Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   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

RAB40B (RAB40B, member RAS oncogene family)

Identity

Alias_symbol (synonym)SEC4L
RAR
Other alias
HGNC (Hugo) RAB40B
LocusID (NCBI) 10966
Atlas_Id 41995
Location 17q25.3  [Link to chromosome band 17q25]
Location_base_pair Starts at 80614943 and ends at 80656598 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
NPM1 (5q35.1) / RAB40B (17q25.3)NUMA1 (11q13.4) / RAB40B (17q25.3)PML (15q24.1) / RAB40B (17q25.3)
RAB40B (17q25.3) / NPM1 (5q35.1)RAB40B (17q25.3) / NUMA1 (11q13.4)RAB40B (17q25.3) / PML (15q24.1)
RAB40B (17q25.3) / RAB40B (17q25.3)RAB40B (17q25.3) / STAT5A (17q21.2)RAB40B (17q25.3) / ZBTB16 (11q23.2)
STAT5A (17q21.2) / RAB40B (17q25.3)WDR45B (17q25.3) / RAB40B (17q25.3)ZBTB16 (11q23.2) / RAB40B (17q25.3)
WDR45L RAB40B 17q25.3

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

 


External links

Nomenclature
HGNC (Hugo)RAB40B   18284
Cards
Entrez_Gene (NCBI)RAB40B  10966  RAB40B, member RAS oncogene family
AliasesRAR; SEC4L
GeneCards (Weizmann)RAB40B
Ensembl hg19 (Hinxton)ENSG00000141542 [Gene_View]  chr17:80614943-80656598 [Contig_View]  RAB40B [Vega]
Ensembl hg38 (Hinxton)ENSG00000141542 [Gene_View]  chr17:80614943-80656598 [Contig_View]  RAB40B [Vega]
ICGC DataPortalENSG00000141542
TCGA cBioPortalRAB40B
AceView (NCBI)RAB40B
Genatlas (Paris)RAB40B
WikiGenes10966
SOURCE (Princeton)RAB40B
Genetics Home Reference (NIH)RAB40B
Genomic and cartography
GoldenPath hg19 (UCSC)RAB40B  -     chr17:80614943-80656598 -  17q25.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)RAB40B  -     17q25.3   [Description]    (hg38-Dec_2013)
EnsemblRAB40B - 17q25.3 [CytoView hg19]  RAB40B - 17q25.3 [CytoView hg38]
Mapping of homologs : NCBIRAB40B [Mapview hg19]  RAB40B [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB209711 AK095782 AK124376 AL047483 BC018039
RefSeq transcript (Entrez)NM_006822
RefSeq genomic (Entrez)NC_000017 NC_018928 NT_010663 NW_004929408
Consensus coding sequences : CCDS (NCBI)RAB40B
Cluster EST : UnigeneHs.484068 [ NCBI ]
CGAP (NCI)Hs.484068
Alternative Splicing GalleryENSG00000141542
Gene ExpressionRAB40B [ NCBI-GEO ]   RAB40B [ EBI - ARRAY_EXPRESS ]   RAB40B [ SEEK ]   RAB40B [ MEM ]
Gene Expression Viewer (FireBrowse)RAB40B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10966
GTEX Portal (Tissue expression)RAB40B
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ12829   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ12829  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ12829
Splice isoforms : SwissVarQ12829
PhosPhoSitePlusQ12829
Domaine pattern : Prosite (Expaxy)RAB (PS51419)    SOCS (PS50225)   
Domains : Interpro (EBI)P-loop_NTPase    Small_GTP-bd_dom    Small_GTPase    Small_GTPase_Rab_type    SOCS_box   
Domain families : Pfam (Sanger)Ras (PF00071)    SOCS_box (PF07525)   
Domain families : Pfam (NCBI)pfam00071    pfam07525   
Domain families : Smart (EMBL)RAB (SM00175)  SOCS (SM00253)  SOCS_box (SM00969)  
Conserved Domain (NCBI)RAB40B
DMDM Disease mutations10966
Blocks (Seattle)RAB40B
SuperfamilyQ12829
Human Protein AtlasENSG00000141542
Peptide AtlasQ12829
HPRD11472
IPIIPI00009953   IPI01010100   
Protein Interaction databases
DIP (DOE-UCLA)Q12829
IntAct (EBI)Q12829
FunCoupENSG00000141542
BioGRIDRAB40B
STRING (EMBL)RAB40B
ZODIACRAB40B
Ontologies - Pathways
QuickGOQ12829
Ontology : AmiGOGTPase activity  GTP binding  intracellular  plasma membrane  intracellular protein transport  nucleocytoplasmic transport  small GTPase mediated signal transduction  protein ubiquitination  
Ontology : EGO-EBIGTPase activity  GTP binding  intracellular  plasma membrane  intracellular protein transport  nucleocytoplasmic transport  small GTPase mediated signal transduction  protein ubiquitination  
NDEx NetworkRAB40B
Atlas of Cancer Signalling NetworkRAB40B
Wikipedia pathwaysRAB40B
Orthology - Evolution
OrthoDB10966
GeneTree (enSembl)ENSG00000141542
Phylogenetic Trees/Animal Genes : TreeFamRAB40B
HOVERGENQ12829
HOGENOMQ12829
Homologs : HomoloGeneRAB40B
Homology/Alignments : Family Browser (UCSC)RAB40B
Gene fusions - Rearrangements
Fusion : MitelmanWDR45B/RAB40B [17q25.3/17q25.3]  [t(17;17)(q25;q25)]  
Fusion: TCGAWDR45L RAB40B 17q25.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRAB40B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RAB40B
dbVarRAB40B
ClinVarRAB40B
1000_GenomesRAB40B 
Exome Variant ServerRAB40B
ExAC (Exome Aggregation Consortium)RAB40B (select the gene name)
Genetic variants : HAPMAP10966
Genomic Variants (DGV)RAB40B [DGVbeta]
DECIPHER (Syndromes)17:80614943-80656598  ENSG00000141542
CONAN: Copy Number AnalysisRAB40B 
Mutations
ICGC Data PortalRAB40B 
TCGA Data PortalRAB40B 
Broad Tumor PortalRAB40B
OASIS PortalRAB40B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRAB40B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRAB40B
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch RAB40B
DgiDB (Drug Gene Interaction Database)RAB40B
DoCM (Curated mutations)RAB40B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RAB40B (select a term)
intoGenRAB40B
Cancer3DRAB40B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenRAB40B
Genetic Testing Registry RAB40B
NextProtQ12829 [Medical]
TSGene10966
GENETestsRAB40B
Huge Navigator RAB40B [HugePedia]
snp3D : Map Gene to Disease10966
BioCentury BCIQRAB40B
ClinGenRAB40B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10966
Chemical/Pharm GKB GenePA34138
Clinical trialRAB40B
Miscellaneous
canSAR (ICR)RAB40B (select the gene name)
Probes
Litterature
PubMed16 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRAB40B
EVEXRAB40B
GoPubMedRAB40B
iHOPRAB40B
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 : Tue Mar 14 13:24:01 CET 2017

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

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.