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    ddx3xb DEAD-box helicase 3 X-linked b [ Danio rerio (zebrafish) ]

    Gene ID: 30116, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ddx3xbprovided by ZNC
    Official Full Name
    DEAD-box helicase 3 X-linked bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-980526-150
    See related
    Ensembl:ENSDARG00000005774 AllianceGenome:ZFIN:ZDB-GENE-980526-150
    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
    p110; pl10; ddx3b; p110a; pl10a; wu:fb43h11; wu:fy72b06; etID309900.24
    Summary
    Predicted to enable RNA helicase activity and mRNA binding activity. Acts upstream of or within brain development. Predicted to be active in P granule and nucleus. Human ortholog(s) of this gene implicated in colorectal cancer and syndromic X-linked intellectual disability. Orthologous to several human genes including DDX3X (DEAD-box helicase 3 X-linked). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See ddx3xb in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (59832774..59850404)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (59900542..59918193)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene R3H domain containing 2 Neighboring gene calcium/calmodulin-dependent serine protein kinase b Neighboring gene lysine (K)-specific demethylase 6A, like Neighboring gene angio-associated, migratory cell protein

    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. 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
    2. Black carp vasa identifies embryonic and gonadal germ cells. Xue T, et al. Dev Genes Evol, 2017 Jul. PMID 28550373
    3. Mutations in DDX3X Are a Common Cause of Unexplained Intellectual Disability with Gender-Specific Effects on Wnt Signaling. Snijders Blok L, et al. Am J Hum Genet, 2015 Aug 6. PMID 26235985, Free PMC Article
    4. Identification and sexually dimorphic expression of vasa isoforms in Dabry's sturgeon (Acipenser dabryanus), and functional analysis of vasa 3'-untranslated region. Ye H, et al. Cell Tissue Res, 2016 Oct. PMID 27184950
    5. Identification and migration of primordial germ cells in Atlantic salmon, Salmo salar: characterization of vasa, dead end, and lymphocyte antigen 75 genes. Nagasawa K, et al. Mol Reprod Dev, 2013 Feb. PMID 23239145, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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
    acts_upstream_of_or_within brain development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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
    DEAD-box helicase 3 X-linked b
    Names
    DEAD (Asp-Glu-Ala-Asp) box helicase 3b
    NP_571016.2
    XP_005168845.1
    XP_005168846.1
    XP_005168847.1
    XP_005168848.1
    XP_005168849.1
    XP_068077747.1
    XP_068077748.1

    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_130941.2 → NP_571016.2  DEAD-box helicase 3 X-linked b

      See identical proteins and their annotated locations for NP_571016.2

      Status: PROVISIONAL

      Source sequence(s)
      BC059794
      UniProtKB/TrEMBL
      Q6PBB2
      Related
      ENSDARP00000092924.3, ENSDART00000102148.6
      Conserved Domains (3) summary
      smart00487
      Location:223 → 450
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:210 → 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 ...
      pfam00271
      Location:457 → 568
      Helicase_C; Helicase conserved C-terminal domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007117.7 Reference GRCz11 Primary Assembly

      Range
      59832774..59850404
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005168788.5 → XP_005168845.1  DEAD-box helicase 3 X-linked b isoform X1

      UniProtKB/TrEMBL
      A0A8M2BG36
      Conserved Domains (3) summary
      smart00487
      Location:239 → 466
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:226 → 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 ...
      pfam00271
      Location:502 → 601
      Helicase_C; Helicase conserved C-terminal domain

    2. XM_005168789.5 → XP_005168846.1  DEAD-box helicase 3 X-linked b isoform X2

      UniProtKB/TrEMBL
      A0A8M2BG33
      Conserved Domains (3) summary
      smart00487
      Location:239 → 466
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:226 → 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 ...
      pfam00271
      Location:502 → 601
      Helicase_C; Helicase conserved C-terminal domain

    3. XM_005168791.5 → XP_005168848.1  DEAD-box helicase 3 X-linked b isoform X4

      UniProtKB/TrEMBL
      A0A8M2BG28
      Conserved Domains (3) summary
      smart00487
      Location:239 → 466
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:226 → 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 ...
      pfam00271
      Location:473 → 584
      Helicase_C; Helicase conserved C-terminal domain

    4. XM_005168792.5 → XP_005168849.1  DEAD-box helicase 3 X-linked b isoform X6

      UniProtKB/TrEMBL
      A0A8M2BG39
      Conserved Domains (3) summary
      smart00487
      Location:239 → 466
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:226 → 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 ...
      pfam00271
      Location:473 → 584
      Helicase_C; Helicase conserved C-terminal domain

    5. XM_005168790.5 → XP_005168847.1  DEAD-box helicase 3 X-linked b isoform X3

      UniProtKB/TrEMBL
      A0A8M2BGM7
      Conserved Domains (3) summary
      smart00487
      Location:223 → 450
      DEXDc; DEAD-like helicases superfamily
      cd00268
      Location:210 → 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 ...
      pfam00271
      Location:486 → 585
      Helicase_C; Helicase conserved C-terminal domain

    6. XM_068221646.1 → XP_068077747.1  DEAD-box helicase 3 X-linked b isoform X5

    7. XM_068221647.1 → XP_068077748.1  DEAD-box helicase 3 X-linked b isoform X7

    Nucleotide Protein
    Heading Accession and Version

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