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Ddx41 DEAD box helicase 41 [ Mus musculus (house mouse) ]

Gene ID: 72935, updated on 11-Apr-2024

Summary

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Official Symbol
Ddx41provided by MGI
Official Full Name
DEAD box helicase 41provided by MGI
Primary source
MGI:MGI:1920185
See related
Ensembl:ENSMUSG00000021494 AllianceGenome:MGI:1920185
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
ABS; 2900024F02Rik
Summary
Enables DNA binding activity. Acts upstream of or within cellular response to interferon-beta; defense response to virus; and positive regulation of transcription by RNA polymerase II. Located in endoplasmic reticulum and nucleus. Is expressed in hippocampus; pancreas; and testis. Orthologous to human DDX41 (DEAD-box helicase 41). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary adult (RPKM 33.6), spleen adult (RPKM 30.7) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Ddx41 in Genome Data Viewer
Location:
13 B1; 13 30.06 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (55678223..55684471, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (55530410..55536658, complement)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene PDZ and LIM domain 7 Neighboring gene microRNA 6945 Neighboring gene STARR-positive B cell enhancer ABC_E10796 Neighboring gene docking protein 3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:55637802-55638169 Neighboring gene predicted gene, 46416 Neighboring gene family with sequence similarity 193, member B Neighboring gene predicted gene, 31364

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Germline DDX41 mutations cause ineffective hematopoiesis and myelodysplasia. Chlon TM, et al. Cell Stem Cell, 2021 Nov 4. PMID 34473945, Free PMC Article
  2. Bruton's tyrosine kinase phosphorylates DDX41 and activates its binding of dsDNA and STING to initiate type 1 interferon response. Lee KG, et al. Cell Rep, 2015 Feb 24. PMID 25704810
  3. The E3 ubiquitin ligase TRIM21 negatively regulates the innate immune response to intracellular double-stranded DNA. Zhang Z, et al. Nat Immunol, 2013 Feb. PMID 23222971, Free PMC Article
  4. DDX41 is needed for pre- and postnatal hematopoietic stem cell differentiation in mice. Ma J, et al. Stem Cell Reports, 2022 Apr 12. PMID 35303436, Free PMC Article
  5. The helicase DDX41 recognizes the bacterial secondary messengers cyclic di-GMP and cyclic di-AMP to activate a type I interferon immune response. Parvatiyar K, et al. Nat Immunol, 2012 Dec. PMID 23142775, Free PMC Article

See all (34) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. DDX41 is needed for pre- and postnatal hematopoietic stem cell differentiation in mice.
    Title: DDX41 is needed for pre- and postnatal hematopoietic stem cell differentiation in mice.
  2. Both DDX41 and cGAS are needed for the antiretroviral innate immune response to murine leukemia virus (MLV) and HIV in primary mouse macrophages and dendritic cells.
    Title: DDX41 Recognizes RNA/DNA Retroviral Reverse Transcripts and Is Critical for In Vivo Control of Murine Leukemia Virus Infection.
  3. Tyr364 and Tyr414 of DDX41 are critical for its recognition of AT-rich DNA and binding to STING, and tandem mass spectrometry identifies Tyr414 as the BTK phosphorylation site.
    Title: Bruton's tyrosine kinase phosphorylates DDX41 and activates its binding of dsDNA and STING to initiate type 1 interferon response.
  4. TRIM21 is an interferon-inducible E3 ligase that induces the Lys48-linked ubiquitination and degradation of DDX41 and negatively regulates the innate immune response to intracellular double-stranded DNA.
    Title: The E3 ubiquitin ligase TRIM21 negatively regulates the innate immune response to intracellular double-stranded DNA.
  5. DDX41 is an additional DNA sensor that depends on STING to sense pathogenic DNA.
    Title: The helicase DDX41 senses intracellular DNA mediated by the adaptor STING in dendritic cells.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (6)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
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 binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cellular response to interferon-beta IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within defense response to virus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
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
  
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
probable ATP-dependent RNA helicase DDX41
Names
DEAD (Asp-Glu-Ala-Asp) box polypeptide 41
DEAD box protein 41
DEAD-box protein abstrakt
NP_598820.2
XP_030103292.1

NCBI Reference Sequences (RefSeq)

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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_134059.2 → NP_598820.2  probable ATP-dependent RNA helicase DDX41

    See identical proteins and their annotated locations for NP_598820.2

    Status: VALIDATED

    Source sequence(s)
    AK013586, AK151427, BE864921, CJ303880, CX231996
    Consensus CDS
    CCDS26549.1
    UniProtKB/Swiss-Prot
    Q3U0E0, Q91VN6
    UniProtKB/TrEMBL
    Q3TI21
    Related
    ENSMUSP00000021956.9, ENSMUST00000021956.9
    Conserved Domains (3) summary
    smart00487
    Location:196 → 409
    DEXDc; DEAD-like helicases superfamily
    cd00268
    Location:183 → 397
    DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...
    pfam00271
    Location:418 → 527
    Helicase_C; Helicase conserved C-terminal domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000079.7 Reference GRCm39 C57BL/6J

    Range
    55678223..55684471 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030247432.2 → XP_030103292.1  probable ATP-dependent RNA helicase DDX41 isoform X1

    Conserved Domains (2) summary
    COG0513
    Location:20 → 433
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd17951
    Location:59 → 264
    DEADc_DDX41; DEAD-box helicase domain of DEAD box protein 41

RNA

  1. XR_003950486.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q91VN6.2 GenPept UniProtKB/Swiss-Prot:Q91VN6

Gene LinkOut

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