Atlas of Genetics and Cytogenetics in Oncology and Haematology


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VPS41 (VPS41, HOPS complex subunit)

Identity

Alias_namesvacuolar protein sorting 41 (yeast homolog)
vacuolar protein sorting 41 (yeast)
vacuolar protein sorting 41 homolog (S. cerevisiae)
Alias_symbol (synonym)HVSP41
Other aliasHVPS41
hVps41p
HGNC (Hugo) VPS41
LocusID (NCBI) 27072
Atlas_Id 56533
Location 7p14.1  [Link to chromosome band 7p14]
Location_base_pair Starts at 38763543 and ends at 38948800 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
KIAA1033 (12q23.3) / VPS41 (7p14.1)VPS41 (7p14.1) / AES (19p13.3)VPS41 (7p14.1) / KLF12 (13q22.1)
VPS41 (7p14.1) / NPSR1 (7p14.3)VPS41 (7p14.1) / SDK1 (7p22.2)

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)VPS41   12713
Cards
Entrez_Gene (NCBI)VPS41  27072  VPS41, HOPS complex subunit
AliasesHVPS41; HVSP41; hVps41p
GeneCards (Weizmann)VPS41
Ensembl hg19 (Hinxton)ENSG00000006715 [Gene_View]  chr7:38763543-38948800 [Contig_View]  VPS41 [Vega]
Ensembl hg38 (Hinxton)ENSG00000006715 [Gene_View]  chr7:38763543-38948800 [Contig_View]  VPS41 [Vega]
ICGC DataPortalENSG00000006715
TCGA cBioPortalVPS41
AceView (NCBI)VPS41
Genatlas (Paris)VPS41
WikiGenes27072
SOURCE (Princeton)VPS41
Genetics Home Reference (NIH)VPS41
Genomic and cartography
GoldenPath hg19 (UCSC)VPS41  -     chr7:38763543-38948800 -  7p14.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)VPS41  -     7p14.1   [Description]    (hg38-Dec_2013)
EnsemblVPS41 - 7p14.1 [CytoView hg19]  VPS41 - 7p14.1 [CytoView hg38]
Mapping of homologs : NCBIVPS41 [Mapview hg19]  VPS41 [Mapview hg38]
OMIM605485   
Gene and transcription
Genbank (Entrez)-
RefSeq transcript (Entrez)NM_014396 NM_080631
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VPS41
Cluster EST : UnigeneHs.592184 [ NCBI ]
CGAP (NCI)Hs.592184
Alternative Splicing GalleryENSG00000006715
Gene ExpressionVPS41 [ NCBI-GEO ]   VPS41 [ EBI - ARRAY_EXPRESS ]   VPS41 [ SEEK ]   VPS41 [ MEM ]
Gene Expression Viewer (FireBrowse)VPS41 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)27072
GTEX Portal (Tissue expression)VPS41
Protein : pattern, domain, 3D structure
UniProt/SwissProtP49754   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP49754  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP49754
Splice isoforms : SwissVarP49754
PhosPhoSitePlusP49754
Domaine pattern : Prosite (Expaxy)CHCR (PS50236)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)Clathrin_H-chain/VPS_repeat    TPR-like_helical_dom    VPS41    WD40/YVTN_repeat-like_dom    WD40_repeat_dom    Znf_RING    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)Clathrin (PF00637)   
Domain families : Pfam (NCBI)pfam00637   
Domain families : Smart (EMBL)CLH (SM00299)  
Conserved Domain (NCBI)VPS41
DMDM Disease mutations27072
Blocks (Seattle)VPS41
SuperfamilyP49754
Human Protein AtlasENSG00000006715
Peptide AtlasP49754
HPRD10402
IPIIPI00028051   IPI00215972   IPI00926228   IPI00081851   IPI00853307   IPI00853398   IPI00926687   IPI00924806   IPI00924584   
Protein Interaction databases
DIP (DOE-UCLA)P49754
IntAct (EBI)P49754
FunCoupENSG00000006715
BioGRIDVPS41
STRING (EMBL)VPS41
ZODIACVPS41
Ontologies - Pathways
QuickGOP49754
Ontology : AmiGOprotein binding  lysosomal membrane  early endosome  Golgi-associated vesicle  protein targeting to vacuole  autophagy  microtubule binding  zinc ion binding  endosome to lysosome transport  endosome membrane  microtubule cytoskeleton  AP-3 adaptor complex  clathrin-coated vesicle  HOPS complex  late endosome membrane  CORVET complex  endosomal vesicle fusion  regulation of SNARE complex assembly  vacuole fusion, non-autophagic  protein self-association  regulated exocytosis  GTPase binding  clathrin complex  late endosome to lysosome transport  
Ontology : EGO-EBIprotein binding  lysosomal membrane  early endosome  Golgi-associated vesicle  protein targeting to vacuole  autophagy  microtubule binding  zinc ion binding  endosome to lysosome transport  endosome membrane  microtubule cytoskeleton  AP-3 adaptor complex  clathrin-coated vesicle  HOPS complex  late endosome membrane  CORVET complex  endosomal vesicle fusion  regulation of SNARE complex assembly  vacuole fusion, non-autophagic  protein self-association  regulated exocytosis  GTPase binding  clathrin complex  late endosome to lysosome transport  
NDEx NetworkVPS41
Atlas of Cancer Signalling NetworkVPS41
Wikipedia pathwaysVPS41
Orthology - Evolution
OrthoDB27072
GeneTree (enSembl)ENSG00000006715
Phylogenetic Trees/Animal Genes : TreeFamVPS41
HOVERGENP49754
HOGENOMP49754
Homologs : HomoloGeneVPS41
Homology/Alignments : Family Browser (UCSC)VPS41
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVPS41 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VPS41
dbVarVPS41
ClinVarVPS41
1000_GenomesVPS41 
Exome Variant ServerVPS41
ExAC (Exome Aggregation Consortium)VPS41 (select the gene name)
Genetic variants : HAPMAP27072
Genomic Variants (DGV)VPS41 [DGVbeta]
DECIPHER (Syndromes)7:38763543-38948800  ENSG00000006715
CONAN: Copy Number AnalysisVPS41 
Mutations
ICGC Data PortalVPS41 
TCGA Data PortalVPS41 
Broad Tumor PortalVPS41
OASIS PortalVPS41 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVPS41  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVPS41
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 VPS41
DgiDB (Drug Gene Interaction Database)VPS41
DoCM (Curated mutations)VPS41 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VPS41 (select a term)
intoGenVPS41
Cancer3DVPS41(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605485   
Orphanet
MedgenVPS41
Genetic Testing Registry VPS41
NextProtP49754 [Medical]
TSGene27072
GENETestsVPS41
Huge Navigator VPS41 [HugePedia]
snp3D : Map Gene to Disease27072
BioCentury BCIQVPS41
ClinGenVPS41
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD27072
Chemical/Pharm GKB GenePA37328
Clinical trialVPS41
Miscellaneous
canSAR (ICR)VPS41 (select the gene name)
Probes
Litterature
PubMed32 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVPS41
EVEXVPS41
GoPubMedVPS41
iHOPVPS41
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 13:33:58 CET 2017

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