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    ddx5 DEAD (Asp-Glu-Ala-Asp) box helicase 5 [ Danio rerio (zebrafish) ]

    Gene ID: 322206, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ddx5provided by ZNC
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box helicase 5provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-925
    See related
    Ensembl:ENSDARG00000038068 AllianceGenome:ZFIN:ZDB-GENE-030131-925
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fa56a07; wu:fb11e01; wu:fb16c10; wu:fb53b05
    Summary
    Enables mRNA 3'-UTR binding activity. Acts upstream of or within oocyte maturation. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasm and nucleus. Is expressed in gonad; immature gonad; oocyte stage I; oocyte stage II; and testis. Orthologous to human DDX5 (DEAD-box helicase 5). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ddx5 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (25269861..25275419, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (25139313..25144871, complement)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene C1q and TNF related 6a Neighboring gene beta-1,4-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase a Neighboring gene SMAD specific E3 ubiquitin protein ligase 2 Neighboring gene karyopherin alpha 2 (RAG cohort 1, importin alpha 1)

    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
    • 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. Critical roles of the ddx5 gene in zebrafish sex differentiation and oocyte maturation. Sone R, et al. Sci Rep, 2020 Sep 1. PMID 32873816, Free PMC Article
    2. Black carp vasa identifies embryonic and gonadal germ cells. Xue T, et al. Dev Genes Evol, 2017 Jul. PMID 28550373
    3. Identification and sexually dimorphic expression of vasa isoforms in Dabry's sturgeon (Acipenser dabryanus), and functional analysis of vasa 3'-untranslated region. Ye H, et al. Cell Tissue Res, 2016 Oct. PMID 27184950
    4. The zebrafish miR-462/miR-731 cluster is induced under hypoxic stress via hypoxia-inducible factor 1α and functions in cellular adaptations. Huang CX, et al. FASEB J, 2015 Dec. PMID 26265472
    5. Fatty liver disease induced by perfluorooctane sulfonate: Novel insight from transcriptome analysis. Fai Tse WK, et al. Chemosphere, 2016 Sep. PMID 27289203

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 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 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within oocyte maturation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX5
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 5
    DEAD box RNA helicase
    NP_001296454.1
    NP_997777.2

    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_001309525.1 → NP_001296454.1  probable ATP-dependent RNA helicase DDX5 isoform 2

      See identical proteins and their annotated locations for NP_001296454.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice junction in the 3' coding sequence compared to variant 1, that causes a frameshift. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      BX085195
      UniProtKB/TrEMBL
      A0A7U3LP80, F6P6E7, Q6NWH7
      Related
      ENSDARP00000121201.1, ENSDART00000145420.3
      Conserved Domains (1) summary
      PTZ00110
      Location:3 → 484
      PTZ00110; helicase; Provisional

    2. NM_212612.2 → NP_997777.2  probable ATP-dependent RNA helicase DDX5 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      BX085195
      UniProtKB/TrEMBL
      A0A8M1PKV3, F1Q5L6
      Related
      ENSDARP00000055491.5, ENSDART00000055492.7
      Conserved Domains (3) summary
      PRK01297
      Location:25 → 446
      PRK01297; ATP-dependent RNA helicase RhlB; Provisional
      cd00079
      Location:314 → 446
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      cd00268
      Location:98 → 303
      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 ...

    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_007114.7 Reference GRCz11 Primary Assembly

      Range
      25269861..25275419 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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