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

Gene ID: 321948, updated on 2-Nov-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, Nov 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

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