esrra estrogen-related receptor alpha [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: esrraprovided by ZNC
Official Full Name: estrogen-related receptor alphaprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-68
See related: Ensembl:ENSDARG00000069266 AllianceGenome:ZFIN:ZDB-GENE-990415-68
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: err1; erra; esrral; erralpha
Summary: Enables DNA-binding transcription factor activity. Acts upstream of or within DNA-templated transcription; cell migration involved in gastrulation; and regulation of cartilage development. Predicted to be active in chromatin and nucleus. Is expressed in several structures, including brain; integument; mesoderm; muscle; and tail bud. Orthologous to human ESRRA (estrogen related receptor alpha). [provided by Alliance of Genome Resources, Jul 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 21

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2025_04	current	GRCz12tu (GCF_049306965.1)	21	NC_133196.1 (29695749..29727035)
RS_2024_08	previous assembly	GRCz11 (GCF_000002035.6)	21	NC_007132.7 (26606740..26635950)

Chromosome 21 - NC_133196.1 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?

ERRalpha is abundantly expressed in H(+)-pump-rich cells, a group of ionocytes responsible for H(+) secretion in the skin of developing embryos, and its expression is stimulated by acidic environments. Knockdown of ERRalpha impairs both basal and low pH-induced H(+) secretion in the yolk-sac skin, which is accompanied by decreased expression of H(+)-secreting-related transporters.
Title: Oestrogen-related receptor α is required for transepithelial H+ secretion in zebrafish.
Results propose Estrogen Receptor-Relatedalpha as a new regulator of morphogenetic movement during gastrulation, independently of cell fate determination.
Title: The ERRalpha orphan nuclear receptor controls morphogenetic movements during zebrafish gastrulation.
To gain insights into the possible functions of ERRs during early development, we have cloned their homologs in the zebrafish.
Title: Cloning and developmental expression of five estrogen-receptor related genes in the zebrafish.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables estrogen response element binding	IBA Inferred from Biological aspect of Ancestor more info
enables hormone binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear steroid receptor activity	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables steroid binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cell migration involved in gastrulation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cartilage development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of macromolecule biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of nucleobase-containing compound metabolic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to lipid	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in chromatin	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IC Inferred by Curator more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: steroid hormone receptor ERR1

Names: NR3B1; estrogen-related receptor 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)

NM_212955.1 → NP_998120.1 steroid hormone receptor ERR1

See identical proteins and their annotated locations for NP_998120.1

Status: PROVISIONAL

Source sequence(s)

AY556395

UniProtKB/TrEMBL

A0A286YAH6, A0A8M1PID8, Q6Q6F6

Related

ENSDARP00000144183.2, ENSDART00000176008.2

Conserved Domains (2) summary

cd06946
Location:212 → 431

NR_LBD_ERR; The ligand binding domain of estrogen receptor-related nuclear receptors

cd07170
Location:94 → 190

NR_DBD_ERR; DNA-binding domain of estrogen related receptors (ERR) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: GCF_049306965.1-RS_2025_04

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

Reference GRCz12tu Primary Assembly

Genomic

NC_133196.1 Reference GRCz12tu Primary Assembly

Range

29695749..29727035

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_009295473.5 → XP_009293748.1 steroid hormone receptor ERR1 isoform X2

See identical proteins and their annotated locations for XP_009293748.1

UniProtKB/TrEMBL

A0A286YAH6, A0A8M1PID8, Q6Q6F6

Conserved Domains (2) summary

cd06946
Location:212 → 431

NR_LBD_ERR; The ligand binding domain of estrogen receptor-related nuclear receptors

cd07170
Location:94 → 190

NR_DBD_ERR; DNA-binding domain of estrogen related receptors (ERR) is composed of two C4-type zinc fingers
XM_005161344.6 → XP_005161401.1 steroid hormone receptor ERR1 isoform X1

UniProtKB/TrEMBL

A0A8M2B8J1

Conserved Domains (2) summary

cd06946
Location:217 → 436

NR_LBD_ERR; The ligand binding domain of estrogen receptor-related nuclear receptors

cd07170
Location:99 → 195

NR_DBD_ERR; DNA-binding domain of estrogen related receptors (ERR) is composed of two C4-type zinc fingers