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    ddx21 DEAD (Asp-Glu-Ala-Asp) box helicase 21 [ Danio rerio (zebrafish) ]

    Gene ID: 799650, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ddx21provided by ZNC
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box helicase 21provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-031113-10
    See related
    Ensembl:ENSDARG00000063626 AllianceGenome:ZFIN:ZDB-GENE-031113-10
    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
    cb960; wu:fi30c07; wu:fi34d08
    Summary
    Predicted to enable RNA helicase activity and mRNA binding activity. Predicted to be active in nucleolus. Is expressed in several structures, including alar plate midbrain region; digestive system; musculature system; nervous system; and segmental plate. Orthologous to several human genes including DDX21 (DExD-box helicase 21). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See ddx21 in Genome Data Viewer
    Location:
    chromosome: 13
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (319576..330004, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (189374..199805, complement)

    Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene chitin synthase 1 Neighboring gene interferon regulatory factor 1a Neighboring gene zgc:171534 Neighboring gene si:ch1073-291c23.2

    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. Tissue-selective effects of nucleolar stress and rDNA damage in developmental disorders. Calo E, et al. Nature, 2018 Feb 1. PMID 29364875, Free PMC Article
    2. Genome Editing in Zebrafish by ScCas9 Recognizing NNG PAM. Liu Y, et al. Cells, 2021 Aug 16. PMID 34440868, Free PMC Article
    3. Viral infection-induced changes in the expression profile of non-RLR DExD/H-box RNA helicases (DDX1, DDX3, DHX9, DDX21 and DHX36) in zebrafish and common carp. Mojzesz M, et al. Fish Shellfish Immunol, 2020 Sep. PMID 32526283
    4. The RNA helicase Ddx21 controls Vegfc-driven developmental lymphangiogenesis by balancing endothelial cell ribosome biogenesis and p53 function. Koltowska K, et al. Nat Cell Biol, 2021 Nov. PMID 34750583
    5. PRL3-DDX21 Transcriptional Control of Endolysosomal Genes Restricts Melanocyte Stem Cell Differentiation. Johansson JA, et al. Dev Cell, 2020 Aug 10. PMID 32652076, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The RNA helicase Ddx21 controls Vegfc-driven developmental lymphangiogenesis by balancing endothelial cell ribosome biogenesis and p53 function.
      Title: The RNA helicase Ddx21 controls Vegfc-driven developmental lymphangiogenesis by balancing endothelial cell ribosome biogenesis and p53 function.
    2. RNA helicase DDX21 mediates nucleotide stress responses in neural crest and melanoma cells.
      Title: RNA helicase DDX21 mediates nucleotide stress responses in neural crest and melanoma cells.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC172237

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA 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
    		  
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    nucleolar RNA helicase 2
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 21
    NP_001120807.2

    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_001127335.2 → NP_001120807.2  nucleolar RNA helicase 2

      Status: VALIDATED

      Source sequence(s)
      DT065140, DT075062, EB906270, EH437022, EH463012, EH525400, FQ378000
      UniProtKB/TrEMBL
      A0A2R9YJN8, A0A8M1NHL0
      Related
      ENSDARP00000087581.6, ENSDART00000093149.6
      Conserved Domains (4) summary
      PTZ00424
      Location:182 → 566
      PTZ00424; helicase 45; Provisional
      cd00079
      Location:441 → 550
      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:200 → 403
      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 ...
      cd12936
      Location:629 → 721
      GUCT_RHII_Gualpha_beta; RNA-binding GUCT domain found in vertebrate RNA helicase II/Gualpha (RH-II/Gualpha), RNA helicase II/Gubeta (RH-II/Gubeta) and similar proteins

    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_007124.7 Reference GRCz11 Primary Assembly

      Range
      319576..330004 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials