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

Gene ID: 286777, updated on 2-Nov-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, Nov 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 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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