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    ddx41 DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 [ Danio rerio (zebrafish) ]

    Gene ID: 394020, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ddx41provided by ZNC
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 41provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-1927
    See related
    AllianceGenome:ZFIN:ZDB-GENE-030131-1927
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:55896; wu:fb92e02
    Summary
    Predicted to enable several functions, including ATP binding activity; RNA helicase activity; and zinc ion binding activity. Acts upstream of or within several processes, including nucleate erythrocyte development; positive regulation of non-canonical NF-kappaB signal transduction; and response to virus. Located in cytoplasm and nucleus. Is expressed in brain; digestive system; gill; heart; and immune system. Human ortholog(s) of this gene implicated in myeloproliferative neoplasm. Orthologous to human DDX41 (DEAD-box helicase 41). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See ddx41 in Genome Data Viewer
    Location:
    chromosome: 14
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (49934289..49943269, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (44785743..44795035, complement)

    Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 Neighboring gene ubiquitin-conjugating enzyme E2D 2 (UBC4/5 homolog, yeast), like Neighboring gene family with sequence similarity 193 member B Neighboring gene abhydrolase domain containing 18

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Grouper DDX41 exerts antiviral activity against fish iridovirus and nodavirus infection. Liu J, et al. Fish Shellfish Immunol, 2019 Aug. PMID 31082519
    2. Molecular and functional characterization of tilapia DDX41 in IFN regulation. Gan Z, et al. Fish Shellfish Immunol, 2020 Apr. PMID 32081808
    3. Conservation of the STING-Mediated Cytosolic DNA Sensing Pathway in Zebrafish. Ge R, et al. J Virol, 2015 Aug. PMID 25972544, Free PMC Article
    4. Excessive R-loops trigger an inflammatory cascade leading to increased HSPC production. Weinreb JT, et al. Dev Cell, 2021 Mar 8. PMID 33651979, Free PMC Article
    5. Ddx41 inhibition of DNA damage signaling permits erythroid progenitor expansion in zebrafish. Weinreb JT, et al. Haematologica, 2022 Mar 1. PMID 33763998, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Ddx41 inhibition of DNA damage signaling permits erythroid progenitor expansion in zebrafish.
      Title: Ddx41 inhibition of DNA damage signaling permits erythroid progenitor expansion in zebrafish.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC55896

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    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 zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within innate immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nucleate erythrocyte development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of non-canonical NF-kappaB signal transduction IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within response to virus IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within response to virus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in nucleus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX41
    XP_017214653.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007125.7 Reference GRCz11 Primary Assembly

      Range
      49934289..49943269 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017359164.3 → XP_017214653.1  probable ATP-dependent RNA helicase DDX41

      UniProtKB/TrEMBL
      A0A8M6Z9J0

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_201045.1: Suppressed sequence

      Description
      NM_201045.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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