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    Dhx16 DEAH-box helicase 16 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294232, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Dhx16provided by RGD
    Official Full Name
    DEAH-box helicase 16provided by RGD
    Primary source
    RGD:1302963
    See related
    Ensembl:ENSRNOG00000030157 AllianceGenome:RGD:1302963
    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
    Also known as
    Dbp2; Ddx16
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleoplasm. Predicted to be part of U2-type precatalytic spliceosome. Orthologous to human DHX16 (DEAH-box helicase 16). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 103.3), Kidney (RPKM 93.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    20p12
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (2866804..2879790, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (2862000..2874991, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (3368971..3386087, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene mitochondrial ribosomal protein S18B Neighboring gene alpha tubulin acetyltransferase 1 Neighboring gene similar to human chromosome 6 open reading frame 136 Neighboring gene protein phosphatase 1, regulatory subunit 18 Neighboring gene microRNA 6328 Neighboring gene nurim

    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. Contribution of DEAH-box protein DHX16 in human pre-mRNA splicing. Gencheva M, et al. Biochem J, 2010 Jul 1. PMID 20423332, Free PMC Article
    2. Cloning and characterization of a human DEAH-box RNA helicase, a functional homolog of fission yeast Cdc28/Prp8. Imamura O, et al. Nucleic Acids Res, 1998 May 1. PMID 9547260, Free PMC Article
    3. GPKOW is essential for pre-mRNA splicing in vitro and suppresses splicing defect caused by dominant-negative DHX16 mutation in vivo. Zang S, et al. Biosci Rep, 2014 Dec 12. PMID 25296192, Free PMC Article
    4. Functions of the DExD/H-box proteins in nuclear pre-mRNA splicing. Chang TH, et al. Biochim Biophys Acta, 2013 Aug. PMID 23454554
    5. Structure of the human activated spliceosome in three conformational states. Zhang X, et al. Cell Res, 2018 Mar. PMID 29360106, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables pattern recognition receptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in antiviral innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type precatalytic spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in intracellular anatomical structure IBA
    Inferred from Biological aspect of Ancestor
    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
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16
    Names
    DEAH (Asp-Glu-Ala-His) box polypeptide 16
    putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16
    NP_997661.1
    XP_038954408.1
    XP_038954409.1
    XP_038954410.1
    XP_038954411.1
    XP_038954412.1
    XP_063135067.1

    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_212496.2 → NP_997661.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16

      See identical proteins and their annotated locations for NP_997661.1

      Status: VALIDATED

      Source sequence(s)
      BX883048
      UniProtKB/TrEMBL
      A0A0G2K2E8, A0A9K3Y7B8, D3ZB40, Q6MG13
      Related
      ENSRNOP00000072216.2, ENSRNOT00000089550.2
      Conserved Domains (5) summary
      smart00487
      Location:402 → 584
      DEXDc; DEAD-like helicases superfamily
      smart00847
      Location:801 → 885
      HA2; Helicase associated domain (HA2) Add an annotation
      cd00046
      Location:419 → 558
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      cd00079
      Location:583 → 740
      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 ...
      pfam07717
      Location:920 → 1018
      OB_NTP_bind; Oligonucleotide/oligosaccharide-binding (OB)-fold

    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_086038.1 Reference GRCr8

      Range
      2866804..2879790 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039098484.2 → XP_038954412.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 isoform X5

      Conserved Domains (1) summary
      COG1643
      Location:2 → 583
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

    2. XM_039098481.2 → XP_038954409.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 isoform X2

      Conserved Domains (2) summary
      PTZ00121
      Location:146 → 410
      PTZ00121; MAEBL; Provisional
      COG1643
      Location:376 → 927
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

    3. XM_039098480.2 → XP_038954408.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 isoform X1

      Conserved Domains (2) summary
      PTZ00121
      Location:146 → 410
      PTZ00121; MAEBL; Provisional
      COG1643
      Location:376 → 927
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

    4. XM_039098482.2 → XP_038954410.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 isoform X3

      Conserved Domains (3) summary
      PTZ00121
      Location:146 → 410
      PTZ00121; MAEBL; Provisional
      cl38915
      Location:580 → 621
      DEAD-like_helicase_C; C-terminal helicase domain of the DEAD-like helicases
      cl28899
      Location:402 → 575
      DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily

    5. XM_063278997.1 → XP_063135067.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 isoform X4

    6. XM_039098483.2 → XP_038954411.1  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 isoform X4

      Conserved Domains (2) summary
      PTZ00121
      Location:146 → 410
      PTZ00121; MAEBL; Provisional
      cl28899
      Location:402 → 575
      DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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