rest RE1-silencing transcription factor [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: restprovided by ZNC
Official Full Name: RE1-silencing transcription factorprovided by ZNC
Primary source: ZFIN:ZDB-GENE-080415-1
See related: Ensembl:ENSDARG00000103046 AllianceGenome:ZFIN:ZDB-GENE-080415-1
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: NRSF
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including negative regulation of neuron maturation; negative regulation of smoothened signaling pathway; and nervous system development. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Is expressed in ectoderm; endoderm; fin; head mesenchyme; and nervous system. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 27; gingival fibromatosis 5; and nephroblastoma. Orthologous to human REST (RE1 silencing transcription factor). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (52421488..52433320, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (51705068..51717595, complement)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

Commensal Bacteria Regulate Gene Expression and Differentiation in Vertebrate Olfactory Systems Through Transcription Factor REST.
Title: Commensal Bacteria Regulate Gene Expression and Differentiation in Vertebrate Olfactory Systems Through Transcription Factor REST.
This study demostrated that maternal rest plays a long-term role in regulation of gene expression through snap25a/b and behavior during development.
Title: Maternal Rest/Nrsf Regulates Zebrafish Behavior through snap25a/b.
Study provides behavioral analysis of zebrafish rest mutants and reveals specific behaviors that are modulated by Rest, suggests that Rest has functions in regulating an organism's ability to interact with its environment
Title: Rest mutant zebrafish swim erratically and display atypical spatial preferences.
Rest functions in zebrafish facial branchiomotor neurons nuclei to inhibit maturation until the neurons complete their migration.
Title: Rest represses maturation within migrating facial branchiomotor neurons.
These findings demonstrate that the addition of NRSE sequences to transgenes can provide useful new tools for functional studies of the nervous system.
Title: Silencer-delimited transgenesis: NRSE/RE1 sequences promote neural-specific transgene expression in a NRSF/REST-dependent manner.
Rest is required for long-term repression of target genes in non-neural tissues in adult zebrafish.
Title: Zebrafish rest regulates developmental gene expression but not neurogenesis.
results showed that REST (especially maternal supplied REST) was required for gastrulation and neurogenesis during zebrafish early embryogenesis
Title: NRSF/REST is required for gastrulation and neurogenesis during zebrafish development.
The transcriptional repressor rest modulates hedgehog signaling.
Title: The transcriptional repressor REST/NRSF modulates hedgehog signaling.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within branchiomotor neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within facial nerve morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within facial nucleus development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within facial nucleus development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within locomotory behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within motor neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of neuron maturation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of smoothened signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
NOT acts_upstream_of_or_within neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron maturation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neuron migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within smoothened signaling pathway involved in dorsal/ventral neural tube patterning	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	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

General protein information

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Preferred Names: RE1-silencing transcription factor

Names: RE-1 silencer of transcription; neural-restrictive silencer factor

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_001353866.1 → NP_001340795.1 RE1-silencing transcription factor

Status: VALIDATED

Source sequence(s)

AL954718

UniProtKB/Swiss-Prot

Q2EI20

UniProtKB/TrEMBL

A0A0R4IKA2, A0A8M1QLP2

Conserved Domains (5) summary

sd00017
Location:266 → 286

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:326 → 343

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam10243
Location:453 → 769

MIP-T3; Microtubule-binding protein MIP-T3

pfam12756
Location:293 → 367

zf-C2H2_2; C2H2 type zinc-finger (2 copies)

pfam13465
Location:306 → 327

zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007125.7 Reference GRCz11 Primary Assembly

Range

52421488..52433320 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_001922872.6 → XP_001922907.1 RE1-silencing transcription factor

UniProtKB/Swiss-Prot

Q2EI20

UniProtKB/TrEMBL

A0A0R4IKA2, A0A8M1QLP2

Related

ENSDARP00000136293.1, ENSDART00000164272.2

Conserved Domains (5) summary

sd00017
Location:266 → 286

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:326 → 343

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam10243
Location:453 → 769

MIP-T3; Microtubule-binding protein MIP-T3

pfam12756
Location:293 → 367

zf-C2H2_2; C2H2 type zinc-finger (2 copies)

pfam13465
Location:306 → 327

zf-H2C2_2; Zinc-finger double domain