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Dhx38 DEAH-box helicase 38 [ Rattus norvegicus (Norway rat) ]

Gene ID: 292007, updated on 13-Apr-2024

Summary

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Official Symbol
Dhx38provided by RGD
Official Full Name
DEAH-box helicase 38provided by RGD
Primary source
RGD:1310345
See related
Ensembl:ENSRNOG00000014619 AllianceGenome:RGD:1310345
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 binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in retinitis pigmentosa 84. Orthologous to human DHX38 (DEAH-box helicase 38). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 84.4), Spleen (RPKM 72.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
19q12
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (54422418..54439434, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (37512893..37530135, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (42110291..42127540)

Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483361 Neighboring gene uncharacterized LOC134483362 Neighboring gene polyamine modulated factor 1 binding protein 1 Neighboring gene uncharacterized LOC134483363 Neighboring gene thioredoxin-like 4B Neighboring gene haptoglobin Neighboring gene dihydroorotate dehydrogenase (quinone)

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. Human homologs of yeast prp16 and prp17 reveal conservation of the mechanism for catalytic step II of pre-mRNA splicing. Zhou Z, et al. EMBO J, 1998 Apr 1. PMID 9524131, Free PMC Article
  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. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. Jurica MS, et al. RNA, 2002 Apr. PMID 11991638, Free PMC Article
  4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
  5. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888

See all (6) 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 3'-5' RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
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
  
Component Evidence Code Pubs
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in intracellular anatomical structure IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16
Names
DEAH (Asp-Glu-Ala-His) box polypeptide 38
NP_001386123.1
XP_038953559.1

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_001399194.1 → NP_001386123.1  pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000019
    Related
    ENSRNOP00000019810.8, ENSRNOT00000019810.8
    Conserved Domains (2) summary
    PHA03307
    Location:182 → 297
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1643
    Location:515 → 1146
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

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_086037.1 Reference GRCr8

    Range
    54422418..54439434 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039097631.2 → XP_038953559.1  pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 isoform X1

    Conserved Domains (2) summary
    PHA03307
    Location:182 → 297
    PHA03307; transcriptional regulator ICP4; Provisional
    COG1643
    Location:515 → 867
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001106185.1: Suppressed sequence

    Description
    NM_001106185.1: This RefSeq was removed because currently there is insufficient support for the transcript.
Nucleotide Protein Strain
Heading Accession and Version

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