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VPS29 (VPS29, retromer complex component)

Identity

Alias_namesvacuolar protein sorting 29 homolog (S. cerevisiae)
Alias_symbol (synonym)PEP11
DC7
DC15
Other alias
HGNC (Hugo) VPS29
LocusID (NCBI) 51699
Atlas_Id 75632
Location 12q24.11  [Link to chromosome band 12q24]
Location_base_pair Starts at 110491523 and ends at 110502140 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
VPS29 (12q24.11) / VPS29 (12q24.11)VPS29 (12q24.11) / ZNF776 (19q13.43)

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)VPS29   14340
Cards
Entrez_Gene (NCBI)VPS29  51699  VPS29, retromer complex component
AliasesDC15; DC7; PEP11
GeneCards (Weizmann)VPS29
Ensembl hg19 (Hinxton)ENSG00000111237 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000111237 [Gene_View]  chr12:110491523-110502140 [Contig_View]  VPS29 [Vega]
ICGC DataPortalENSG00000111237
TCGA cBioPortalVPS29
AceView (NCBI)VPS29
Genatlas (Paris)VPS29
WikiGenes51699
SOURCE (Princeton)VPS29
Genetics Home Reference (NIH)VPS29
Genomic and cartography
GoldenPath hg38 (UCSC)VPS29  -     chr12:110491523-110502140 -  12q24.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VPS29  -     12q24.11   [Description]    (hg19-Feb_2009)
EnsemblVPS29 - 12q24.11 [CytoView hg19]  VPS29 - 12q24.11 [CytoView hg38]
Mapping of homologs : NCBIVPS29 [Mapview hg19]  VPS29 [Mapview hg38]
OMIM606932   
Gene and transcription
Genbank (Entrez)AA148059 AB578890 AB578891 AB578892 AB618733
RefSeq transcript (Entrez)NM_001282150 NM_001282151 NM_016226 NM_057180
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VPS29
Cluster EST : UnigeneHs.600114 [ NCBI ]
CGAP (NCI)Hs.600114
Alternative Splicing GalleryENSG00000111237
Gene ExpressionVPS29 [ NCBI-GEO ]   VPS29 [ EBI - ARRAY_EXPRESS ]   VPS29 [ SEEK ]   VPS29 [ MEM ]
Gene Expression Viewer (FireBrowse)VPS29 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51699
GTEX Portal (Tissue expression)VPS29
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UBQ0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UBQ0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UBQ0
Splice isoforms : SwissVarQ9UBQ0
PhosPhoSitePlusQ9UBQ0
Domains : Interpro (EBI)Calcineurin-like_PHP_lpxH    Metallo-depent_PP-like    Phosphodiesterase_MJ0936/Vps29    Vps29   
Domain families : Pfam (Sanger)Metallophos_2 (PF12850)   
Domain families : Pfam (NCBI)pfam12850   
Conserved Domain (NCBI)VPS29
DMDM Disease mutations51699
Blocks (Seattle)VPS29
PDB (SRS)1W24    2R17    5GTU   
PDB (PDBSum)1W24    2R17    5GTU   
PDB (IMB)1W24    2R17    5GTU   
PDB (RSDB)1W24    2R17    5GTU   
Structural Biology KnowledgeBase1W24    2R17    5GTU   
SCOP (Structural Classification of Proteins)1W24    2R17    5GTU   
CATH (Classification of proteins structures)1W24    2R17    5GTU   
SuperfamilyQ9UBQ0
Human Protein AtlasENSG00000111237
Peptide AtlasQ9UBQ0
HPRD09499
IPIIPI00170796   IPI00184284   IPI00383855   IPI01020820   IPI00791280   IPI01021500   
Protein Interaction databases
DIP (DOE-UCLA)Q9UBQ0
IntAct (EBI)Q9UBQ0
FunCoupENSG00000111237
BioGRIDVPS29
STRING (EMBL)VPS29
ZODIACVPS29
Ontologies - Pathways
QuickGOQ9UBQ0
Ontology : AmiGOprotein binding  endosome  early endosome  late endosome  cytosol  cytosol  endosome membrane  regulation of autophagy  protein transport  Wnt signaling pathway  retromer complex  retromer, cargo-selective complex  retromer, cargo-selective complex  retrograde transport, endosome to Golgi  intracellular membrane-bounded organelle  metal ion binding  extracellular exosome  retrograde transport, endosome to plasma membrane  
Ontology : EGO-EBIprotein binding  endosome  early endosome  late endosome  cytosol  cytosol  endosome membrane  regulation of autophagy  protein transport  Wnt signaling pathway  retromer complex  retromer, cargo-selective complex  retromer, cargo-selective complex  retrograde transport, endosome to Golgi  intracellular membrane-bounded organelle  metal ion binding  extracellular exosome  retrograde transport, endosome to plasma membrane  
NDEx NetworkVPS29
Atlas of Cancer Signalling NetworkVPS29
Wikipedia pathwaysVPS29
Orthology - Evolution
OrthoDB51699
GeneTree (enSembl)ENSG00000111237
Phylogenetic Trees/Animal Genes : TreeFamVPS29
HOVERGENQ9UBQ0
HOGENOMQ9UBQ0
Homologs : HomoloGeneVPS29
Homology/Alignments : Family Browser (UCSC)VPS29
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVPS29 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VPS29
dbVarVPS29
ClinVarVPS29
1000_GenomesVPS29 
Exome Variant ServerVPS29
ExAC (Exome Aggregation Consortium)VPS29 (select the gene name)
Genetic variants : HAPMAP51699
Genomic Variants (DGV)VPS29 [DGVbeta]
DECIPHERVPS29 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVPS29 
Mutations
ICGC Data PortalVPS29 
TCGA Data PortalVPS29 
Broad Tumor PortalVPS29
OASIS PortalVPS29 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVPS29  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVPS29
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch VPS29
DgiDB (Drug Gene Interaction Database)VPS29
DoCM (Curated mutations)VPS29 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VPS29 (select a term)
intoGenVPS29
Cancer3DVPS29(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606932   
Orphanet
MedgenVPS29
Genetic Testing Registry VPS29
NextProtQ9UBQ0 [Medical]
TSGene51699
GENETestsVPS29
Target ValidationVPS29
Huge Navigator VPS29 [HugePedia]
snp3D : Map Gene to Disease51699
BioCentury BCIQVPS29
ClinGenVPS29
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51699
Chemical/Pharm GKB GenePA37875
Clinical trialVPS29
Miscellaneous
canSAR (ICR)VPS29 (select the gene name)
Probes
Litterature
PubMed43 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVPS29
EVEXVPS29
GoPubMedVPS29
iHOPVPS29
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed May 31 15:48:40 CEST 2017

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