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    Ddx31 DEAD-box helicase 31 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311835, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ddx31provided by RGD
    Official Full Name
    DEAD-box helicase 31provided by RGD
    Primary source
    RGD:1304895
    See related
    EnsemblRapid:ENSRNOG00000013040 AllianceGenome:RGD:1304895
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including ATP binding activity; RNA binding activity; and RNA helicase activity. Predicted to be involved in ribosome biogenesis. Predicted to be located in Golgi apparatus and nucleolus. Predicted to be active in nucleus. Orthologous to human DDX31 (DEAD-box helicase 31). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 63.2), Spleen (RPKM 52.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddx31 in Genome Data Viewer
    Location:
    3p12
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (32570725..32635446)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (12172829..12238392)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (7422871..7488299)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene RNA, U1 small nuclear 136 Neighboring gene general transcription factor IIIC subunit 4 Neighboring gene BarH-like homeobox 1 Neighboring gene cilia and flagella associated protein 77

    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. DDX31 regulates the p53-HDM2 pathway and rRNA gene transcription through its interaction with NPM1 in renal cell carcinomas. Fukawa T, et al. Cancer Res, 2012 Nov 15. PMID 23019224
    2. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    3. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    4. 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
    5. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    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
    		  
    Process Evidence Code Pubs
    involved_in ribosome biogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ribosome biogenesis ISO
    Inferred from Sequence Orthology
    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
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX31
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 31
    DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31
    NP_001101294.2
    XP_063139997.1

    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_001107824.2 → NP_001101294.2  probable ATP-dependent RNA helicase DDX31

      See identical proteins and their annotated locations for NP_001101294.2

      Status: PROVISIONAL

      Source sequence(s)
      BC160917
      UniProtKB/TrEMBL
      A0A8I5ZZZ0, A6JTQ2, B1H297
      Related
      ENSRNOP00000084812.1, ENSRNOT00000096302.2
      Conserved Domains (4) summary
      COG0513
      Location:101 → 635
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00079
      Location:347 → 495
      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:105 → 317
      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 ...
      pfam13959
      Location:557 → 618
      DUF4217; Domain of unknown function (DUF4217)

    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_086021.1 Reference GRCr8

      Range
      32570725..32635446
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283927.1 → XP_063139997.1  probable ATP-dependent RNA helicase DDX31 isoform X1

    RNA

    1. XR_010064644.1 RNA Sequence

    2. XR_010064645.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
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