Nr3c1 Nuclear Receptor Subfamily 3, Group C, Member 1 ... - NCBI

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Create FileAdd to ClipboardAdd to Collections nr3c1 nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) [ Danio rerio (zebrafish) ] Gene ID: 553740, updated on 14-Dec-2025

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Gene Sequences (FASTA) Transcript sequences (FASTA) Protein sequences(FASTA)

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Summary

Go to the top of the page Help Official Symbol nr3c1provided by ZNC Official Full Name nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)provided by ZNC Primary source ZFIN:ZDB-GENE-050522-503 See related Ensembl:ENSDARG00000025032 AllianceGenome:ZFIN:ZDB-GENE-050522-503 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 gr; utut; utouto; fb13f09; wu:fb13f09; zgc:113038 Summary Enables nuclear glucocorticoid receptor activity. Acts upstream of or within several processes, including chondrocyte proliferation; monoatomic cation transport; and response to glucocorticoid. Located in cytoplasm and nucleus. Is expressed in several structures, including blastodisc; digestive system; eye; gill; and pleuroperitoneal region. Used to study depressive disorder and generalized anxiety disorder. Human ortholog(s) of this gene implicated in several diseases, including alcohol dependence; anorexia nervosa; cocaine abuse; heroin dependence; and lung disease (multiple). Orthologous to human NR3C1 (nuclear receptor subfamily 3 group C member 1). [provided by Alliance of Genome Resources, Jul 2025] Orthologs human mouse all NEW Try the new Gene table Try the new Transcript table

Genomic context

Go to the top of the page Help See nr3c1 in Genome Data Viewer Location: chromosome: 14 Exon count: 9

Annotation release	Status	Assembly	Chr	Location
RS_2025_04	current	GRCz12tu (GCF_049306965.1)	14	NC_133189.1 (28017670..28071878, complement)
RS_2024_08	previous assembly	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (23747183..23801389, complement)

Chromosome 14 - NC_133189.1

Genomic regions, transcripts, and products

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Genomic Sequence: NC_133189.1 Chromosome 14 Reference GRCz12tu Primary Assembly NC_007125.7 Chromosome 14 Reference GRCz11 Primary Assembly NW_018394908.1 Chromosome 14 Unlocalized Scaffold Reference GRCz11 ALT_DRER_TU_1 NW_018395314.1 Chromosome 14 Unlocalized Scaffold Reference GRCz11 ALT_DRER_TU_2

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help See details Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages

• 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. Learning Deficits and Attenuated Adaptive Stress Response After Early-Life Seizures in Zebrafish. Singh H, et al. Front Neurosci, 2022. PMID 35527822, Free PMC Article
2. An affective disorder in zebrafish with mutation of the glucocorticoid receptor. Ziv L, et al. Mol Psychiatry, 2013 Jun. PMID 22641177, Free PMC Article
3. Discovery of a functional glucocorticoid receptor beta-isoform in zebrafish. Schaaf MJ, et al. Endocrinology, 2008 Apr. PMID 18096659
4. Expression of glucocorticoid-receptor covaries with individual differences in visual lateralisation in zebrafish. Rovegno E, et al. Anim Cogn, 2025 Mar 13. PMID 40080219, Free PMC Article
5. Cloning of nine glucocorticoid receptor isoforms from the slender African lungfish (Protopterus dolloi). Katsu Y, et al. PLoS One, 2022. PMID 35913912, Free PMC Article

