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rxrgb retinoid X receptor, gamma b [ Danio rerio (zebrafish) ]

Gene ID: 436617, updated on 2-Nov-2024

Summary

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Official Symbol
rxrgbprovided by ZNC
Official Full Name
retinoid X receptor, gamma bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040718-34
See related
Ensembl:ENSDARG00000004697 AllianceGenome:ZFIN:ZDB-GENE-040718-34
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:92183
Summary
Predicted to enable nuclear receptor activity and retinoic acid-responsive element binding activity. Predicted to be involved in several processes, including nervous system development; positive regulation of transcription by RNA polymerase II; and retinoic acid receptor signaling pathway. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be located in cytoplasm and nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Is expressed in several structures, including Kupffer's vesicle; central nervous system; liver; paraxial mesoderm; and retina. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma. Orthologous to human RXRG (retinoid X receptor gamma). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
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Genomic context

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See rxrgb in Genome Data Viewer
Location:
chromosome: 20
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (33875255..33920020)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (33972376..34017141)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene olfactomedin-like 2Ba Neighboring gene activating transcription factor 6 Neighboring gene uncharacterized LOC137488666 Neighboring gene LIM homeobox transcription factor 1, alpha Neighboring gene selectin P

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 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. Molecular and functional characterization of the voltage-gated proton channel in zebrafish neutrophils. Ratanayotha A, et al. Physiol Rep, 2017 Aug. PMID 28774948, Free PMC Article
  2. Chronic perfluorooctane sulfonate (PFOS) exposure induces hepatic steatosis in zebrafish. Cheng J, et al. Aquat Toxicol, 2016 Jul. PMID 27108203
  3. Identification and characterization of a novel retinoic acid response element in zebrafish cyp26a1 promoter. Li J, et al. Anat Rec (Hoboken), 2012 Feb. PMID 22190473
  4. Environmental relevant concentrations of benzophenone-3 induced developmental neurotoxicity in zebrafish. Tao J, et al. Sci Total Environ, 2020 Jun 15. PMID 32169642
  5. Retinoic acid receptors' expression and function during zebrafish early development. Oliveira E, et al. J Steroid Biochem Mol Biol, 2013 Nov. PMID 23619336

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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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 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 retinoic acid-responsive element binding IBA
Inferred from Biological aspect of Ancestor
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
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in retinoic acid receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
retinoic acid receptor RXR-gamma-B
Names
nr2b3b
nuclear receptor subfamily 2 group B member 3-B
retinoid X receptor gamma-B

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_001002345.1 → NP_001002345.1  retinoic acid receptor RXR-gamma-B

    See identical proteins and their annotated locations for NP_001002345.1

    Status: PROVISIONAL

    Source sequence(s)
    BC075918
    UniProtKB/Swiss-Prot
    Q6DHP9
    Related
    ENSDARP00000003080.8, ENSDART00000002554.10
    Conserved Domains (3) summary
    cd06943
    Location:222 → 430
    NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
    cd06956
    Location:126 → 202
    NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
    pfam11825
    Location:17 → 122
    Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1

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_007131.7 Reference GRCz11 Primary Assembly

    Range
    33875255..33920020
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005160666.5 → XP_005160723.1  retinoic acid receptor RXR-gamma-B isoform X1

    UniProtKB/TrEMBL
    A0A8M2B7K1
    Conserved Domains (3) summary
    cd06943
    Location:235 → 443
    NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
    cd06956
    Location:139 → 215
    NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
    pfam11825
    Location:30 → 135
    Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6DHP9.1 GenPept UniProtKB/Swiss-Prot:Q6DHP9

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