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VTA1 (vesicle trafficking 1)

Identity

Alias_namesC6orf55
chromosome 6 open reading frame 55
Vps20-associated 1 homolog (S. cerevisiae)
vesicle (multivesicular body) trafficking 1
Alias_symbol (synonym)HSPC228
My012
Other aliasDRG-1
DRG1
LIP5
SBP1
HGNC (Hugo) VTA1
LocusID (NCBI) 51534
Atlas_Id 75657
Location 6q24.1  [Link to chromosome band 6q24]
Location_base_pair Starts at 142147162 and ends at 142220948 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)
ADGRG6 (6q24.1) / VTA1 (6q24.1)NHSL1 (6q23.3) / VTA1 (6q24.1)VTA1 (6q24.1) / HEBP2 (6q23.3)

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(6;6)(q24;q24) NHSL1/VTA1


External links

Nomenclature
HGNC (Hugo)VTA1   20954
Cards
Entrez_Gene (NCBI)VTA1  51534  vesicle trafficking 1
AliasesC6orf55; DRG-1; DRG1; HSPC228; 
LIP5; My012; SBP1
GeneCards (Weizmann)VTA1
Ensembl hg19 (Hinxton)ENSG00000009844 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000009844 [Gene_View]  chr6:142147162-142220948 [Contig_View]  VTA1 [Vega]
ICGC DataPortalENSG00000009844
TCGA cBioPortalVTA1
AceView (NCBI)VTA1
Genatlas (Paris)VTA1
WikiGenes51534
SOURCE (Princeton)VTA1
Genetics Home Reference (NIH)VTA1
Genomic and cartography
GoldenPath hg38 (UCSC)VTA1  -     chr6:142147162-142220948 +  6q24.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VTA1  -     6q24.1   [Description]    (hg19-Feb_2009)
EnsemblVTA1 - 6q24.1 [CytoView hg19]  VTA1 - 6q24.1 [CytoView hg38]
Mapping of homologs : NCBIVTA1 [Mapview hg19]  VTA1 [Mapview hg38]
OMIM610902   
Gene and transcription
Genbank (Entrez)AF060225 AF141341 AF151062 AF271994 AJ420507
RefSeq transcript (Entrez)NM_001286371 NM_001286372 NM_016485
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VTA1
Cluster EST : UnigeneHs.431367 [ NCBI ]
CGAP (NCI)Hs.431367
Alternative Splicing GalleryENSG00000009844
Gene ExpressionVTA1 [ NCBI-GEO ]   VTA1 [ EBI - ARRAY_EXPRESS ]   VTA1 [ SEEK ]   VTA1 [ MEM ]
Gene Expression Viewer (FireBrowse)VTA1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51534
GTEX Portal (Tissue expression)VTA1
Human Protein AtlasENSG00000009844-VTA1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NP79   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NP79  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NP79
Splice isoforms : SwissVarQ9NP79
PhosPhoSitePlusQ9NP79
Domains : Interpro (EBI)VPS_Vta1/CALS_N-dom   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)VTA1
DMDM Disease mutations51534
Blocks (Seattle)VTA1
PDB (SRS)2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
PDB (PDBSum)2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
PDB (IMB)2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
PDB (RSDB)2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
Structural Biology KnowledgeBase2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
SCOP (Structural Classification of Proteins)2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
CATH (Classification of proteins structures)2LXL    2LXM    4TXP    4TXQ    4TXR    4U7E   
SuperfamilyQ9NP79
Human Protein Atlas [tissue]ENSG00000009844-VTA1 [tissue]
Peptide AtlasQ9NP79
HPRD09855
IPIIPI00017160   IPI00908842   IPI00844002   IPI00643263   
Protein Interaction databases
DIP (DOE-UCLA)Q9NP79
IntAct (EBI)Q9NP79
FunCoupENSG00000009844
BioGRIDVTA1
STRING (EMBL)VTA1
ZODIACVTA1
Ontologies - Pathways
QuickGOQ9NP79
Ontology : AmiGO###############################################################################################################################################################################################################################################################                                
Ontology : EGO-EBI###############################################################################################################################################################################################################################################################                                
NDEx NetworkVTA1
Atlas of Cancer Signalling NetworkVTA1
Wikipedia pathwaysVTA1
Orthology - Evolution
OrthoDB51534
GeneTree (enSembl)ENSG00000009844
Phylogenetic Trees/Animal Genes : TreeFamVTA1
HOVERGENQ9NP79
HOGENOMQ9NP79
Homologs : HomoloGeneVTA1
Homology/Alignments : Family Browser (UCSC)VTA1
Gene fusions - Rearrangements
Fusion : QuiverVTA1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVTA1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VTA1
dbVarVTA1
ClinVarVTA1
1000_GenomesVTA1 
Exome Variant ServerVTA1
ExAC (Exome Aggregation Consortium)ENSG00000009844
GNOMAD BrowserENSG00000009844
Genetic variants : HAPMAP51534
Genomic Variants (DGV)VTA1 [DGVbeta]
DECIPHERVTA1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVTA1 
Mutations
ICGC Data PortalVTA1 
TCGA Data PortalVTA1 
Broad Tumor PortalVTA1
OASIS PortalVTA1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVTA1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVTA1
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 VTA1
DgiDB (Drug Gene Interaction Database)VTA1
DoCM (Curated mutations)VTA1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VTA1 (select a term)
intoGenVTA1
Cancer3DVTA1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610902   
Orphanet
DisGeNETVTA1
MedgenVTA1
Genetic Testing Registry VTA1
NextProtQ9NP79 [Medical]
TSGene51534
GENETestsVTA1
Target ValidationVTA1
Huge Navigator VTA1 [HugePedia]
snp3D : Map Gene to Disease51534
BioCentury BCIQVTA1
ClinGenVTA1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51534
Chemical/Pharm GKB GenePA162408932
Clinical trialVTA1
Miscellaneous
canSAR (ICR)VTA1 (select the gene name)
Probes
Litterature
PubMed1 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVTA1
EVEXVTA1
GoPubMedVTA1
iHOPVTA1
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 18:58:05 CET 2018

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