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DDX39B (DExD-box helicase 39B)

Identity

Alias_namesBAT1
HLA-B associated transcript 1
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
DEAD-box helicase 39B
Alias_symbol (synonym)D6S81E
UAP56
Other alias
HGNC (Hugo) DDX39B
LocusID (NCBI) 7919
Atlas_Id 52094
Location 6p21.33  [Link to chromosome band 6p21]
Location_base_pair Starts at 31530219 and ends at 31542475 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)
ABCE1 (4q31.21) / DDX39B (6p21.33)AHCYL1 (1p13.3) / DDX39B (6p21.33)DDX39B (6p21.33) / EVC (4p16.2)
DDX39B (6p21.33) / HIVEP1 (6p24.1)DDX39B (6p21.33) / PLEKHB1 (11q13.4)DDX39B (6p21.33) / PPY (17q21.31)
DDX39B (6p21.33) / PRPH2 (6p21.1)DDX39B (6p21.33) / UBTD1 (10q24.1)ESPN (1p36.31) / DDX39B (6p21.33)
TCF12 (15q21.3) / DDX39B (6p21.33)ZNF107 (7q11.21) / DDX39B (6p21.33)ZNF232 (17p13.2) / DDX39B (6p21.33)
DDX39B 6p21.33 / PRPH2 6p21.1

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) [ 2 ]
  t(1;6)(p36;p21) ESPN/DDX39B
DDX39B/PRPH2 (6p21)


