Version 5.4
Homo sapiens Gene: DDX39B
Summary
InnateDB Gene IDBG-77725.6
Last Modified 2014-10-13 [Report errors or provide feedback]
Gene Symbol DDX39B
Gene Name DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
Synonyms BAT1; D6S81E; UAP56
Species Homo sapiens
Ensembl Gene ENSG00000198563
Encoded Proteins
IDBP-77729
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-238045
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371404
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371428
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371433
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371435
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371440
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371441
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371443
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371447
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371449
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371450
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371451
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-371454
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
IDBP-591568
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
Protein Structure
Useful resources Stemformatics EHFPI ImmGen
Entrez Gene
Summary This gene encodes a member of the DEAD box family of RNA-dependent ATPases that mediate ATP hydrolysis during pre-mRNA splicing. The encoded protein is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. This gene belongs to a cluster of genes localized in the vicinity of the genes encoding tumor necrosis factor alpha and tumor necrosis factor beta. These genes are all within the human major histocompatibility complex class III region. Mutations in this gene may be associated with rheumatoid arthritis. Alternative splicing results in multiple transcript variants. Related pseudogenes have been identified on both chromosomes 6 and 11. Read-through transcription also occurs between this gene and the upstream ATP6V1G2 (ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2) gene. [provided by RefSeq, Feb 2011]
Gene Information
Type Protein coding
Genomic Location Chromosome 6:31530219-31542448
Strand Reverse strand
Band p21.33
Transcripts
ENST00000376177 ENSP00000365347
ENST00000396172 ENSP00000379475
ENST00000458640 ENSP00000416269
ENST00000417023 ENSP00000406422
ENST00000431908 ENSP00000408000
ENST00000427214 ENSP00000399371
ENST00000428098 ENSP00000392672
ENST00000419338 ENSP00000410313
ENST00000456662 ENSP00000416350
ENST00000428450 ENSP00000405707
ENST00000449757 ENSP00000409426
ENST00000456976 ENSP00000393984
ENST00000418897 ENSP00000399841
ENST00000419020 ENSP00000405245
ENST00000474961
ENST00000462256
ENST00000484566 ENSP00000436220
ENST00000462421
ENST00000478365
ENST00000482195
ENST00000481456
Interactions
Number of Interactions This gene and/or its encoded proteins are associated with 100 experimentally validated interaction(s) in this database.
They are also associated with 3 interaction(s) predicted by orthology.
Experimentally validated
Total 100 [view]
Protein-Protein 98 [view]
Protein-DNA 1 [view]
Protein-RNA 1 [view]
DNA-DNA 0
RNA-RNA 0
DNA-RNA 0
Predicted by orthology
Total 3 [view]
Gene Ontology

Molecular Function
Accession GO Term
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0004004 ATP-dependent RNA helicase activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008186 RNA-dependent ATPase activity
GO:0016787 hydrolase activity
GO:0017070 U6 snRNA binding
GO:0030621 U4 snRNA binding
GO:0043008 ATP-dependent protein binding
GO:0044822 poly(A) RNA binding
Biological Process
GO:0000245 spliceosomal complex assembly
GO:0000398 mRNA splicing, via spliceosome
GO:0006200 ATP catabolic process
GO:0006406 mRNA export from nucleus
GO:0008152 metabolic process
GO:0008380 RNA splicing
GO:0010501 RNA secondary structure unwinding
GO:0032786 positive regulation of DNA-templated transcription, elongation
GO:0046784 intronless viral mRNA export from host nucleus
GO:2000002 negative regulation of DNA damage checkpoint
Cellular Component
GO:0000346 transcription export complex
GO:0005634 nucleus
GO:0005681 spliceosomal complex
GO:0005687 U4 snRNP
GO:0005688 U6 snRNP
GO:0005737 cytoplasm
GO:0016607 nuclear speck
Orthologs
Species
Mus musculus
Bos taurus
Gene ID
Gene Order
ENSMUSG00000019432
View Gene Order
ENSBTAG00000014490
Not yet available
Pathways
NETPATH
REACTOME
KEGG
hsa03040
Spliceosome pathway
hsa03013
RNA transport pathway
hsa03015
mRNA surveillance pathway pathway
INOH
PID NCI
Cross-References
SwissProt
TrEMBL
UniProt Splice Variant
Entrez Gene
UniGene Hs.623672 Hs.629173 Hs.630294 Hs.635791
RefSeq NM_004640 NM_080598
HUGO
OMIM
CCDS CCDS4697
HPRD 00805
IMGT
EMBL
GenPept
RNA Seq Atlas

If you use InnateDB for your research, please cite the following publication:

Breuer et al., InnateDB: systems biology of innate immunity and beyond - recent updates and continuing curation. Nucl. Acids Res. (2013) 41 (D1) 

InnateDB is being developed jointly by the Brinkman Laboratory (Simon Fraser University, British Columbia, Canada), the Hancock Laboratory (University of British Columbia, Vancouver, British Columbia) and the Lynn EMBL Australia Group (South Australian Health & Medical Research Institute and Flinders University, Adelaide, Australia).

Funding is currently provided by Allergen and EMBL Australia. Previous funding has been provided by Genome Canada, the Foundation for the National Institutes of Health through the Grand Challenges in Global Health initiative and by Teagasc. InnateDB curated interactions are licensed under the Design Science License. All other data is licensed under the terms of the originating database. Contact: innatedb-mail@sfu.ca