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rorcb RAR-related orphan receptor C b [ Danio rerio (zebrafish) ]

Gene ID: 562258, updated on 2-Nov-2024

Summary

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Official Symbol
rorcbprovided by ZNC
Official Full Name
RAR-related orphan receptor C bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040724-215
See related
Ensembl:ENSDARG00000017780 AllianceGenome:ZFIN:ZDB-GENE-040724-215
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
si:dkey-158a20.2; si:ch211-168n16.2
Summary
Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in intestinal bulb; nervous system; and presumptive diencephalon. Human ortholog(s) of this gene implicated in immunodeficiency 42. Orthologous to human RORC (RAR related orphan receptor C). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
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Genomic context

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See rorcb in Genome Data Viewer
Location:
chromosome: 2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (49417900..49447226)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (49683670..49712996)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene abhydrolase domain containing 17A, depalmitoylase a Neighboring gene sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6Ba Neighboring gene SH3-domain GRB2-like 1a Neighboring gene si:ch211-209f23.3 Neighboring gene signal transducing adaptor family member 2a

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. Th17 master transcription factors RORα and RORγ regulate the expression of IL-17C, IL-17D and IL-17F in Cynoglossus semilaevis. Chi H, et al. Dev Comp Immunol, 2016 Feb. PMID 26547017
  2. Molecular evidence for the involvement of RORα and RORγ in immune response in teleost. Du L, et al. Fish Shellfish Immunol, 2012 Aug. PMID 22683816
  3. Two differentially active alternative promoters control the expression of the zebrafish orphan nuclear receptor gene Rev-erbalpha. Kakizawa T, et al. J Mol Endocrinol, 2007 May. PMID 17496157
  4. Regulation of zebrafish (Danio rerio) locomotor behavior and circadian rhythm network by environmental steroid hormones. Zhao Y, et al. Environ Pollut, 2018 Jan. PMID 28993021
  5. Changes in aggression and locomotor behaviors in response to zinc is accompanied by brain cell heterogeneity and metabolic and circadian dysregulation of the brain-liver axis. Yu F, et al. Ecotoxicol Environ Saf, 2022 Dec 15. PMID 36403304

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

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 IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
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 receptor activity IEA
Inferred from Electronic Annotation
more info
  
enables sequence-specific DNA 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 regulation of DNA-templated transcription 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
  
Component Evidence Code Pubs
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
RAR-related orphan receptor C b
Names
NR1F3-B
RORgamma-B
RORgamma2

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_001277094.2 → NP_001264023.1  RAR-related orphan receptor C b

    Status: VALIDATED

    Source sequence(s)
    BX005161, CR926137, EH435421
    UniProtKB/TrEMBL
    A0A8M1NZB6, B8JJ08
    Related
    ENSDARP00000105771.2, ENSDART00000122742.3
    Conserved Domains (2) summary
    cd06968
    Location:3 → 97
    NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
    cl11397
    Location:230 → 468
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

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_007113.7 Reference GRCz11 Primary Assembly

    Range
    49417900..49447226
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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