External links

Nomenclature
HGNC (Hugo)DDX39B   13917
Cards
Entrez_Gene (NCBI)DDX39B  7919  DExD-box helicase 39B
AliasesBAT1; D6S81E; UAP56
GeneCards (Weizmann)DDX39B
Ensembl hg19 (Hinxton)ENSG00000198563 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000198563 [Gene_View]  ENSG00000198563 [Sequence]  chr6:31530219-31542475 [Contig_View]  DDX39B [Vega]
ICGC DataPortalENSG00000198563
TCGA cBioPortalDDX39B
AceView (NCBI)DDX39B
Genatlas (Paris)DDX39B
WikiGenes7919
SOURCE (Princeton)DDX39B
Genetics Home Reference (NIH)DDX39B
Genomic and cartography
GoldenPath hg38 (UCSC)DDX39B  -     chr6:31530219-31542475 -  6p21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)DDX39B  -     6p21.33   [Description]    (hg19-Feb_2009)
EnsemblDDX39B - 6p21.33 [CytoView hg19]  DDX39B - 6p21.33 [CytoView hg38]
Mapping of homologs : NCBIDDX39B [Mapview hg19]  DDX39B [Mapview hg38]
OMIM142560   
Gene and transcription
Genbank (Entrez)AB209217 AK127767 AK222912 AK294939 AK295634
RefSeq transcript (Entrez)NM_004640 NM_080598
RefSeq genomic (Entrez)NC_000006 NT_113891 NT_167244 NT_167245 NT_167246 NT_167247 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)DDX39B
Cluster EST : UnigeneHs.730849 [ NCBI ]
CGAP (NCI)Hs.730849
Alternative Splicing GalleryENSG00000198563
Gene ExpressionDDX39B [ NCBI-GEO ]   DDX39B [ EBI - ARRAY_EXPRESS ]   DDX39B [ SEEK ]   DDX39B [ MEM ]
Gene Expression Viewer (FireBrowse)DDX39B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7919
GTEX Portal (Tissue expression)DDX39B
Human Protein AtlasENSG00000198563-DDX39B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13838   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ13838  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13838
Splice isoforms : SwissVarQ13838
Catalytic activity : Enzyme3.6.4.13 [ Enzyme-Expasy ]   3.6.4.133.6.4.13 [ IntEnz-EBI ]   3.6.4.13 [ BRENDA ]   3.6.4.13 [ KEGG ]   
PhosPhoSitePlusQ13838
Domaine pattern : Prosite (Expaxy)HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)    Q_MOTIF (PS51195)   
Domains : Interpro (EBI)DEAD/DEAH_box_helicase_dom    Helicase_ATP-bd    Helicase_C    P-loop_NTPase    RNA_helicase_DEAD_Q_motif   
Domain families : Pfam (Sanger)DEAD (PF00270)    Helicase_C (PF00271)   
Domain families : Pfam (NCBI)pfam00270    pfam00271   
Domain families : Smart (EMBL)DEXDc (SM00487)  HELICc (SM00490)  
Conserved Domain (NCBI)DDX39B
DMDM Disease mutations7919
Blocks (Seattle)DDX39B
PDB (SRS)1T5I    1T6N    1XTI    1XTJ    1XTK   
PDB (PDBSum)1T5I    1T6N    1XTI    1XTJ    1XTK   
PDB (IMB)1T5I    1T6N    1XTI    1XTJ    1XTK   
PDB (RSDB)1T5I    1T6N    1XTI    1XTJ    1XTK   
Structural Biology KnowledgeBase1T5I    1T6N    1XTI    1XTJ    1XTK   
SCOP (Structural Classification of Proteins)1T5I    1T6N    1XTI    1XTJ    1XTK   
CATH (Classification of proteins structures)1T5I    1T6N    1XTI    1XTJ    1XTK   
SuperfamilyQ13838
Human Protein Atlas [tissue]ENSG00000198563-DDX39B [tissue]
Peptide AtlasQ13838
HPRD00805
IPIIPI00848161   IPI00641829   IPI00908716   IPI00910878   IPI00792043   IPI01025218   IPI00643815   IPI00893580   IPI00641926   IPI00642880   IPI00641634   IPI00641325   IPI00642800   IPI00790636   IPI00796920   IPI00795722   IPI00791495   IPI00985355   IPI00939221   IPI00893228   IPI00893059   IPI00893446   IPI00893300   IPI00893920   IPI00893927   IPI00894161   IPI00894545   IPI00894437   IPI00892760   IPI00892588   IPI00640787   IPI00978476   
Protein Interaction databases
DIP (DOE-UCLA)Q13838
IntAct (EBI)Q13838
FunCoupENSG00000198563
BioGRIDDDX39B
STRING (EMBL)DDX39B
ZODIACDDX39B
Ontologies - Pathways
QuickGOQ13838
Ontology : AmiGOspliceosomal complex assembly  transcription export complex  mRNA splicing, via spliceosome  liver development  RNA binding  ATP-dependent RNA helicase activity  protein binding  ATP binding  nucleus  nucleoplasm  spliceosomal complex  U4 snRNP  U6 snRNP  cytoplasm  RNA export from nucleus  mRNA export from nucleus  mRNA export from nucleus  RNA-dependent ATPase activity  RNA splicing  RNA secondary structure unwinding  nuclear matrix  nuclear speck  ATPase activity  U6 snRNA binding  U4 snRNA binding  mRNA 3'-end processing  positive regulation of DNA-templated transcription, elongation  identical protein binding  ATP-dependent protein binding  protein-containing complex binding  positive regulation of translation  viral mRNA export from host cell nucleus  positive regulation of cell growth involved in cardiac muscle cell development  positive regulation of vascular smooth muscle cell proliferation  negative regulation of DNA damage checkpoint  positive regulation of DNA biosynthetic process  
Ontology : EGO-EBIspliceosomal complex assembly  transcription export complex  mRNA splicing, via spliceosome  liver development  RNA binding  ATP-dependent RNA helicase activity  protein binding  ATP binding  nucleus  nucleoplasm  spliceosomal complex  U4 snRNP  U6 snRNP  cytoplasm  RNA export from nucleus  mRNA export from nucleus  mRNA export from nucleus  RNA-dependent ATPase activity  RNA splicing  RNA secondary structure unwinding  nuclear matrix  nuclear speck  ATPase activity  U6 snRNA binding  U4 snRNA binding  mRNA 3'-end processing  positive regulation of DNA-templated transcription, elongation  identical protein binding  ATP-dependent protein binding  protein-containing complex binding  positive regulation of translation  viral mRNA export from host cell nucleus  positive regulation of cell growth involved in cardiac muscle cell development  positive regulation of vascular smooth muscle cell proliferation  negative regulation of DNA damage checkpoint  positive regulation of DNA biosynthetic process  
Pathways : KEGGRNA transport    mRNA surveillance pathway    Spliceosome    Influenza A   
NDEx NetworkDDX39B
Atlas of Cancer Signalling NetworkDDX39B
Wikipedia pathwaysDDX39B
Orthology - Evolution
OrthoDB7919
GeneTree (enSembl)ENSG00000198563
Phylogenetic Trees/Animal Genes : TreeFamDDX39B
HOVERGENQ13838
HOGENOMQ13838
Homologs : HomoloGeneDDX39B
Homology/Alignments : Family Browser (UCSC)DDX39B
Gene fusions - Rearrangements
Fusion : MitelmanDDX39B/PRPH2 [6p21.33/6p21.1]  
Fusion : MitelmanESPN/DDX39B [1p36.31/6p21.33]  [t(1;6)(p36;p21)]  
Fusion PortalDDX39B 6p21.33 PRPH2 6p21.1 BRCA
Fusion : QuiverDDX39B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerDDX39B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)DDX39B
dbVarDDX39B
ClinVarDDX39B
1000_GenomesDDX39B 
Exome Variant ServerDDX39B
ExAC (Exome Aggregation Consortium)ENSG00000198563
GNOMAD BrowserENSG00000198563
Varsome BrowserDDX39B
Genetic variants : HAPMAP7919
Genomic Variants (DGV)DDX39B [DGVbeta]
DECIPHERDDX39B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisDDX39B 
Mutations
ICGC Data PortalDDX39B 
TCGA Data PortalDDX39B 
Broad Tumor PortalDDX39B
OASIS PortalDDX39B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICDDX39B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDDDX39B
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 DDX39B
DgiDB (Drug Gene Interaction Database)DDX39B
DoCM (Curated mutations)DDX39B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)DDX39B (select a term)
intoGenDDX39B
Cancer3DDDX39B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM142560   
Orphanet
DisGeNETDDX39B
MedgenDDX39B
Genetic Testing Registry DDX39B
NextProtQ13838 [Medical]
TSGene7919
GENETestsDDX39B
Target ValidationDDX39B
Huge Navigator DDX39B [HugePedia]
snp3D : Map Gene to Disease7919
BioCentury BCIQDDX39B
ClinGenDDX39B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD7919
Chemical/Pharm GKB GenePA25262
Clinical trialDDX39B
Miscellaneous
canSAR (ICR)DDX39B (select the gene name)
Probes
Litterature
PubMed117 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineDDX39B
EVEXDDX39B
GoPubMedDDX39B
iHOPDDX39B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 6 11:01:58 CET 2018

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