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DDX42 DEAD-box helicase 42 [ Homo sapiens (human) ]

Gene ID: 11325, updated on 4-Jun-2020

Summary

Official Symbol
DDX42provided by HGNC
Official Full Name
DEAD-box helicase 42provided by HGNC
Primary source
HGNC:HGNC:18676
See related
Ensembl:ENSG00000198231 MIM:613369
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RHELP; RNAHP; SF3B8; DDX42P; SF3b125
Summary
This gene encodes a member of the Asp-Glu-Ala-Asp (DEAD) box protein family. Members of this protein family are putative RNA helicases, and are implicated in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Members of this family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. Two transcript variants encoding the same protein have been identified for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 27.4), ovary (RPKM 25.5) and 25 other tissues See more
Orthologs

Genomic context

See DDX42 in Genome Data Viewer
Location:
17q23.3
Exon count:
20
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (63773856..63819317)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (61851549..61896677)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene STE20 related adaptor alpha Neighboring gene coiled-coil domain containing 47 Neighboring gene uncharacterized LOC107984986 Neighboring gene FtsJ RNA 2'-O-methyltransferase 3 Neighboring gene proteasome 26S subunit, ATPase 5

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ39432, FLJ43179

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
protein localization IDA
Inferred from Direct Assay
more info
PubMed 
regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
Cajal body IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
membrane HDA PubMed 
nuclear speck IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
ATP-dependent RNA helicase DDX42
Names
DEAD (Asp-Glu-Ala-Asp) box helicase 42
DEAD (Asp-Glu-Ala-Asp) box polypeptide 42
SF3b DEAD box protein
splicing factor 3B-associated 125 kDa protein
splicing factor 3b, subunit 8
NP_031398.2
NP_987095.1
XP_006721720.1
XP_011522561.1
XP_016879600.1
XP_024306326.1

NCBI Reference Sequences (RefSeq)

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_007372.3NP_031398.2  ATP-dependent RNA helicase DDX42

    See identical proteins and their annotated locations for NP_031398.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC015651, BC015505, BC093081
    Consensus CDS
    CCDS32704.1
    UniProtKB/Swiss-Prot
    Q86XP3
    Related
    ENSP00000464050.1, ENST00000578681.5
    Conserved Domains (3) summary
    PRK10590
    Location:254688
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470601
    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:255459
    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. NM_203499.3NP_987095.1  ATP-dependent RNA helicase DDX42

    See identical proteins and their annotated locations for NP_987095.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AB036090, AC015651, BC015505, DA440475
    Consensus CDS
    CCDS32704.1
    UniProtKB/Swiss-Prot
    Q86XP3
    Related
    ENSP00000374574.2, ENST00000389924.7
    Conserved Domains (3) summary
    PRK10590
    Location:254688
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470601
    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:255459
    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: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    63773856..63819317
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017024111.1XP_016879600.1  ATP-dependent RNA helicase DDX42 isoform X1

    UniProtKB/Swiss-Prot
    Q86XP3
    Conserved Domains (3) summary
    PRK10590
    Location:254688
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470601
    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:255459
    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_006721657.1XP_006721720.1  ATP-dependent RNA helicase DDX42 isoform X1

    See identical proteins and their annotated locations for XP_006721720.1

    UniProtKB/Swiss-Prot
    Q86XP3
    Related
    ENSP00000463561.1, ENST00000583590.5
    Conserved Domains (3) summary
    PRK10590
    Location:254688
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:470601
    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:255459
    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_024450558.1XP_024306326.1  ATP-dependent RNA helicase DDX42 isoform X2

    Related
    ENSP00000390121.3, ENST00000457800.3
    Conserved Domains (1) summary
    cl26939
    Location:35489
    DEXDc; DEAD-like helicases superfamily
  4. XM_011524259.2XP_011522561.1  ATP-dependent RNA helicase DDX42 isoform X3

    Conserved Domains (3) summary
    PRK10590
    Location:9424
    PRK10590; ATP-dependent RNA helicase RhlE; Provisional
    cd00079
    Location:206337
    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:4195
    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 ...
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