See all (197) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

1. Glucocorticoid receptor regulates protein chaperone, circadian clock and affective disorder genes in the zebrafish brain. Title: Glucocorticoid receptor regulates protein chaperone, circadian clock and affective disorder genes in the zebrafish brain.
2. Zebrafish Mutant Lines Reveal the Interplay between nr3c1 and nr3c2 in the GC-Dependent Regulation of Gene Transcription. Title: Zebrafish Mutant Lines Reveal the Interplay between nr3c1 and nr3c2 in the GC-Dependent Regulation of Gene Transcription.
3. The role of the Glucocorticoid Receptor in the Regulation of Diel Rhythmicity. Title: The role of the Glucocorticoid Receptor in the Regulation of Diel Rhythmicity.
4. Knockout of the Glucocorticoid Receptor Impairs Reproduction in Female Zebrafish. Title: Knockout of the Glucocorticoid Receptor Impairs Reproduction in Female Zebrafish.
5. Glucocorticoid and mineralocorticoid receptor activation modulates postnatal growth. Title: Glucocorticoid and mineralocorticoid receptor activation modulates postnatal growth.
6. Feeding Entrainment of the Zebrafish Circadian Clock Is Regulated by the Glucocorticoid Receptor. Title: Feeding Entrainment of the Zebrafish Circadian Clock Is Regulated by the Glucocorticoid Receptor.
7. Chronic stressor-mediated GR signaling limits muscle glucose uptake, and this may play a role in protein catabolism, leading to the growth suppression in fish. Title: Loss of the glucocorticoid receptor in zebrafish improves muscle glucose availability and increases growth.
8. Opn4m2 labeling shows nuclear localization, which did not change in response to light. opn4m1, opn4m2, gr, per1b, and cry1b presented an oscillatory profile of expression in LD condition. In both DD and LD condition, dexamethasone (DEX) treatment shifted the peak expression of per1b and cry1b transcripts Title: Dexamethasone Modulates Nonvisual Opsins, Glucocorticoid Receptor, and Clock Genes in Danio rerio ZEM-2S Cells.
9. GR agonists enhanced, whereas GR loss diminished, Hematopoietic stem and progenitor cell formation. Title: The Central Nervous System Regulates Embryonic HSPC Production via Stress-Responsive Glucocorticoid Receptor Signaling.
10. Two distinct gene clusters were found that were regulated by GRalpha: one that was regulated by GRalpha under basal conditions (presence of endogenous cortisol only), and one that was regulated upon increased activation of GRalpha. Title: Transcriptional and metabolic effects of glucocorticoid receptor α and β signaling in zebrafish.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Pathways from PubChem

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General gene information

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Markers

• G39297 (e-PCR)
  • UniSTS:23477

Homology

• NCBI Orthologs
Orthologs from OrthoDB

Clone Names

• MGC113038, MGC191720

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotationmore info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotationmore info
enables core promoter sequence-specific DNA binding	IEA Inferred from Electronic Annotationmore info
enables estrogen response element binding	IBA Inferred from Biological aspect of Ancestormore info
enables lipid binding	IEA Inferred from Electronic Annotationmore info
enables metal ion binding	IEA Inferred from Electronic Annotationmore info
enables nuclear cortisol receptor activity	IEA Inferred from Electronic Annotationmore info
enables nuclear glucocorticoid receptor activity	IDA Inferred from Direct Assaymore info	PubMed
enables nuclear glucocorticoid receptor activity	IEA Inferred from Electronic Annotationmore info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestormore info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotationmore info
enables steroid binding	IEA Inferred from Electronic Annotationmore info
enables steroid hormone binding	IEA Inferred from Electronic Annotationmore info
enables zinc ion binding	IEA Inferred from Electronic Annotationmore info

Process	Evidence Code	Pubs
acts_upstream_of_or_within bone mineralization	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within calcium ion homeostasis	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within calcium ion import	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within cellular response to cortisol stimulus	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within chondrocyte proliferation	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within chordate embryonic development	IMP Inferred from Mutant Phenotypemore info	PubMed
involved_in chromatin organization	IEA Inferred from Electronic Annotationmore info
acts_upstream_of_or_within circadian behavior	IGI Inferred from Genetic Interactionmore info	PubMed
acts_upstream_of_or_within embryonic cranial skeleton morphogenesis	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within embryonic viscerocranium morphogenesis	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within light adaption	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within monoatomic ion homeostasis	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within multicellular organismal response to stress	IEP Inferred from Expression Patternmore info	PubMed
involved_in nuclear receptor-mediated glucocorticoid signaling pathway	IEA Inferred from Electronic Annotationmore info
involved_in nuclear receptor-mediated steroid hormone signaling pathway	IBA Inferred from Biological aspect of Ancestormore info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IDA Inferred from Direct Assaymore info	PubMed
involved_in positive regulation of gene expression	IEA Inferred from Electronic Annotationmore info
acts_upstream_of_or_within positive regulation of hypoxia-inducible factor-1alpha signaling pathway	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within proton export across plasma membrane	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IDA Inferred from Direct Assaymore info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotationmore info
acts_upstream_of_or_within regulation of hematopoietic stem cell differentiation	IMP Inferred from Mutant Phenotypemore info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestormore info
acts_upstream_of_or_within response to cortisol	IDA Inferred from Direct Assaymore info	PubMed
involved_in response to cortisol	IEA Inferred from Electronic Annotationmore info
acts_upstream_of_or_within response to cortisol	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within response to dexamethasone	IDA Inferred from Direct Assaymore info	PubMed
acts_upstream_of_or_within response to glucocorticoid	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within response to stress	IMP Inferred from Mutant Phenotypemore info	PubMed
acts_upstream_of_or_within sodium ion homeostasis	IMP Inferred from Mutant Phenotypemore info	PubMed

