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DDX6 DEAD-box helicase 6 [ Homo sapiens (human) ]

Gene ID: 1656, updated on 8-Jul-2018
Official Symbol
DDX6provided by HGNC
Official Full Name
DEAD-box helicase 6provided by HGNC
Primary source
HGNC:HGNC:2747
See related
Ensembl:ENSG00000110367 MIM:600326; Vega:OTTHUMG00000166411
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
P54; RCK; HLR2
Summary
This gene encodes a member of the DEAD box protein family. The protein is an RNA helicase found in P-bodies and stress granules, and functions in translation suppression and mRNA degradation. It is required for microRNA-induced gene silencing. Multiple alternatively spliced variants, encoding the same protein, have been identified. [provided by RefSeq, Mar 2012]
Expression
Ubiquitous expression in brain (RPKM 27.6), lymph node (RPKM 26.5) and 25 other tissues See more
Orthologs
See DDX6 in Genome Data Viewer
Location:
11q23.3
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 11 NC_000011.10 (118747763..118791696, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (118618472..118661972, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369519 Neighboring gene trehalase pseudogene 1 Neighboring gene RNA, U6 small nuclear 376, pseudogene Neighboring gene SET pseudogene 16 Neighboring gene C-X-C motif chemokine receptor 5 Neighboring gene B cell CLL/lymphoma 9 like

  • 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 Jun 15 11:32:44 2016

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

NHGRI GWAS Catalog

Description
Association analyses identify three susceptibility Loci for vitiligo in the Chinese Han population.
NHGRI GWA Catalog
Meta-analysis of genome-wide association studies in celiac disease and rheumatoid arthritis identifies fourteen non-HLA shared loci.
NHGRI GWA Catalog
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
NHGRI GWA Catalog

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 is identified to have a physical interaction with DEAD (Asp-Glu-Ala-Asp) box helicase 6 (DDX6) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
Pr55(Gag) gag ABCE1, DDX6, and AGO2 proteins are associated with HIV-1 Gag in the intracellular high-molecular-weight assembly intermediates. DDX6 and AGO2 are enriched at early and late sites of Gag assembly at plasma membrane PubMed
gag The efficiency of incorporation of Mov10, A3G, and A3F into viral particles, which contains both HIV-1 Gag and genomic RNA, is much higher than that of the other P-body proteins AGO2, DCP1a, DCP2, and DDX6 PubMed
integrase gag-pol Analysis of HIV-1 proviral integration sites in antiretroviral treatment patients indicates that DDX6 gene favors HIV-1 integration for expansion and persistence of infected cells, suggesting HIV-1 IN interacts with DDX6 PubMed

Go to the HIV-1, Human Interaction Database

  • Deadenylation-dependent mRNA decay, organism-specific biosystem (from REACTOME)
    Deadenylation-dependent mRNA decay, organism-specific biosystemAfter undergoing rounds of translation, mRNA is normally destroyed by the deadenylation-dependent pathway. Though the trigger is unclear, deadenylation likely proceeds in two steps: one catalyzed by...
  • Decapping complex, organism-specific biosystem (from KEGG)
    Decapping complex, organism-specific biosystemStructural complex; Genetic information processing; RNA processing
  • Decapping complex, conserved biosystem (from KEGG)
    Decapping complex, conserved biosystemStructural complex; Genetic information processing; RNA processing
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • RNA degradation, organism-specific biosystem (from KEGG)
    RNA degradation, organism-specific biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
  • RNA degradation, conserved biosystem (from KEGG)
    RNA degradation, conserved biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
  • mRNA decay by 5' to 3' exoribonuclease, organism-specific biosystem (from REACTOME)
    mRNA decay by 5' to 3' exoribonuclease, organism-specific biosystemDegradation of mRNA from 5' to 3' occurs in three steps. First, the mRNA is bound at its 3' end by the Lsm1-7 complex. The bound Lsm1-7 may prevent nucleases from accessing the 3' end. Second, the 7-...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • FLJ36338

