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    ddx3xa DEAD-box helicase 3 X-linked a [ Danio rerio (zebrafish) ]

    Gene ID: 566947, updated on 27-Mar-2024

    Summary

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    Official Symbol
    ddx3xaprovided by ZNC
    Official Full Name
    DEAD-box helicase 3 X-linked aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-1565
    See related
    Ensembl:ENSDARG00000020573 AllianceGenome:ZFIN:ZDB-GENE-030131-1565
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    ddx3; ddx3a; fb74g09; wu:fb74g09; zgc:158804
    Summary
    Predicted to enable RNA binding activity and RNA helicase activity. Predicted to be involved in cell differentiation and gamete generation. Predicted to be active in P granule and nucleus. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability. Orthologous to human DDX3X (DEAD-box helicase 3 X-linked). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See ddx3xa in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (33334456..33354886)
    105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (33523711..33544134)

    Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene ubiquitin specific peptidase 9 Neighboring gene ribosomal protein L8 Neighboring gene nyctalopin Neighboring gene calcium/calmodulin-dependent serine protein kinase a Neighboring gene G protein-coupled receptor 34b

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. A hypomorphic inherited pathogenic variant in DDX3X causes male intellectual disability with additional neurodevelopmental and neurodegenerative features. Kellaris G, et al. Hum Genomics, 2018 Mar 1. PMID 29490693, Free PMC Article
    2. DDX3 Participates in Translational Control of Inflammation Induced by Infections and Injuries. Ku YC, et al. Mol Cell Biol, 2019 Jan 1. PMID 30373933, Free PMC Article
    3. Viral infection-induced changes in the expression profile of non-RLR DExD/H-box RNA helicases (DDX1, DDX3, DHX9, DDX21 and DHX36) in zebrafish and common carp. Mojzesz M, et al. Fish Shellfish Immunol, 2020 Sep. PMID 32526283
    4. Transcriptional regulation in liver and testis associated with developmental and reproductive effects in male zebrafish exposed to natural mixtures of persistent organic pollutants (POP). Nourizadeh-Lillabadi R, et al. J Toxicol Environ Health A, 2009. PMID 19184727
    5. Type I interferon-dependent response of zebrafish larvae during tilapia lake virus (TiLV) infection. Widziolek M, et al. Dev Comp Immunol, 2021 Mar. PMID 33242567

    See all (16) 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 ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 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 nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in gamete generation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of neutrophil chemotaxis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of neutrophil chemotaxis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in P granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    ATP-dependent RNA helicase DDX3X; DEAD-box helicase 3 X-linked a
    Names
    DEAD (Asp-Glu-Ala-Asp) box helicase 3
    DEAD (Asp-Glu-Ala-Asp) box helicase 3a
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 3
    NP_001119895.1
    XP_005167775.1
    XP_005167777.1
    XP_009303026.1
    XP_017213194.1
    XP_017213195.1
    XP_021334401.1
    XP_021334402.1
    XP_021334403.1
    XP_021334404.1
    XP_021334405.1
    XP_021334406.1
    XP_021334408.1
    XP_021334409.1
    XP_021334410.1
    XP_021334411.1

    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_001126423.1 → NP_001119895.1  DEAD-box helicase 3 X-linked a

      Status: PROVISIONAL

      Source sequence(s)
      BX545856
      UniProtKB/TrEMBL
      A0A8M1NJ99, B0S6P6
      Related
      ENSDARP00000002260.7, ENSDART00000006867.9
      Conserved Domains (3) summary
      cd00268
      Location:225 → 452
      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 ...
      PTZ00110
      Location:105 → 656
      PTZ00110; helicase; Provisional
      pfam00271
      Location:473 → 584
      Helicase_C; Helicase conserved C-terminal domain

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007120.7 Reference GRCz11 Primary Assembly

      Range
      33334456..33354886
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021478726.1 → XP_021334401.1  ATP-dependent RNA helicase DDX3X isoform X1

      UniProtKB/TrEMBL
      A0A8M9QFI7
      Conserved Domains (1) summary
      COG0513
      Location:331 → 779
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    2. XM_021478728.1 → XP_021334403.1  ATP-dependent RNA helicase DDX3X isoform X3

