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    Ddx46 DEAD-box helicase 46 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 245957, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Ddx46provided by RGD
    Official Full Name
    DEAD-box helicase 46provided by RGD
    Primary source
    RGD:708480
    See related
    EnsemblRapid:ENSRNOG00000021637 AllianceGenome:RGD:708480
    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 several functions, including ATP binding activity; ATP hydrolysis activity; and ATP-dependent activity, acting on DNA. Predicted to be involved in U2-type prespliceosome assembly. Predicted to be located in fibrillar center and nuclear speck. Predicted to be part of U2-type spliceosomal complex. Predicted to be active in nucleus. Orthologous to human DDX46 (DEAD-box helicase 46). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 263.3), Spleen (RPKM 216.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddx46 in Genome Data Viewer
    Location:
    17p14
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (8947237..8993705, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (8942070..8988440, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (9475275..9519545, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene thioredoxin domain containing 15 Neighboring gene similar to human chromosome 5 open reading frame 24 Neighboring gene transfer RNA serine (anticodon AGA) 29 Neighboring gene calcium modulating ligand Neighboring gene beta-1,4-galactosyltransferase 7

    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. A putative mammalian RNA helicase with an arginine-serine-rich domain colocalizes with a splicing factor. Sukegawa J, et al. J Biol Chem, 1995 Jun 30. PMID 7797571
    2. Functions of the DExD/H-box proteins in nuclear pre-mRNA splicing. Chang TH, et al. Biochim Biophys Acta, 2013 Aug. PMID 23454554
    3. Dynamic proteomics in individual human cells uncovers widespread cell-cycle dependence of nuclear proteins. Sigal A, et al. Nat Methods, 2006 Jul. PMID 16791210
    4. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    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 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 binding IEA
    Inferred from Electronic Annotation
    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 nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in U2-type prespliceosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in U2-type prespliceosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    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 mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in Cajal body IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of U2-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus 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
    probable ATP-dependent RNA helicase DDX46
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 46
    DEAD box protein 46
    RNA helicase
    helicase of 117.4 kDa
    NP_001382550.1
    NP_620798.1
    XP_063132124.1
    XP_063132125.1

    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_001395621.2 → NP_001382550.1  probable ATP-dependent RNA helicase DDX46 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/TrEMBL
      A0A8I6A8E8
      Related
      ENSRNOP00000088007.1, ENSRNOT00000114045.2
      Conserved Domains (3) summary
      COG0513
      Location:344 → 826
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd17953
      Location:361 → 582
      DEADc_DDX46; DEAD-box helicase domain of DEAD box protein 46
      cd22473
      Location:928 → 1030
      KH-I_DDX46; type I K homology (KH) RNA-binding domain found in DEAD box protein 46 (DDX46) and similar proteins

    2. NM_139098.3 → NP_620798.1  probable ATP-dependent RNA helicase DDX46 isoform 1

      See identical proteins and their annotated locations for NP_620798.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/Swiss-Prot
      Q62780
      UniProtKB/TrEMBL
      A0A8I6A8E8
      Conserved Domains (3) summary
      COG0513
      Location:344 → 826
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00268
      Location:378 → 581
      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 ...
      pfam00271
      Location:618 → 714
      Helicase_C; Helicase conserved C-terminal domain

    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_086035.1 Reference GRCr8

      Range
      8947237..8993705 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276055.1 → XP_063132125.1  probable ATP-dependent RNA helicase DDX46 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A8E8

    2. XM_063276054.1 → XP_063132124.1  probable ATP-dependent RNA helicase DDX46 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A8E8

    RNA

    1. XR_010058808.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q62780.1 GenPept UniProtKB/Swiss-Prot:Q62780

    Gene LinkOut

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

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