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Ddx54 DEAD box helicase 54 [ Mus musculus (house mouse) ]

Gene ID: 71990, updated on 28-Oct-2024

Summary

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Official Symbol
Ddx54provided by MGI
Official Full Name
DEAD box helicase 54provided by MGI
Primary source
MGI:MGI:1919240
See related
Ensembl:ENSMUSG00000029599 AllianceGenome:MGI:1919240
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
DP97; 2410015A15Rik
Summary
Predicted to enable several functions, including RNA helicase activity; nuclear estrogen receptor binding activity; and transcription corepressor activity. Predicted to be involved in rRNA processing. Predicted to be located in Golgi apparatus and nucleoplasm. Predicted to be active in nucleolus. Is expressed in several structures, including branchial arch; hemolymphoid system gland; limb; male reproductive gland or organ; and tongue. Orthologous to human DDX54 (DEAD-box helicase 54). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Ubiquitous expression in thymus adult (RPKM 40.5), spleen adult (RPKM 29.4) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Ddx54 in Genome Data Viewer
Location:
5 F; 5 60.63 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (120751182..120766657)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (120613082..120628592)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene two pore channel 1 Neighboring gene STARR-positive B cell enhancer ABC_E57 Neighboring gene IQ motif containing D Neighboring gene STARR-positive B cell enhancers ABC_E2760 and ABC_E2174 Neighboring gene STARR-positive B cell enhancer ABC_E3610 Neighboring gene RBPJ interacting and tubulin associated 1 Neighboring gene cilia and flagella associated protein 73 Neighboring gene STARR-positive B cell enhancer ABC_E4782 Neighboring gene RAS protein activator like 1 (GAP1 like) Neighboring gene STARR-positive B cell enhancer ABC_E11300 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:121135771-121135981 Neighboring gene STARR-positive B cell enhancer ABC_E8075 Neighboring gene STARR-positive B cell enhancer ABC_E6371 Neighboring gene deltex 1, E3 ubiquitin ligase Neighboring gene STARR-seq mESC enhancer starr_14247

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Lethal adulthood myelin breakdown by oligodendrocyte-specific Ddx54 knockout. Oizumi H, et al. iScience, 2023 Oct 20. PMID 37720086, Free PMC Article
  2. Pharmacological targeting of the Wdr5-MLL interaction in C/EBPα N-terminal leukemia. Grebien F, et al. Nat Chem Biol, 2015 Aug. PMID 26167872, Free PMC Article
  3. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
  4. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
  5. Fancd2 in vivo interaction network reveals a non-canonical role in mitochondrial function. Zhang T, et al. Sci Rep, 2017 Apr 5. PMID 28378742, Free PMC Article

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2) 

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 MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity ISO
Inferred from Sequence Orthology
more info
  
enables RNA helicase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables nuclear estrogen receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear estrogen receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables signaling receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables signaling receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription corepressor activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in RNA metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in RNA metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in RNA processing ISO
Inferred from Sequence Orthology
more info
  
involved_in RNA processing ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in rRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
ATP-dependent RNA helicase DDX54
Names
DEAD (Asp-Glu-Ala-Asp) box polypeptide 54
DEAD box protein 54
NP_082317.1

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_028041.3 → NP_082317.1  ATP-dependent RNA helicase DDX54

    See identical proteins and their annotated locations for NP_082317.1

    Status: VALIDATED

    Source sequence(s)
    AC125183
    Consensus CDS
    CCDS39241.1
    UniProtKB/Swiss-Prot
    Q8K4L0
    UniProtKB/TrEMBL
    Q8CD39
    Related
    ENSMUSP00000031598.10, ENSMUST00000031598.11
    Conserved Domains (4) summary
    COG0513
    Location:69 → 537
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd00079
    Location:314 → 440
    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:97 → 299
    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:706 → 766
    DBP10CT; DBP10CT (NUC160) domain

RNA

  1. NR_184579.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC125183

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    120751182..120766657
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8K4L0.1 GenPept UniProtKB/Swiss-Prot:Q8K4L0

Gene LinkOut

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

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