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    ddx46 DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 [ Danio rerio (zebrafish) ]

    Gene ID: 321948, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ddx46provided by ZNC
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 46provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-667
    See related
    Ensembl:ENSDARG00000099458 AllianceGenome:ZFIN:ZDB-GENE-030131-667
    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
    fb39a03; fj67d06; wu:fb39a03; wu:fj67d06
    Summary
    Predicted to enable several functions, including ATP binding activity; ATP hydrolysis activity; and RNA helicase activity. Acts upstream of or within several processes, including digestive system development; liver morphogenesis; and positive regulation of cell differentiation. Predicted to be located in Cajal body and nuclear speck. Predicted to be part of U2-type spliceosomal complex. Predicted to be active in nucleus. Is expressed in brain; digestive system; head; hematopoietic system; and pectoral fin bud. Orthologous to human DDX46 (DEAD-box helicase 46). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ddx46 in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (45717916..45732179)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (45575505..45589810, complement)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene SEC24 homolog A, COPII coat complex component Neighboring gene calcium modulating ligand Neighboring gene zgc:77058 Neighboring gene uncharacterized LOC101883451

    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. Ddx46 is required for multi-lineage differentiation of hematopoietic stem cells in zebrafish. Hirabayashi R, et al. Stem Cells Dev, 2013 Sep 15. PMID 23635340, Free PMC Article
    2. Zebrafish as a model for understanding the evolution of the vertebrate immune system and human primary immunodeficiency. Iwanami N. Exp Hematol, 2014 Aug. PMID 24824573
    3. DEAD-box protein Ddx46 is required for the development of the digestive organs and brain in zebrafish. Hozumi S, et al. PLoS One, 2012. PMID 22442707, Free PMC Article
    4. The circadian clock regulates autophagy directly through the nuclear hormone receptor Nr1d1/Rev-erbα and indirectly via Cebpb/(C/ebpβ) in zebrafish. Huang G, et al. Autophagy, 2016 Aug 2. PMID 27171500, Free PMC Article
    5. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    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 ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    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 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 RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in U2-type prespliceosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within brain development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within definitive hemopoiesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within digestive tract morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within exocrine pancreas development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within liver morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within positive regulation of erythrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of hematopoietic stem cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of lymphocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Cajal body IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of U2-type spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX46
    Names
    DEAD box protein 46
    NP_001019988.1
    XP_009294012.1
    XP_068071881.1

    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_001024817.1 → NP_001019988.1  probable ATP-dependent RNA helicase DDX46

      See identical proteins and their annotated locations for NP_001019988.1

      Status: PROVISIONAL

      Source sequence(s)
      DQ054379
      UniProtKB/Swiss-Prot
      Q4TVV3
      Related
      ENSDARP00000135125.1, ENSDART00000164315.2
      Conserved Domains (3) summary
      smart00487
      Location:355 → 564
      DEXDc; DEAD-like helicases superfamily
      cd00079
      Location:560 → 690
      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:346 → 549
      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: 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_007132.7 Reference GRCz11 Primary Assembly

      Range
      45717916..45732179
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009295737.4 → XP_009294012.1  probable ATP-dependent RNA helicase DDX46 isoform X1

      UniProtKB/TrEMBL
      A0A8M3AX96
      Conserved Domains (3) summary
      COG0513
      Location:348 → 811
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00079
      Location:577 → 707
      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:363 → 566
      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_068215780.1 → XP_068071881.1  probable ATP-dependent RNA helicase DDX46 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4TVV3.1 GenPept UniProtKB/Swiss-Prot:Q4TVV3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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