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    Ddx6 DEAD-box helicase 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500988, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ddx6provided by RGD
    Official Full Name
    DEAD-box helicase 6provided by RGD
    Primary source
    RGD:1564560
    See related
    EnsemblRapid:ENSRNOG00000053932 AllianceGenome:RGD:1564560
    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
    RGD1564560
    Summary
    Predicted to enable mRNA binding activity and protein domain specific binding activity. Involved in spermatid differentiation. Located in several cellular components, including chromatoid body; concave side of sperm head; and sperm flagellum. Orthologous to human DDX6 (DEAD-box helicase 6). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 404.1), Thymus (RPKM 362.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddx6 in Genome Data Viewer
    Location:
    8q22
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (53827661..53864538)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (44931127..44967773)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (48924768..48961394)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene BCL9 like Neighboring gene C-X-C motif chemokine receptor 5 Neighboring gene uncharacterized LOC120094133 Neighboring gene ribosomal protein L35A like 11 Neighboring gene uncharacterized LOC120094134 Neighboring gene trehalase Neighboring gene pleckstrin homology-like domain, family B, member 1

    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 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. DDX6 localizes to nuage structures and the annulus of mammalian spermatogenic cells. Kawahara C, et al. Histochem Cell Biol, 2014 Jan. PMID 24141902
    2. The DEAD-box RNA helicase DDX6 is required for efficient encapsidation of a retroviral genome. Yu SF, et al. PLoS Pathog, 2011 Oct. PMID 22022269, Free PMC Article
    3. Ataxin-2 interacts with the DEAD/H-box RNA helicase DDX6 and interferes with P-bodies and stress granules. Nonhoff U, et al. Mol Biol Cell, 2007 Apr. PMID 17392519, Free PMC Article
    4. The role of disordered protein regions in the assembly of decapping complexes and RNP granules. Jonas S, et al. Genes Dev, 2013 Dec 15. PMID 24352420, Free PMC Article
    5. Rare De Novo Missense Variants in RNA Helicase DDX6 Cause Intellectual Disability and Dysmorphic Features and Lead to P-Body Defects and RNA Dysregulation. Balak C, et al. Am J Hum Genet, 2019 Sep 5. PMID 31422817, Free PMC Article

    See all (20) 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 helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in P-body assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within P-body assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in P-body assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_positive_effect miRNA-mediated gene silencing by inhibition of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatid differentiation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in spermatogenesis IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in stress granule assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in viral RNA genome packaging ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in P-body ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of RISC complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in adherens junction IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chromatoid body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in concave side of sperm head IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasmic stress granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in outer dense fiber IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in sperm annulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX6
    Names
    DEAD (Asp-Glu-Ala-Asp) box helicase 6
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 6
    NP_001102762.1
    XP_006243012.1
    XP_006243013.1
    XP_006243014.1
    XP_006243016.1
    XP_017451323.1
    XP_063122035.1

    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_001109292.2 → NP_001102762.1  probable ATP-dependent RNA helicase DDX6

      See identical proteins and their annotated locations for NP_001102762.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I5Y7L2, A6J406, D3ZD73
      Conserved Domains (2) summary
      cd18787
      Location:309 → 438
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17940
      Location:98 → 299
      DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6

    2. NM_001434369.1 → NP_001421298.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    3. NM_001434370.1 → NP_001421299.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    4. NM_001434371.1 → NP_001421300.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    5. NM_001434372.1 → NP_001421301.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    6. NM_001434373.1 → NP_001421302.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    7. NM_001434374.1 → NP_001421303.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    8. NM_001434375.1 → NP_001421304.1  probable ATP-dependent RNA helicase DDX6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    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_086026.1 Reference GRCr8

      Range
      53827661..53864538
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006242954.4 → XP_006243016.1  probable ATP-dependent RNA helicase DDX6 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y7L2, A6J406, D3ZD73
      Related
      ENSRNOP00000073900.1, ENSRNOT00000077445.3
      Conserved Domains (2) summary
      cd18787
      Location:309 → 438
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17940
      Location:98 → 299
      DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6

    2. XM_006242951.4 → XP_006243013.1  probable ATP-dependent RNA helicase DDX6 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y7L2, A6J406, D3ZD73
      Conserved Domains (2) summary
      cd18787
      Location:309 → 438
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17940
      Location:98 → 299
      DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6

    3. XM_006242950.3 → XP_006243012.1  probable ATP-dependent RNA helicase DDX6 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y7L2, A6J406, D3ZD73
      Conserved Domains (2) summary
      cd18787
      Location:309 → 438
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17940
      Location:98 → 299
      DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6

    4. XM_006242952.3 → XP_006243014.1  probable ATP-dependent RNA helicase DDX6 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y7L2, A6J406, D3ZD73
      Conserved Domains (2) summary
      cd18787
      Location:309 → 438
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17940
      Location:98 → 299
      DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6

    5. XM_063265965.1 → XP_063122035.1  probable ATP-dependent RNA helicase DDX6 isoform X1

      UniProtKB/TrEMBL
      A6J406, D3ZD73

    6. XM_017595834.3 → XP_017451323.1  probable ATP-dependent RNA helicase DDX6 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y7L2, A6J406, D3ZD73
      Conserved Domains (2) summary
      cd18787
      Location:309 → 438
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17940
      Location:98 → 299
      DEADc_DDX6; DEAD-box helicase domain of DEAD box protein 6
    Nucleotide Protein Strain
    Heading Accession and Version

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