      UniProtKB/TrEMBL
      A0A8M9Q4N5
      Conserved Domains (1) summary
      COG0513
      Location:331 → 778
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    3. XM_021478731.1 → XP_021334406.1  ATP-dependent RNA helicase DDX3X isoform X6

      UniProtKB/TrEMBL
      A0A8M9QFJ0
      Conserved Domains (1) summary
      COG0513
      Location:303 → 751
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    4. XM_021478733.1 → XP_021334408.1  ATP-dependent RNA helicase DDX3X isoform X7

      UniProtKB/TrEMBL
      A0A8M9Q4N8
      Conserved Domains (1) summary
      COG0513
      Location:302 → 750
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    5. XM_021478735.1 → XP_021334410.1  ATP-dependent RNA helicase DDX3X isoform X9

      UniProtKB/TrEMBL
      A0A8M9QJS4
      Conserved Domains (1) summary
      COG0513
      Location:274 → 722
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    6. XM_021478727.1 → XP_021334402.1  ATP-dependent RNA helicase DDX3X isoform X2

      UniProtKB/TrEMBL
      A0A8M9PS93
      Conserved Domains (1) summary
      COG0513
      Location:330 → 778
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    7. XM_021478730.1 → XP_021334405.1  ATP-dependent RNA helicase DDX3X isoform X5

      UniProtKB/TrEMBL
      A0A8M9QJR9
      Conserved Domains (1) summary
      COG0513
      Location:311 → 759
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    8. XM_021478734.1 → XP_021334409.1  ATP-dependent RNA helicase DDX3X isoform X8

      UniProtKB/TrEMBL
      A0A8M9QAW2
      Conserved Domains (1) summary
      COG0513
      Location:282 → 730
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    9. XM_021478729.1 → XP_021334404.1  ATP-dependent RNA helicase DDX3X isoform X4

      UniProtKB/TrEMBL
      A0A8M9QAW0
      Conserved Domains (1) summary
      COG0513
      Location:315 → 763
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    10. XM_005167718.4 → XP_005167775.1  ATP-dependent RNA helicase DDX3X isoform X10

      UniProtKB/TrEMBL
      A0A8M2BF62
      Conserved Domains (3) summary
      cd00268
      Location:245 → 472
      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 ...
      PTZ00110
      Location:125 → 676
      PTZ00110; helicase; Provisional
      pfam00271
      Location:493 → 604
      Helicase_C; Helicase conserved C-terminal domain

    11. XM_017357706.2 → XP_017213195.1  ATP-dependent RNA helicase DDX3X isoform X12

      UniProtKB/TrEMBL
      A0A8M6Z099

    12. XM_017357705.2 → XP_017213194.1  ATP-dependent RNA helicase DDX3X isoform X11

      UniProtKB/TrEMBL
      A0A8M6Z8G4

    13. XM_009304751.3 → XP_009303026.1  ATP-dependent RNA helicase DDX3X isoform X15

      UniProtKB/TrEMBL
      A0A8M3B2Q5
      Conserved Domains (3) summary
      cd00268
      Location:225 → 451
      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 ...
      PTZ00110
      Location:105 → 655
      PTZ00110; helicase; Provisional
      pfam00271
      Location:472 → 583
      Helicase_C; Helicase conserved C-terminal domain

    14. XM_021478736.1 → XP_021334411.1  ATP-dependent RNA helicase DDX3X isoform X13

      UniProtKB/TrEMBL
      A0A8M9QFJ5
      Conserved Domains (1) summary
      COG0513
      Location:203 → 651
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    15. XM_005167720.4 → XP_005167777.1  ATP-dependent RNA helicase DDX3X isoform X14

      UniProtKB/TrEMBL
      A0A8M2BF54
      Conserved Domains (3) summary
      cd00268
      Location:209 → 436
      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 ...
      PTZ00110
      Location:89 → 640
      PTZ00110; helicase; Provisional
      pfam00271
      Location:457 → 568
      Helicase_C; Helicase conserved C-terminal domain
    Nucleotide Protein Strain
    Heading Accession and Version

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