Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

VAPB (VAMP associated protein B and C)

Identity

Alias (NCBI)ALS8
VAMP-B
VAP-B
HGNC (Hugo) VAPB
HGNC Alias symbVAP-B
VAP-C
ALS8
HGNC Previous nameVAMP (vesicle-associated membrane protein)-associated protein B and C
LocusID (NCBI) 9217
Atlas_Id 53207
Location 20q13.32  [Link to chromosome band 20q13]
Location_base_pair Starts at 58389229 and ends at 58451100 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)
DAXX (6p21.32) / VAPB (20q13.32)VAPB (20q13.32) / CASS4 (20q13.2)VAPB (20q13.32) / DMD (Xp21.2)
VAPB (20q13.32) / IKZF3 (17q12)VAPB (20q13.32) / VAPB (20q13.32)VAPB 20q13.32 / CASS4 20q13.2

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)VAPB   12649
LRG (Locus Reference Genomic)LRG_656
Cards
Entrez_Gene (NCBI)VAPB    VAMP associated protein B and C
AliasesALS8; VAMP-B; VAP-B
GeneCards (Weizmann)VAPB
Ensembl hg19 (Hinxton)ENSG00000124164 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000124164 [Gene_View]  ENSG00000124164 [Sequence]  chr20:58389229-58451100 [Contig_View]  VAPB [Vega]
ICGC DataPortalENSG00000124164
TCGA cBioPortalVAPB
AceView (NCBI)VAPB
Genatlas (Paris)VAPB
SOURCE (Princeton)VAPB
Genetics Home Reference (NIH)VAPB
Genomic and cartography
GoldenPath hg38 (UCSC)VAPB  -     chr20:58389229-58451100 +  20q13.32   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VAPB  -     20q13.32   [Description]    (hg19-Feb_2009)
GoldenPathVAPB - 20q13.32 [CytoView hg19]  VAPB - 20q13.32 [CytoView hg38]
ImmunoBaseENSG00000124164
Genome Data Viewer NCBIVAPB [Mapview hg19]  
OMIM182980   605704   608627   
Gene and transcription
Genbank (Entrez)AB209665 AF086628 AF086629 AF160212 AK023241
RefSeq transcript (Entrez)NM_001195677 NM_004738
Consensus coding sequences : CCDS (NCBI)VAPB
Gene ExpressionVAPB [ NCBI-GEO ]   VAPB [ EBI - ARRAY_EXPRESS ]   VAPB [ SEEK ]   VAPB [ MEM ]
Gene Expression Viewer (FireBrowse)VAPB [ Firebrowse - Broad ]
GenevisibleExpression of VAPB in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9217
GTEX Portal (Tissue expression)VAPB
Human Protein AtlasENSG00000124164-VAPB [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95292   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95292  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95292
PhosPhoSitePlusO95292
Domaine pattern : Prosite (Expaxy)MSP (PS50202)   
Domains : Interpro (EBI)Ig-like_fold    MSP_dom    PapD-like_sf    VAP   
Domain families : Pfam (Sanger)Motile_Sperm (PF00635)   
Domain families : Pfam (NCBI)pfam00635   
Conserved Domain (NCBI)VAPB
PDB (RSDB)2MDK    3IKK   
PDB Europe2MDK    3IKK   
PDB (PDBSum)2MDK    3IKK   
PDB (IMB)2MDK    3IKK   
Structural Biology KnowledgeBase2MDK    3IKK   
SCOP (Structural Classification of Proteins)2MDK    3IKK   
CATH (Classification of proteins structures)2MDK    3IKK   
SuperfamilyO95292
AlphaFold pdb e-kbO95292   
Human Protein Atlas [tissue]ENSG00000124164-VAPB [tissue]
HPRD09300
Protein Interaction databases
DIP (DOE-UCLA)O95292
IntAct (EBI)O95292
BioGRIDVAPB
STRING (EMBL)VAPB
ZODIACVAPB
Ontologies - Pathways
QuickGOO95292
