Atlas of Genetics and Cytogenetics in Oncology and Haematology


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VPS28 (VPS28, ESCRT-I subunit)

Identity

Alias_namesvacuolar protein sorting 28 (yeast)
vacuolar protein sorting 28 homolog (S. cerevisiae)
Other alias-
HGNC (Hugo) VPS28
LocusID (NCBI) 51160
Atlas_Id 42797
Location 8q24.3  [Link to chromosome band 8q24]
Location_base_pair Starts at 144423601 and ends at 144428563 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
NRBP2 (8q24.3) / VPS28 (8q24.3)PDPK1 (16p13.3) / VPS28 (8q24.3)PRKCZ (1p36.33) / VPS28 (8q24.3)
UBA52 (19p13.11) / VPS28 (8q24.3)VPS28 (8q24.3) / LOC100507412 (-)VPS28 (8q24.3) / SF3A1 (22q12.2)
VPS28 8q24.3 / SF3A1 22q12.2

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)VPS28   18178
Cards
Entrez_Gene (NCBI)VPS28  51160  VPS28, ESCRT-I subunit
Aliases
GeneCards (Weizmann)VPS28
Ensembl hg19 (Hinxton)ENSG00000160948 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000160948 [Gene_View]  chr8:144423601-144428563 [Contig_View]  VPS28 [Vega]
ICGC DataPortalENSG00000160948
TCGA cBioPortalVPS28
AceView (NCBI)VPS28
Genatlas (Paris)VPS28
WikiGenes51160
SOURCE (Princeton)VPS28
Genetics Home Reference (NIH)VPS28
Genomic and cartography
GoldenPath hg38 (UCSC)VPS28  -     chr8:144423601-144428563 -  8q24.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VPS28  -     8q24.3   [Description]    (hg19-Feb_2009)
EnsemblVPS28 - 8q24.3 [CytoView hg19]  VPS28 - 8q24.3 [CytoView hg38]
Mapping of homologs : NCBIVPS28 [Mapview hg19]  VPS28 [Mapview hg38]
OMIM611952   
Gene and transcription
Genbank (Entrez)AF182844 AF316887 AF445417 AK026865 AK090942
RefSeq transcript (Entrez)NM_016208 NM_183057
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VPS28
Cluster EST : UnigeneHs.650693 [ NCBI ]
CGAP (NCI)Hs.650693
Alternative Splicing GalleryENSG00000160948
Gene ExpressionVPS28 [ NCBI-GEO ]   VPS28 [ EBI - ARRAY_EXPRESS ]   VPS28 [ SEEK ]   VPS28 [ MEM ]
Gene Expression Viewer (FireBrowse)VPS28 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51160
GTEX Portal (Tissue expression)VPS28
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UK41   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UK41  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UK41
Splice isoforms : SwissVarQ9UK41
PhosPhoSitePlusQ9UK41
Domaine pattern : Prosite (Expaxy)VPS28_C (PS51310)    VPS28_N (PS51313)   
Domains : Interpro (EBI)VPS28    VPS28_C    VPS28_N   
Domain families : Pfam (Sanger)VPS28 (PF03997)   
Domain families : Pfam (NCBI)pfam03997   
Conserved Domain (NCBI)VPS28
DMDM Disease mutations51160
Blocks (Seattle)VPS28
SuperfamilyQ9UK41
Human Protein AtlasENSG00000160948
Peptide AtlasQ9UK41
HPRD11675
IPIIPI00007155   IPI00434742   IPI00328913   IPI00985182   IPI00978496   IPI00982906   IPI01012101   IPI00981223   IPI00977482   
Protein Interaction databases
DIP (DOE-UCLA)Q9UK41
IntAct (EBI)Q9UK41
FunCoupENSG00000160948
BioGRIDVPS28
STRING (EMBL)VPS28
ZODIACVPS28
Ontologies - Pathways
QuickGOQ9UK41
Ontology : AmiGOESCRT I complex  ESCRT I complex  protein binding  cytoplasm  endosome  early endosome  cytosol  plasma membrane  endosome membrane  endosome membrane  endosomal transport  macroautophagy  viral life cycle  negative regulation of protein ubiquitination  late endosome membrane  protein complex binding  multivesicular body assembly  viral budding via host ESCRT complex  ubiquitin binding  ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  positive regulation of protein catabolic process  extracellular exosome  intracellular transport of virus  positive regulation of ubiquitin-dependent endocytosis  
Ontology : EGO-EBIESCRT I complex  ESCRT I complex  protein binding  cytoplasm  endosome  early endosome  cytosol  plasma membrane  endosome membrane  endosome membrane  endosomal transport  macroautophagy  viral life cycle  negative regulation of protein ubiquitination  late endosome membrane  protein complex binding  multivesicular body assembly  viral budding via host ESCRT complex  ubiquitin binding  ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  positive regulation of protein catabolic process  extracellular exosome  intracellular transport of virus  positive regulation of ubiquitin-dependent endocytosis  
Pathways : KEGGEndocytosis   
NDEx NetworkVPS28
Atlas of Cancer Signalling NetworkVPS28
Wikipedia pathwaysVPS28
Orthology - Evolution
OrthoDB51160
GeneTree (enSembl)ENSG00000160948
Phylogenetic Trees/Animal Genes : TreeFamVPS28
HOVERGENQ9UK41
HOGENOMQ9UK41
Homologs : HomoloGeneVPS28
Homology/Alignments : Family Browser (UCSC)VPS28
Gene fusions - Rearrangements
Fusion : MitelmanNRBP2/VPS28 [8q24.3/8q24.3]  [t(8;8)(q24;q24)]  
Fusion : MitelmanVPS28/SF3A1 [8q24.3/22q12.2]  [t(8;22)(q24;q12)]  
Fusion: TCGAVPS28 8q24.3 SF3A1 22q12.2 PRAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVPS28 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VPS28
dbVarVPS28
ClinVarVPS28
1000_GenomesVPS28 
Exome Variant ServerVPS28
ExAC (Exome Aggregation Consortium)VPS28 (select the gene name)
Genetic variants : HAPMAP51160
Genomic Variants (DGV)VPS28 [DGVbeta]
DECIPHERVPS28 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVPS28 
Mutations
ICGC Data PortalVPS28 
TCGA Data PortalVPS28 
Broad Tumor PortalVPS28
OASIS PortalVPS28 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVPS28  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVPS28
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 VPS28
DgiDB (Drug Gene Interaction Database)VPS28
DoCM (Curated mutations)VPS28 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VPS28 (select a term)
intoGenVPS28
Cancer3DVPS28(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611952   
Orphanet
MedgenVPS28
Genetic Testing Registry VPS28
NextProtQ9UK41 [Medical]
TSGene51160
GENETestsVPS28
Target ValidationVPS28
Huge Navigator VPS28 [HugePedia]
snp3D : Map Gene to Disease51160
BioCentury BCIQVPS28
ClinGenVPS28
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51160
Chemical/Pharm GKB GenePA38512
Clinical trialVPS28
Miscellaneous
canSAR (ICR)VPS28 (select the gene name)
Probes
Litterature
PubMed63 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVPS28
EVEXVPS28
GoPubMedVPS28
iHOPVPS28
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 13:02:34 CEST 2017

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