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    ddx54 DEAD (Asp-Glu-Ala-Asp) box polypeptide 54 [ Danio rerio (zebrafish) ]

    Gene ID: 286777, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ddx54provided by ZNC
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 54provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-021220-2
    See related
    Ensembl:ENSDARG00000105286 AllianceGenome:ZFIN:ZDB-GENE-021220-2
    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
    mgc2835; chunp6913; zgc:111908
    Summary
    Predicted to enable several functions, including ATP binding activity; RNA binding activity; and RNA helicase activity. Predicted to be involved in rRNA processing. Predicted to be located in nucleus. Predicted to be active in nucleolus. Orthologous to human DDX54 (DEAD-box helicase 54). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ddx54 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (72194489..72205843)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (71409983..71421337)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene c-abl oncogene 1, non-receptor tyrosine kinase Neighboring gene RAB14, member RAS oncogene family, like Neighboring gene uncharacterized LOC101882981 Neighboring gene T-box transcription factor 5a

    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. Insertional mutagenesis in zebrafish rapidly identifies genes essential for early vertebrate development. Golling G, et al. Nat Genet, 2002 Jun. PMID 12006978
    2. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    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

    Clone Names

    • MGC111908

    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 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 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 rRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ATP-dependent RNA helicase DDX54
    Names
    ATP-dependent RNA helicase
    NP_775375.1

    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_173268.1 → NP_775375.1  ATP-dependent RNA helicase DDX54

      See identical proteins and their annotated locations for NP_775375.1

      Status: PROVISIONAL

      Source sequence(s)
      AY099535
      UniProtKB/TrEMBL
      A0A8M1PE26, Q8JGR2
      Related
      ENSDARP00000138094.1, ENSDART00000165436.2
      Conserved Domains (4) summary
      smart00487
      Location:95 → 282
      DEXDc; DEAD-like helicases superfamily
      cd00079
      Location:303 → 423
      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:80 → 282
      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 ...
      pfam08147
      Location:688 → 750
      DBP10CT; DBP10CT (NUC160) 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_007116.7 Reference GRCz11 Primary Assembly

      Range
      72194489..72205843
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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