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

    Gene ID: 71990, updated on 27-Nov-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, Nov 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
    • 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 ATP-dependent H2AZ histone chaperone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent H3-H4 histone complex chaperone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA clamp loader 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 chromatin extrusion motor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cohesin loader activity IEA
    Inferred from Electronic Annotation
    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 chromatin looping IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    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.

    Chemical Information
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