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    Ddx59 DEAD-box helicase 59 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 289402, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Ddx59provided by RGD
    Official Full Name
    DEAD-box helicase 59provided by RGD
    Primary source
    RGD:1359520
    See related
    EnsemblRapid:ENSRNOG00000042451 AllianceGenome:RGD:1359520
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable RNA helicase activity and mRNA binding activity. Predicted to be involved in chromatin looping and chromatin remodeling. Predicted to be located in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in orofaciodigital syndrome V. Orthologous to human DDX59 (DEAD-box helicase 59). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 53.3), Lung (RPKM 44.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddx59 in Genome Data Viewer
    Location:
    13q13
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (50427940..50452893)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (47876258..47901214)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (53299872..53324824)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene calmodulin regulated spectrin-associated protein family, member 2 Neighboring gene uncharacterized LOC134481565 Neighboring gene ribosomal protein L31 like 9 Neighboring gene uncharacterized LOC102547307 Neighboring gene kinesin family member 14 Neighboring gene small nuclear ribonucleoprotein polypeptide B2, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    2. 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
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC93714

    Gene Ontology Provided by RGD

    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 helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    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 hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin looping IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX59
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 59
    DEAD box protein 59
    zinc finger HIT domain-containing protein 5
    NP_001005535.1
    NP_001177749.1
    XP_038946541.1

    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_001005535.2 → NP_001005535.1  probable ATP-dependent RNA helicase DDX59 isoform 2

      See identical proteins and their annotated locations for NP_001005535.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the central coding region, compared to variant 1. The resulting isoform (2) lacks an internal segment, compared to isoform 1.
      Source sequence(s)
      BC081871, CR477587, DY310785, DY317721
      UniProtKB/Swiss-Prot
      Q66HG7
      UniProtKB/TrEMBL
      A0A8I6B2D5
      Related
      ENSRNOP00000049858.2, ENSRNOT00000043798.5
      Conserved Domains (1) summary
      PLN00206
      Location:89 → 563
      PLN00206; DEAD-box ATP-dependent RNA helicase; Provisional

    2. NM_001190820.1 → NP_001177749.1  probable ATP-dependent RNA helicase DDX59 isoform 1

      See identical proteins and their annotated locations for NP_001177749.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC081871, CO398251, CR477587, DY310785, DY317721
      UniProtKB/TrEMBL
      A0A8I6B2D5, A6ICI8, D4A2T7
      Related
      ENSRNOP00000047251.3, ENSRNOT00000042846.8
      Conserved Domains (1) summary
      PLN00206
      Location:89 → 593
      PLN00206; DEAD-box ATP-dependent RNA helicase; Provisional

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086031.1 Reference GRCr8

      Range
      50427940..50452893
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039090613.2 → XP_038946541.1  probable ATP-dependent RNA helicase DDX59 isoform X1

      UniProtKB/TrEMBL
      A0A8I6B2D5, A6ICI8, D4A2T7
      Conserved Domains (1) summary
      PLN00206
      Location:89 → 593
      PLN00206; DEAD-box ATP-dependent RNA helicase; Provisional
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q66HG7.1 GenPept UniProtKB/Swiss-Prot:Q66HG7

    Gene LinkOut

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

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