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helz helicase with zinc finger [ Danio rerio (zebrafish) ]

Gene ID: 406550, updated on 9-Dec-2024

Summary

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Official Symbol
helzprovided by ZNC
Official Full Name
helicase with zinc fingerprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-2419
See related
Ensembl:ENSDARG00000030560 AllianceGenome:ZFIN:ZDB-GENE-040426-2419
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
zgc:77407; wu:fd51f08
Summary
Predicted to enable RNA binding activity. Predicted to be involved in regulatory ncRNA-mediated post-transcriptional gene silencing. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be located in nucleus. Predicted to be active in P granule and cytosol. Is expressed in telencephalon. Orthologous to human HELZ (helicase with zinc finger). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
human mouse all
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Genomic context

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See helz in Genome Data Viewer
Location:
chromosome: 3
Exon count:
31
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (60957501..61035492)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (60724928..60801971)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 25 member 17-like Neighboring gene phosphatidylinositol transfer protein cytoplasmic 1a Neighboring gene decapping exoribonuclease Neighboring gene calcium channel, voltage-dependent, gamma subunit 1b Neighboring gene calcium channel, voltage-dependent, gamma subunit 4b

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. Evolutionary and Expression Analysis of MOV10 and MOV10L1 Reveals Their Origin, Duplication and Divergence. Yang S, et al. Int J Mol Sci, 2022 Jul 7. PMID 35886872, Free PMC Article
  2. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article
  3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

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 DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion 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 regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in P granule IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
probable helicase with zinc finger domain
Names
helicase with zinc-finger domain
NP_998431.1
XP_021325743.1

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_213266.1 → NP_998431.1  probable helicase with zinc finger domain

    See identical proteins and their annotated locations for NP_998431.1

    Status: PROVISIONAL

    Source sequence(s)
    BC066461
    UniProtKB/Swiss-Prot
    Q6NYU2
    Related
    ENSDARP00000044095.5, ENSDART00000044096.8
    Conserved Domains (6) summary
    COG1112
    Location:752 → 1064
    DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
    pfam09606
    Location:1130 → 1626
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    pfam00642
    Location:171 → 195
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    pfam13086
    Location:635 → 826
    AAA_11; AAA domain
    pfam13087
    Location:833 → 1044
    AAA_12; AAA domain
    cl21455
    Location:635 → 697
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

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_007114.7 Reference GRCz11 Primary Assembly

    Range
    60957501..61035492
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021470068.2 → XP_021325743.1  probable helicase with zinc finger domain isoform X1

    UniProtKB/TrEMBL
    A0A8M9PFR0
    Conserved Domains (5) summary
    pfam00642
    Location:171 → 195
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    pfam09606
    Location:1108 → 1396
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    pfam13087
    Location:833 → 1044
    AAA_12; AAA domain
    cl26261
    Location:635 → 826
    AAA_11; AAA domain
    cl26464
    Location:1473 → 1835
    Atrophin-1; Atrophin-1 family
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6NYU2.1 GenPept UniProtKB/Swiss-Prot:Q6NYU2

Gene LinkOut

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