Ontology : AmiGOprotein binding  cytoplasm  endoplasmic reticulum  endoplasmic reticulum membrane  endoplasmic reticulum membrane  endoplasmic reticulum membrane  Golgi apparatus  plasma membrane  cellular calcium ion homeostasis  endoplasmic reticulum to Golgi vesicle-mediated transport  endoplasmic reticulum organization  microtubule binding  integral component of membrane  modulation by virus of host process  enzyme binding  sphingolipid biosynthetic process  endoplasmic reticulum unfolded protein response  FFAT motif binding  FFAT motif binding  FFAT motif binding  IRE1-mediated unfolded protein response  protein homodimerization activity  positive regulation of viral genome replication  cadherin binding  protein heterodimerization activity  beta-tubulin binding  endoplasmic reticulum-plasma membrane tethering  endoplasmic reticulum exit site  COPII-coated vesicle budding  endoplasmic reticulum membrane organization  
Ontology : EGO-EBIprotein binding  cytoplasm  endoplasmic reticulum  endoplasmic reticulum membrane  endoplasmic reticulum membrane  endoplasmic reticulum membrane  Golgi apparatus  plasma membrane  cellular calcium ion homeostasis  endoplasmic reticulum to Golgi vesicle-mediated transport  endoplasmic reticulum organization  microtubule binding  integral component of membrane  modulation by virus of host process  enzyme binding  sphingolipid biosynthetic process  endoplasmic reticulum unfolded protein response  FFAT motif binding  FFAT motif binding  FFAT motif binding  IRE1-mediated unfolded protein response  protein homodimerization activity  positive regulation of viral genome replication  cadherin binding  protein heterodimerization activity  beta-tubulin binding  endoplasmic reticulum-plasma membrane tethering  endoplasmic reticulum exit site  COPII-coated vesicle budding  endoplasmic reticulum membrane organization  
NDEx NetworkVAPB
Atlas of Cancer Signalling NetworkVAPB
Wikipedia pathwaysVAPB
Orthology - Evolution
OrthoDB9217
GeneTree (enSembl)ENSG00000124164
Phylogenetic Trees/Animal Genes : TreeFamVAPB
Homologs : HomoloGeneVAPB
Homology/Alignments : Family Browser (UCSC)VAPB
Gene fusions - Rearrangements
Fusion : MitelmanVAPB/CASS4 [20q13.32/20q13.2]  
Fusion : MitelmanVAPB/IKZF3 [20q13.32/17q12]  
Fusion : QuiverVAPB
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVAPB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VAPB
dbVarVAPB
ClinVarVAPB
MonarchVAPB
1000_GenomesVAPB 
Exome Variant ServerVAPB
GNOMAD BrowserENSG00000124164
Varsome BrowserVAPB
ACMGVAPB variants
VarityO95292
Genomic Variants (DGV)VAPB [DGVbeta]
DECIPHERVAPB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVAPB 
Mutations
ICGC Data PortalVAPB 
TCGA Data PortalVAPB 
Broad Tumor PortalVAPB
OASIS PortalVAPB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVAPB  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DVAPB
Mutations and Diseases : HGMDVAPB
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaVAPB
DgiDB (Drug Gene Interaction Database)VAPB
DoCM (Curated mutations)VAPB
CIViC (Clinical Interpretations of Variants in Cancer)VAPB
Cancer3DVAPB
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM182980    605704    608627   
Orphanet106    18654   
DisGeNETVAPB
MedgenVAPB
Genetic Testing Registry VAPB
NextProtO95292 [Medical]
GENETestsVAPB
Target ValidationVAPB
Huge Navigator VAPB [HugePedia]
ClinGenVAPB
Clinical trials, drugs, therapy
MyCancerGenomeVAPB
Protein Interactions : CTDVAPB
Pharm GKB GenePA37273
PharosO95292
Clinical trialVAPB
Miscellaneous
canSAR (ICR)VAPB
HarmonizomeVAPB
DataMed IndexVAPB
Probes
Litterature
PubMed172 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXVAPB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Oct 4 15:37:54 CEST 2021

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.