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

Summary

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

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_007114.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

fb75e01.y1 (e-PCR)
- UniSTS:191245

fd51f08.x1 (e-PCR)
- UniSTS:195607

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

EC 3.6.4.-

XP_021325743.1

EC 3.6.4.-

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)

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

NC_007114.7 Reference GRCz11 Primary Assembly

Range

60957501..61035492

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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