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

Gene ID: 799650, updated on 2-Nov-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, Nov 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 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

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