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Ddx42 DEAD-box helicase 42 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303607, updated on 2-May-2024

Summary

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Official Symbol
Ddx42provided by RGD
Official Full Name
DEAD-box helicase 42provided by RGD
Primary source
RGD:1304909
See related
Ensembl:ENSRNOG00000009474 AllianceGenome:RGD:1304909
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 RNA binding activity and RNA helicase activity. Predicted to be involved in protein localization and regulation of apoptotic process. Predicted to be located in cytosol and nuclear speck. Predicted to be active in nucleus. Orthologous to human DDX42 (DEAD-box helicase 42). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Adrenal (RPKM 314.0), Thymus (RPKM 241.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ddx42 in Genome Data Viewer
Location:
10q32.1
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (91648719..91680730)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (91148926..91180940)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (94407094..94439052)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene STE20 related adaptor alpha Neighboring gene coiled-coil domain containing 47 Neighboring gene small nucleolar RNA SNORA51 Neighboring gene FtsJ RNA 2'-O-methyltransferase 3 Neighboring gene proteasome 26S subunit, ATPase 5

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. Gene expression profiling of the bone marrow mononuclear cells from patients with myelodysplastic syndrome. Qian J, et al. Oncol Rep, 2005 Nov. PMID 16211284
  2. The DEAD box protein Ddx42p modulates the function of ASPP2, a stimulator of apoptosis. Uhlmann-Schiffler H, et al. Oncogene, 2009 May 21. PMID 19377511
  3. Multiple types of skeletal muscle atrophy involve a common program of changes in gene expression. Lecker SH, et al. FASEB J, 2004 Jan. PMID 14718385
  4. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, et al. Nucleic Acids Res, 2007. PMID 17537823, Free PMC Article
  5. 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

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

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 RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA helicase activity ISO
Inferred from Sequence Orthology
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in U2-type prespliceosome assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in protein localization ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of U2-type prespliceosome ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear lumen IEA
Inferred from Electronic Annotation
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 ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
ATP-dependent RNA helicase DDX42
Names
DEAD (Asp-Glu-Ala-Asp) box helicase 42
DEAD (Asp-Glu-Ala-Asp) box polypeptide 42
NP_001100529.1
XP_006247658.1
XP_006247659.1
XP_038942098.1

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_001107059.1 → NP_001100529.1  ATP-dependent RNA helicase DDX42

    See identical proteins and their annotated locations for NP_001100529.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A0A8I5ZLP6, A6HK14, D4A031
    Related
    ENSRNOP00000013046.5, ENSRNOT00000013046.6
    Conserved Domains (3) summary
    PRK10590
    Location:254 → 678
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470 → 601
    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:255 → 459
    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 ...

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_086028.1 Reference GRCr8

    Range
    91648719..91680730
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006247597.5 → XP_006247659.1  ATP-dependent RNA helicase DDX42 isoform X1

    See identical proteins and their annotated locations for XP_006247659.1

    UniProtKB/TrEMBL
    A0A8I5ZLP6, A6HK14, D4A031
    Related
    ENSRNOP00000078905.1
    Conserved Domains (3) summary
    PRK10590
    Location:254 → 678
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470 → 601
    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:255 → 459
    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 ...

  2. XM_006247596.5 → XP_006247658.1  ATP-dependent RNA helicase DDX42 isoform X1

    See identical proteins and their annotated locations for XP_006247658.1

    UniProtKB/TrEMBL
    A0A8I5ZLP6, A6HK14, D4A031
    Conserved Domains (3) summary
    PRK10590
    Location:254 → 678
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470 → 601
    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:255 → 459
    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 ...

  3. XM_039086170.2 → XP_038942098.1  ATP-dependent RNA helicase DDX42 isoform X2

    Conserved Domains (2) summary
    PTZ00110
    Location:30 → 489
    PTZ00110; helicase; Provisional
    cl11081
    Location:481 → 726
    dermokine
Nucleotide Protein Strain
Heading Accession and Version

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