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
RNA helicase activity TAS
Traceable Author Statement
more info
PubMed 
cadherin binding HDA PubMed 
helicase activity TAS
Traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cytoplasmic mRNA processing body assembly IDA
Inferred from Direct Assay
more info
PubMed 
exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay TAS
Traceable Author Statement
more info
 
negative regulation of neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
stem cell population maintenance IEA
Inferred from Electronic Annotation
more info
 
viral RNA genome packaging IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
P granule IEA
Inferred from Electronic Annotation
more info
 
P-body IDA
Inferred from Direct Assay
more info
PubMed 
P-body IMP
Inferred from Mutant Phenotype
more info
PubMed 
RISC complex IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasmic ribonucleoprotein granule IDA
Inferred from Direct Assay
more info
 
cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
heterochromatin IEA
Inferred from Electronic Annotation
more info
 
membrane HDA PubMed 
mitochondrion IEA
Inferred from Electronic Annotation
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
outer dense fiber IEA
Inferred from Electronic Annotation
more info
 
sperm annulus IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
probable ATP-dependent RNA helicase DDX6
Names
ATP-dependent RNA helicase p54
DEAD (Asp-Glu-Ala-Asp) box helicase 6
DEAD (Asp-Glu-Ala-Asp) box polypeptide 6
DEAD box protein 6
DEAD box-6
DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 6 (RNA helicase, 54kD)
oncogene RCK
NP_001244120.1
NP_004388.2
XP_005271474.1
XP_011540946.1
XP_011540947.1
XP_016872740.1
XP_024304145.1

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_001257191.2NP_001244120.1  probable ATP-dependent RNA helicase DDX6

    See identical proteins and their annotated locations for NP_001244120.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK313244, AP002954, BC065007, BF810127, KF510354, KF511134
    Consensus CDS
    CCDS44751.1
    UniProtKB/Swiss-Prot
    P26196
    UniProtKB/TrEMBL
    B2R858
    Related
    ENSP00000478754.1, ENST00000620157.4
    Conserved Domains (1) summary
    COG0513
    Location:80458
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
  2. NM_004397.5NP_004388.2  probable ATP-dependent RNA helicase DDX6

    See identical proteins and their annotated locations for NP_004388.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AI265778, AP002954, D17532, DA993470, KF510354, KF511134
    Consensus CDS
    CCDS44751.1
    UniProtKB/Swiss-Prot
    P26196
    Related
    ENSP00000442266.1, OTTHUMP00000276349, ENST00000534980.5, OTTHUMT00000389645
    Conserved Domains (1) summary
    COG0513
    Location:80458
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p12 Primary Assembly

    Range
    118747763..118791696 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011542645.1XP_011540947.1  probable ATP-dependent RNA helicase DDX6 isoform X3

    Conserved Domains (1) summary
    COG0513
    Location:80409
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
  2. XM_011542644.1XP_011540946.1  probable ATP-dependent RNA helicase DDX6 isoform X2

    Conserved Domains (3) summary
    PTZ00424
    Location:98430
    PTZ00424; helicase 45; Provisional
    cd00079
    Location:284394
    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:98288
    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_017017251.1XP_016872740.1  probable ATP-dependent RNA helicase DDX6 isoform X2

    Conserved Domains (3) summary
    PTZ00424
    Location:98430
    PTZ00424; helicase 45; Provisional
    cd00079
    Location:284394
    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:98288
    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 ...
  4. XM_005271417.4XP_005271474.1  probable ATP-dependent RNA helicase DDX6 isoform X1

    See identical proteins and their annotated locations for XP_005271474.1

    UniProtKB/Swiss-Prot
    P26196
    Related
    ENSP00000433704.1, OTTHUMP00000232838, ENST00000526070.2
    Conserved Domains (1) summary
    COG0513
    Location:80458
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
  5. XM_024448377.1XP_024304145.1  probable ATP-dependent RNA helicase DDX6 isoform X1

    Conserved Domains (1) summary
    COG0513
    Location:80458
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
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