U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Ddx39b DEAD box helicase 39b [ Mus musculus (house mouse) ]

Gene ID: 53817, updated on 8-Jan-2023

Summary

Official Symbol
Ddx39bprovided by MGI
Official Full Name
DEAD box helicase 39bprovided by MGI
Primary source
MGI:MGI:99240
See related
Ensembl:ENSMUSG00000019432 AllianceGenome:MGI:99240
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Bat1; Bat-1; Bat1a; D6S81Eh; D17H6S81E; D17H6S81E-1; 0610030D10Rik
Summary
Predicted to enable several functions, including ATP-dependent protein binding activity; RNA helicase activity; and snRNA binding activity. Predicted to be involved in several processes, including RNA metabolic process; positive regulation of cell growth involved in cardiac muscle cell development; and positive regulation of macromolecule biosynthetic process. Predicted to act upstream of or within mRNA processing and mRNA transport. Located in nuclear speck. Is expressed in embryo. Human ortholog(s) of this gene implicated in type 1 diabetes mellitus. Orthologous to human DDX39B (DExD-box helicase 39B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 289.9), limb E14.5 (RPKM 249.9) and 28 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Ddx39b in Genome Data Viewer
Location:
17 B1; 17 18.6 cM
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (35460722..35472683)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (35241746..35253707)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene microRNA 6974 Neighboring gene lymphotoxin A Neighboring gene nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor like 1 Neighboring gene ATPase, H+ transporting, lysosomal V1 subunit G2 Neighboring gene predicted gene, 22589 Neighboring gene microRNA 6975 Neighboring gene predicted gene, 25128 Neighboring gene microRNA 8094 Neighboring gene histocompatibility 2, D region locus 1 Neighboring gene vacuolar protein sorting 52 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC19235, MGC38799

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP hydrolysis activity ISO
Inferred from Sequence Orthology
more info
 
enables ATP-dependent activity, acting on RNA ISO
Inferred from Sequence Orthology
more info
 
enables ATP-dependent protein binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA helicase activity ISO
Inferred from Sequence Orthology
more info
 
enables U4 snRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables U6 snRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in RNA secondary structure unwinding ISO
Inferred from Sequence Orthology
more info
 
involved_in RNA splicing ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in mRNA export from nucleus ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within mRNA transport IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of DNA damage checkpoint ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription, elongation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell growth involved in cardiac muscle cell development ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of translation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of vascular associated smooth muscle cell proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in spliceosomal complex assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in viral mRNA export from host cell nucleus ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of U4 snRNP ISO
Inferred from Sequence Orthology
more info
 
part_of U6 snRNP ISO
Inferred from Sequence Orthology
more info
 
colocalizes_with cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear matrix ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
 
part_of transcription export complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
spliceosome RNA helicase Ddx39b
Names
56 kDa U2AF65-associated protein
DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
DEAD box protein UAP56
HLA-B-associated transcript 1A
nuclear RNA helicase Bat1
spliceosome RNA helicase Bat1
NP_001239386.1
NP_062667.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001252457.1NP_001239386.1  spliceosome RNA helicase Ddx39b

    See identical proteins and their annotated locations for NP_001239386.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    CR974444
    Consensus CDS
    CCDS28695.1
    UniProtKB/Swiss-Prot
    Q8HW97, Q9Z1N5
    Related
    ENSMUSP00000134178.2, ENSMUST00000172549.2
    Conserved Domains (2) summary
    cd18787
    Location:262391
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17950
    Location:44251
    DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39
  2. NM_019693.3NP_062667.1  spliceosome RNA helicase Ddx39b

    See identical proteins and their annotated locations for NP_062667.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AA231260, AK051034, CN716634, CR974444
    Consensus CDS
    CCDS28695.1
    UniProtKB/Swiss-Prot
    Q8HW97, Q9Z1N5
    Related
    ENSMUSP00000070682.6, ENSMUST00000068056.12
    Conserved Domains (2) summary
    cd18787
    Location:262391
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17950
    Location:44251
    DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    35460722..35472683
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)