Atlas of Genetics and Cytogenetics in Oncology and Haematology

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VPS9D1 (VPS9 domain containing 1)

Identity

Alias_namesC16orf7
chromosome 16 open reading frame 7
Alias_symbol (synonym)ATP-BL
Other alias
HGNC (Hugo) VPS9D1
LocusID (NCBI) 9605
Atlas_Id 75641
Location 16q24.3  [Link to chromosome band 16q24]
Location_base_pair Starts at 89707133 and ends at 89720986 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)
VPS9D1 (16q24.3) / ZNF827 (4q31.21)

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 Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(4;16)(q31;q24) VPS9D1/ZNF827

External links

Nomenclature
HGNC (Hugo)VPS9D1   13526
Cards
Entrez_Gene (NCBI)VPS9D1  9605  VPS9 domain containing 1
AliasesATP-BL; C16orf7
GeneCards (Weizmann)VPS9D1
Ensembl hg19 (Hinxton)ENSG00000075399 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000075399 [Gene_View]  chr16:89707133-89720986 [Contig_View]  VPS9D1 [Vega]
ICGC DataPortalENSG00000075399
TCGA cBioPortalVPS9D1
AceView (NCBI)VPS9D1
Genatlas (Paris)VPS9D1
WikiGenes9605
SOURCE (Princeton)VPS9D1
Genetics Home Reference (NIH)VPS9D1
Genomic and cartography
GoldenPath hg38 (UCSC)VPS9D1  -     chr16:89707133-89720986 -  16q24.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VPS9D1  -     16q24.3   [Description]    (hg19-Feb_2009)
EnsemblVPS9D1 - 16q24.3 [CytoView hg19]  VPS9D1 - 16q24.3 [CytoView hg38]
Mapping of homologs : NCBIVPS9D1 [Mapview hg19]  VPS9D1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB018551 AI458261 BC052626 BC140442 BC148701
RefSeq transcript (Entrez)NM_004913
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VPS9D1
Cluster EST : UnigeneHs.164410 [ NCBI ]
CGAP (NCI)Hs.164410
Alternative Splicing GalleryENSG00000075399
Gene ExpressionVPS9D1 [ NCBI-GEO ]   VPS9D1 [ EBI - ARRAY_EXPRESS ]   VPS9D1 [ SEEK ]   VPS9D1 [ MEM ]
Gene Expression Viewer (FireBrowse)VPS9D1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9605
GTEX Portal (Tissue expression)VPS9D1
Human Protein AtlasENSG00000075399-VPS9D1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y2B5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y2B5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y2B5
Splice isoforms : SwissVarQ9Y2B5
PhosPhoSitePlusQ9Y2B5
Domaine pattern : Prosite (Expaxy)VPS9 (PS51205)   
Domains : Interpro (EBI)MIT    VPS9   
Domain families : Pfam (Sanger)VPS9 (PF02204)   
Domain families : Pfam (NCBI)pfam02204   
Domain families : Smart (EMBL)VPS9 (SM00167)  
Conserved Domain (NCBI)VPS9D1
DMDM Disease mutations9605
Blocks (Seattle)VPS9D1
SuperfamilyQ9Y2B5
Human Protein Atlas [tissue]ENSG00000075399-VPS9D1 [tissue]
Peptide AtlasQ9Y2B5
HPRD08508
IPIIPI00784021   IPI00973529   IPI00007385   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y2B5
IntAct (EBI)Q9Y2B5
FunCoupENSG00000075399
BioGRIDVPS9D1
STRING (EMBL)VPS9D1
ZODIACVPS9D1
Ontologies - Pathways
QuickGOQ9Y2B5
Ontology : AmiGOGTPase activator activity  transporter activity  ATP synthesis coupled proton transport  positive regulation of GTPase activity  
Ontology : EGO-EBIGTPase activator activity  transporter activity  ATP synthesis coupled proton transport  positive regulation of GTPase activity  
NDEx NetworkVPS9D1
Atlas of Cancer Signalling NetworkVPS9D1
Wikipedia pathwaysVPS9D1
Orthology - Evolution
OrthoDB9605
GeneTree (enSembl)ENSG00000075399
Phylogenetic Trees/Animal Genes : TreeFamVPS9D1
HOVERGENQ9Y2B5
HOGENOMQ9Y2B5
Homologs : HomoloGeneVPS9D1
Homology/Alignments : Family Browser (UCSC)VPS9D1
Gene fusions - Rearrangements
Fusion : QuiverVPS9D1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVPS9D1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VPS9D1
dbVarVPS9D1
ClinVarVPS9D1
1000_GenomesVPS9D1 
Exome Variant ServerVPS9D1
ExAC (Exome Aggregation Consortium)ENSG00000075399
GNOMAD BrowserENSG00000075399
Genetic variants : HAPMAP9605
Genomic Variants (DGV)VPS9D1 [DGVbeta]
DECIPHERVPS9D1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVPS9D1 
Mutations
ICGC Data PortalVPS9D1 
TCGA Data PortalVPS9D1 
Broad Tumor PortalVPS9D1
OASIS PortalVPS9D1 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDVPS9D1
BioMutasearch VPS9D1
DgiDB (Drug Gene Interaction Database)VPS9D1
DoCM (Curated mutations)VPS9D1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VPS9D1 (select a term)
intoGenVPS9D1
Cancer3DVPS9D1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETVPS9D1
MedgenVPS9D1
Genetic Testing Registry VPS9D1
NextProtQ9Y2B5 [Medical]
TSGene9605
GENETestsVPS9D1
Target ValidationVPS9D1
Huge Navigator VPS9D1 [HugePedia]
snp3D : Map Gene to Disease9605
BioCentury BCIQVPS9D1
ClinGenVPS9D1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9605
Chemical/Pharm GKB GenePA25562
Clinical trialVPS9D1
Miscellaneous
canSAR (ICR)VPS9D1 (select the gene name)
Probes
Litterature
PubMed5 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVPS9D1
EVEXVPS9D1
GoPubMedVPS9D1
iHOPVPS9D1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Feb 23 18:58:03 CET 2018
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