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    ddx4 DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 [ Danio rerio (zebrafish) ]

    Gene ID: 30263, updated on 17-Sep-2024

    Summary

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    Official Symbol
    ddx4provided by ZNC
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990415-272
    See related
    Ensembl:ENSDARG00000014373 AllianceGenome:ZFIN:ZDB-GENE-990415-272
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    vas; vlg; vasa; wu:fi24g05; zgc:109812; zgc:158535
    Summary
    Predicted to enable RNA binding activity and RNA helicase activity. Acts upstream of or within germ cell development; gonad development; and regulation of meiotic cell cycle. Located in P granule. Is expressed in several structures, including blastodisc; germ line cell; reproductive system; shield; and unfertilized egg. Orthologous to human DDX4 (DEAD-box helicase 4). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See ddx4 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (6884151..6905574)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (6925426..6946885)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene macrophage immunometabolism regulator Neighboring gene diphosphoinositol pentakisphosphate kinase 2 Neighboring gene solute carrier family 38 member 9 Neighboring gene SH2 domain containing 4A

    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. Stage Specific Transcriptomic Analysis and Database for Zebrafish Oogenesis. Bogoch Y, et al. Front Cell Dev Biol, 2022. PMID 35733854, Free PMC Article
    2. Germline Specific Expression of a vasa Homologue Gene in the Viviparous Fish Black Rockfish (Sebastes schlegelii) and Functional Analysis of the vasa 3' Untranslated Region. Zhou L, et al. Front Cell Dev Biol, 2020. PMID 33330452, Free PMC Article
    3. Extensive nuclear gyration and pervasive non-genic transcription during primordial germ cell development in zebrafish. Redl S, et al. Development, 2021 Jan 20. PMID 33298460, Free PMC Article
    4. Preservation of zebrafish genetic resources through testis cryopreservation and spermatogonia transplantation. Marinović Z, et al. Sci Rep, 2019 Sep 25. PMID 31554831, Free PMC Article
    5. Visualization of Turbot (Scophthalmus maximus) Primordial Germ Cells in vivo Using Fluorescent Protein Mediated by the 3' Untranslated Region of nanos3 or vasa Gene. Zhou L, et al. Mar Biotechnol (NY), 2019 Oct. PMID 31502176

    See all (229) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Bucky Ball Is a Novel Zebrafish Vasa ATPase Activator.
      Title: Bucky Ball Is a Novel Zebrafish Vasa ATPase Activator.
    2. Nanog suppresses the expression of vasa by directly regulating nlk1 in the early zebrafish embryo
      Title: Nanog suppresses the expression of vasa by directly regulating nlk1 in the early zebrafish embryo.
    3. studies provide insight into the function of zebrafish vasa during female meiosis, differentiation, and maintenance of germ-line stem cells.
      Title: Zebrafish vasa is required for germ-cell differentiation and maintenance.
    4. Gene includes a peculiar tandem repeat with three units each containing several tandemly arranged RNA-binding motifs (RGG boxes).
      Title: The vasa locus in zebrafish: multiple RGG boxes from duplications.
    5. characterisation of the zebrafish vasa locus
      Title: Expression of a vas::EGFP transgene in primordial germ cells of the zebrafish.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC158535

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA helicase activity 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 mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in gamete generation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in germ cell development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within germ cell development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within gonad development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of meiotic cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in P granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in P granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX4
    Names
    vasa homolog
    NP_571132.1
    XP_068079821.1
    XP_068079822.1

    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_131057.1 → NP_571132.1  probable ATP-dependent RNA helicase DDX4

      See identical proteins and their annotated locations for NP_571132.1

      Status: PROVISIONAL

      Source sequence(s)
      AB005147
      UniProtKB/TrEMBL
      O42107
      Related
      ENSDARP00000125001.1, ENSDART00000149334.3
      Conserved Domains (3) summary
      smart00487
      Location:292 → 506
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:279 → 493
      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:514 → 624
      Helicase_C; Helicase conserved C-terminal domain

    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_007121.7 Reference GRCz11 Primary Assembly

      Range
      6884151..6905574
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068223720.1 → XP_068079821.1  probable ATP-dependent RNA helicase DDX4 isoform X1

      Related
      ENSDARP00000124026.1, ENSDART00000149095.3

    2. XM_068223721.1 → XP_068079822.1  probable ATP-dependent RNA helicase DDX4 isoform X2

      Related
      ENSDARP00000123870.1, ENSDART00000148772.3
    Nucleotide Protein Strain
    Heading Accession and Version

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