
Human Protein AtlasENSG00000109072-VTN [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04004   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04004  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04004
Splice isoforms : SwissVarP04004
PhosPhoSitePlusP04004
Domaine pattern : Prosite (Expaxy)HEMOPEXIN (PS00024)    HEMOPEXIN_2 (PS51642)    SMB_1 (PS00524)    SMB_2 (PS50958)   
Domains : Interpro (EBI)Hemopexin-like_dom    Hemopexin-like_dom_sf    Hemopexin-like_repeat    Hemopexin_CS    Somatomedin_B-like_dom_sf    Somatomedin_B_chordata    Somatomedin_B_dom   
Domain families : Pfam (Sanger)Hemopexin (PF00045)    Somatomedin_B (PF01033)   
Domain families : Pfam (NCBI)pfam00045    pfam01033   
Domain families : Smart (EMBL)HX (SM00120)  SO (SM00201)  
Conserved Domain (NCBI)VTN
Blocks (Seattle)VTN
PDB (RSDB)1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
PDB Europe1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
PDB (PDBSum)1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
PDB (IMB)1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
Structural Biology KnowledgeBase1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
SCOP (Structural Classification of Proteins)1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
CATH (Classification of proteins structures)1OC0    1S4G    1SSU    2JQ8    3BT1    3BT2    4K24    6O5E   
SuperfamilyP04004
Human Protein Atlas [tissue]ENSG00000109072-VTN [tissue]
Peptide AtlasP04004
HPRD01902
IPIIPI00845414   
Protein Interaction databases
DIP (DOE-UCLA)P04004
IntAct (EBI)P04004
BioGRIDVTN
STRING (EMBL)VTN
ZODIACVTN
Ontologies - Pathways
QuickGOP04004
Ontology : AmiGOscavenger receptor activity  integrin binding  integrin binding  extracellular matrix structural constituent  extracellular matrix structural constituent  protein binding  collagen binding  extracellular region  extracellular region  extracellular region  basement membrane  extracellular space  extracellular space  endoplasmic reticulum  Golgi lumen  endocytosis  immune response  cell adhesion  cell-matrix adhesion  cell-matrix adhesion  heparin binding  positive regulation of cell-substrate adhesion  negative regulation of endopeptidase activity  positive regulation of smooth muscle cell migration  cell migration  negative regulation of blood coagulation  extracellular matrix organization  polysaccharide binding  regulation of complement activation  positive regulation of vascular endothelial growth factor receptor signaling pathway  positive regulation of protein binding  cell adhesion mediated by integrin  endodermal cell differentiation  identical protein binding  intracellular membrane-bounded organelle  rough endoplasmic reticulum lumen  positive regulation of receptor-mediated endocytosis  oligodendrocyte differentiation  positive regulation of peptidyl-tyrosine phosphorylation  extracellular matrix binding  protein polymerization  smooth muscle cell-matrix adhesion  collagen-containing extracellular matrix  collagen-containing extracellular matrix  collagen-containing extracellular matrix  collagen-containing extracellular matrix  extracellular exosome  alphav-beta3 integrin-vitronectin complex  blood microparticle  positive regulation of wound healing  liver regeneration  
Ontology : EGO-EBIscavenger receptor activity  integrin binding  integrin binding  extracellular matrix structural constituent  extracellular matrix structural constituent  protein binding  collagen binding  extracellular region  extracellular region  extracellular region  basement membrane  extracellular space  extracellular space  endoplasmic reticulum  Golgi lumen  endocytosis  immune response  cell adhesion  cell-matrix adhesion  cell-matrix adhesion  heparin binding  positive regulation of cell-substrate adhesion  negative regulation of endopeptidase activity  positive regulation of smooth muscle cell migration  cell migration  negative regulation of blood coagulation  extracellular matrix organization  polysaccharide binding  regulation of complement activation  positive regulation of vascular endothelial growth factor receptor signaling pathway  positive regulation of protein binding  cell adhesion mediated by integrin  endodermal cell differentiation  identical protein binding  intracellular membrane-bounded organelle  rough endoplasmic reticulum lumen  positive regulation of receptor-mediated endocytosis  oligodendrocyte differentiation  positive regulation of peptidyl-tyrosine phosphorylation  extracellular matrix binding  protein polymerization  smooth muscle cell-matrix adhesion  collagen-containing extracellular matrix  collagen-containing extracellular matrix  collagen-containing extracellular matrix  collagen-containing extracellular matrix  extracellular exosome  alphav-beta3 integrin-vitronectin complex  blood microparticle  positive regulation of wound healing  liver regeneration  
Pathways : KEGGPI3K-Akt signaling pathway    Focal adhesion    ECM-receptor interaction    Proteoglycans in cancer   
NDEx NetworkVTN
Atlas of Cancer Signalling NetworkVTN
Wikipedia pathwaysVTN
Orthology - Evolution
OrthoDB7448
GeneTree (enSembl)ENSG00000109072
Phylogenetic Trees/Animal Genes : TreeFamVTN
HOGENOMP04004
Homologs : HomoloGeneVTN
Homology/Alignments : Family Browser (UCSC)VTN
Gene fusions - Rearrangements
Fusion Cancer (Beijing)TJP1 [15q13.1]  -  VTN [17q11.2]  [FUSC002289]
Fusion : QuiverVTN
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVTN [hg38]
dbVarVTN
ClinVarVTN
MonarchVTN
1000_GenomesVTN 
Exome Variant ServerVTN
GNOMAD BrowserENSG00000109072
Varsome BrowserVTN
Genomic Variants (DGV)VTN [DGVbeta]
DECIPHERVTN [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVTN 
Mutations
ICGC Data PortalVTN 
TCGA Data PortalVTN 
Broad Tumor PortalVTN
OASIS PortalVTN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVTN  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DVTN
Mutations and Diseases : HGMDVTN
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 VTN
DgiDB (Drug Gene Interaction Database)VTN
DoCM (Curated mutations)VTN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VTN (select a term)
intoGenVTN
Cancer3DVTN(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM193190   
Orphanet
DisGeNETVTN
MedgenVTN
Genetic Testing Registry VTN
NextProtP04004 [Medical]
GENETestsVTN
Target ValidationVTN
Huge Navigator VTN [HugePedia]
ClinGenVTN
Clinical trials, drugs, therapy
MyCancerGenomeVTN
Protein Interactions : CTD
Pharm GKB GenePA37335
PharosP04004
Clinical trialVTN
Miscellaneous
canSAR (ICR)VTN (select the gene name)
HarmonizomeVTN
DataMed IndexVTN
Probes
Litterature
PubMed211 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXVTN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Jan 1 18:44:12 CET 2021
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