Atlas of Genetics and Cytogenetics in Oncology and Haematology


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VPS11 (VPS11, CORVET/HOPS core subunit)

Identity

Alias_namesvacuolar protein sorting 11 (yeast homolog)
vacuolar protein sorting 11 homolog (S. cerevisiae)
Alias_symbol (synonym)RNF108
PEP5
Other aliasEND1
HLD12
hVPS11
HGNC (Hugo) VPS11
LocusID (NCBI) 55823
Atlas_Id 56052
Location 11q23.3  [Link to chromosome band 11q23]
Location_base_pair Starts at 118938463 and ends at 118952688 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)VPS11   14583
Cards
Entrez_Gene (NCBI)VPS11  55823  VPS11, CORVET/HOPS core subunit
AliasesEND1; HLD12; PEP5; RNF108; 
hVPS11
GeneCards (Weizmann)VPS11
Ensembl hg19 (Hinxton)ENSG00000160695 [Gene_View]  chr11:118938463-118952688 [Contig_View]  VPS11 [Vega]
Ensembl hg38 (Hinxton)ENSG00000160695 [Gene_View]  chr11:118938463-118952688 [Contig_View]  VPS11 [Vega]
ICGC DataPortalENSG00000160695
TCGA cBioPortalVPS11
AceView (NCBI)VPS11
Genatlas (Paris)VPS11
WikiGenes55823
SOURCE (Princeton)VPS11
Genetics Home Reference (NIH)VPS11
Genomic and cartography
GoldenPath hg19 (UCSC)VPS11  -     chr11:118938463-118952688 +  11q23.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)VPS11  -     11q23.3   [Description]    (hg38-Dec_2013)
EnsemblVPS11 - 11q23.3 [CytoView hg19]  VPS11 - 11q23.3 [CytoView hg38]
Mapping of homologs : NCBIVPS11 [Mapview hg19]  VPS11 [Mapview hg38]
OMIM608549   616683   
Gene and transcription
Genbank (Entrez)-
RefSeq transcript (Entrez)NM_001290185 NM_021729
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VPS11
Cluster EST : UnigeneHs.234282 [ NCBI ]
CGAP (NCI)Hs.234282
Alternative Splicing GalleryENSG00000160695
Gene ExpressionVPS11 [ NCBI-GEO ]   VPS11 [ EBI - ARRAY_EXPRESS ]   VPS11 [ SEEK ]   VPS11 [ MEM ]
Gene Expression Viewer (FireBrowse)VPS11 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55823
GTEX Portal (Tissue expression)VPS11
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H270   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H270  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H270
Splice isoforms : SwissVarQ9H270
PhosPhoSitePlusQ9H270
Domaine pattern : Prosite (Expaxy)CHCR (PS50236)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)ARM-type_fold    Clathrin_H-chain/VPS_repeat    VPS11    VPS11_C    WD40/YVTN_repeat-like_dom    WD40_repeat_dom    Znf_RING    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)Clathrin (PF00637)    VPS11_C (PF12451)   
Domain families : Pfam (NCBI)pfam00637    pfam12451   
Domain families : Smart (EMBL)RING (SM00184)  
Conserved Domain (NCBI)VPS11
DMDM Disease mutations55823
Blocks (Seattle)VPS11
SuperfamilyQ9H270
Human Protein AtlasENSG00000160695
Peptide AtlasQ9H270
HPRD12258
IPIIPI00300697   IPI00902899   IPI00922401   
Protein Interaction databases
DIP (DOE-UCLA)Q9H270
IntAct (EBI)Q9H270
FunCoupENSG00000160695
BioGRIDVPS11
STRING (EMBL)VPS11
ZODIACVPS11
Ontologies - Pathways
QuickGOQ9H270
Ontology : AmiGOnucleotide binding  protein binding  lysosome  lysosome  lysosomal membrane  endosome  early endosome  late endosome  late endosome  autophagosome  intracellular protein transport  vesicle docking involved in exocytosis  autophagy  endosome organization  lysosome organization  zinc ion binding  endosome to lysosome transport  protein domain specific binding  syntaxin binding  clathrin-coated vesicle  endocytic vesicle  protein binding, bridging  HOPS complex  regulation of protein stability  late endosome membrane  endosomal vesicle fusion  regulation of SNARE complex assembly  regulation of organelle assembly  positive regulation of cellular protein catabolic process  positive regulation of protein targeting to mitochondrion  positive regulation of early endosome to late endosome transport  
Ontology : EGO-EBInucleotide binding  protein binding  lysosome  lysosome  lysosomal membrane  endosome  early endosome  late endosome  late endosome  autophagosome  intracellular protein transport  vesicle docking involved in exocytosis  autophagy  endosome organization  lysosome organization  zinc ion binding  endosome to lysosome transport  protein domain specific binding  syntaxin binding  clathrin-coated vesicle  endocytic vesicle  protein binding, bridging  HOPS complex  regulation of protein stability  late endosome membrane  endosomal vesicle fusion  regulation of SNARE complex assembly  regulation of organelle assembly  positive regulation of cellular protein catabolic process  positive regulation of protein targeting to mitochondrion  positive regulation of early endosome to late endosome transport  
NDEx NetworkVPS11
Atlas of Cancer Signalling NetworkVPS11
Wikipedia pathwaysVPS11
Orthology - Evolution
OrthoDB55823
GeneTree (enSembl)ENSG00000160695
Phylogenetic Trees/Animal Genes : TreeFamVPS11
HOVERGENQ9H270
HOGENOMQ9H270
Homologs : HomoloGeneVPS11
Homology/Alignments : Family Browser (UCSC)VPS11
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVPS11 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VPS11
dbVarVPS11
ClinVarVPS11
1000_GenomesVPS11 
Exome Variant ServerVPS11
ExAC (Exome Aggregation Consortium)VPS11 (select the gene name)
Genetic variants : HAPMAP55823
Genomic Variants (DGV)VPS11 [DGVbeta]
DECIPHER (Syndromes)11:118938463-118952688  ENSG00000160695
CONAN: Copy Number AnalysisVPS11 
Mutations
ICGC Data PortalVPS11 
TCGA Data PortalVPS11 
Broad Tumor PortalVPS11
OASIS PortalVPS11 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVPS11  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVPS11
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 VPS11
DgiDB (Drug Gene Interaction Database)VPS11
DoCM (Curated mutations)VPS11 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VPS11 (select a term)
intoGenVPS11
Cancer3DVPS11(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608549    616683   
Orphanet
MedgenVPS11
Genetic Testing Registry VPS11
NextProtQ9H270 [Medical]
TSGene55823
GENETestsVPS11
Huge Navigator VPS11 [HugePedia]
snp3D : Map Gene to Disease55823
BioCentury BCIQVPS11
ClinGenVPS11
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55823
Chemical/Pharm GKB GenePA37902
Clinical trialVPS11
Miscellaneous
canSAR (ICR)VPS11 (select the gene name)
Probes
Litterature
PubMed40 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVPS11
EVEXVPS11
GoPubMedVPS11
iHOPVPS11
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Mar 14 13:33:56 CET 2017

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