Component	Evidence Code	Pubs
located_in basolateral part of cell	IEA Inferred from Electronic Annotationmore info
located_in centrosome	IEA Inferred from Electronic Annotationmore info
is_active_in chromatin	IBA Inferred from Biological aspect of Ancestormore info
located_in cytoplasm	IDA Inferred from Direct Assaymore info	PubMed
located_in mitochondrion	IEA Inferred from Electronic Annotationmore info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestormore info
located_in nucleus	IDA Inferred from Direct Assaymore info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotationmore info
located_in spindle	IEA Inferred from Electronic Annotationmore info

General protein information

Go to the top of the page Help Preferred Names glucocorticoid receptor

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

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_001020711.3 → NP_001018547.2  glucocorticoid receptor

   See identical proteins and their annotated locations for NP_001018547.2

   Status: VALIDATED

   Source sequence(s) JBMGRA010000014 UniProtKB/TrEMBL A6YIH6, Q1XHK0 Related ENSDARP00000054263.3, ENSDART00000054264.5 Conserved Domains (3) summary cd06947Location:500 → 744 NR_LBD_GR_Like; Ligand binding domain of nuclear hormone receptors:glucocorticoid receptor, mineralocorticoid receptor , progesterone receptor, and androgen receptor cd07172Location:383 → 460 NR_DBD_GR_PR; DNA-binding domain of glucocorticoid receptor (GR) is composed of two C4-type zinc fingers pfam02155Location:18 → 369 GCR; Glucocorticoid receptor

RefSeqs of Annotated Genomes: GCF_049306965.1-RS_2025_04

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

This section includes genomic Reference Sequences (RefSeqs) from all assemblies on which this gene is annotated, such as RefSeqs for chromosomes and scaffolds (contigs) from both reference and alternate assemblies. Model RNAs and proteins are also reported here.

Reference GRCz12tu Primary Assembly

Genomic

1. NC_133189.1 Reference GRCz12tu Primary Assembly

   Range 28017670..28071878 complement Download GenBank, FASTA, Sequence Viewer (Graphics)

Related sequences

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Nucleotide		Protein	Strain
Heading	Accession and Version

Additional links

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Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases

• Bgee database
• nr3c1 gene expression
• BioGPS
• BioGPS
• Eukaryotic Promoter Database
• nr3c1_1
• GlyGen glycoinformatics resource
• GlyGen glycoinformatics resource
• Kyoto Encyclopedia of Genes and Genomes
• Kyoto Encyclopedia of Genes and Genomes
• OMA Browser: Orthologous MAtrix
• OMA Browser: Orthologous MAtrix
• OMA Browser: Orthologous MAtrix
• OrthoDB catalog of orthologs
• Orthologs

Research Materials

• Addgene Non-profit plasmid repository
• Get Plasmids - Addgene
• Creative Biogene
• nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)
• GenScript latest version of gene cDNA ORF Clone
• GenScript latest version of gene cDNA ORF Clone

Tools

• GeneMANIA
• GeneMANIA

Miscellaneous

• Reactome
• Reactome Entity:Q1XHK0
• Reactome Event:Cellular responses to stimuli
• Reactome Event:Metabolism of proteins

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Supplemental Content

Table of contents

• Summary
• Genomic context
• Genomic regions, transcripts, and products
• Expression
• Bibliography
• Pathways from PubChem
• General gene information Markers, Clone Names, Homology, Gene Ontology
• General protein information
• NCBI Reference Sequences (RefSeq)
• Related sequences
• Additional links

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Related information

• BioProjects BioProjects related to a gene
• Conserved Domains Related CDD
• Full text in PMC PMC links
• Full text in PMC_nucleotide Full text in PubMedCentral identified from shared sequence links
• Functional Class Functional class of the sequence domain architecture
• Gene neighbors Overlapping genes and two nearest non-overlapping genes on either side
• Genome Related Genome
• GEO Profiles Related GEO
• HomoloGene Related HomoloGene
• Nucleotide Link to related Nucleotide entry
• Protein Link to related protein entry
• PubChem Compound PubChem Compounds
• PubChem Substance PubChem Substances
• PubMed Link to related PubMed entry
• PubMed (GeneRIF) Link to related PubMed article from GeneRIFs
• PubMed(nucleotide/PMC) Citations in PubMed identified from shared sequence and PMC links.
• RefSeq Proteins Link to Protein RefSeqs
• RefSeq RNAs Link to Nucleotide RefSeq RNAs
• Taxonomy Link to related taxonomy entry

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• Ensembl
• AllianceGenome
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• nr3c1 nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) ... nr3c1 nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) [Danio rerio]Gene ID:553740 Gene
• 553740[uid] (1) Gene

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