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nr5a5 nuclear receptor subfamily 5, group A, member 5 [ Danio rerio (zebrafish) ]

Gene ID: 407626, updated on 11-Apr-2024

Summary

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Official Symbol
nr5a5provided by ZNC
Official Full Name
nuclear receptor subfamily 5, group A, member 5provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-4652
See related
Ensembl:ENSDARG00000039116 AllianceGenome:ZFIN:ZDB-GENE-030131-4652
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
ff1c; fd46g06; wu:fd46g06; zgc:111842; zgc:153866
Summary
Enables DNA binding activity and DNA-binding transcription factor activity. Predicted to be involved in hormone-mediated signaling pathway; regulation of transcription by RNA polymerase II; and tissue development. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Is expressed in several structures, including digestive system; fin; gill; heart; and pleuroperitoneal region. Orthologous to human NR5A2 (nuclear receptor subfamily 5 group A member 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See nr5a5 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
7
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (53457189..53465252, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (53202526..53210589, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene XPA binding protein 2 Neighboring gene calmodulin regulated spectrin-associated protein family, member 3 Neighboring gene heme-binding protein soul5 Neighboring gene shiftless antiviral inhibitor of ribosomal frameshifting

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. Sox9a regulation of ff1a in zebrafish (Danio rerio) suggests an involvement of ff1a in cartilage development. Koskinen J, et al. Comp Biochem Physiol A Mol Integr Physiol, 2009 May. PMID 18950725
  2. Novel steroidogenic factor-1 homolog (ff1d) is coexpressed with anti-Mullerian hormone (AMH) in zebrafish. von Hofsten J, et al. Dev Dyn, 2005 Jun. PMID 15768398
  3. Prox1 is a novel coregulator of Ff1b and is involved in the embryonic development of the zebra fish interrenal primordium. Liu YW, et al. Mol Cell Biol, 2003 Oct. PMID 14517294, Free PMC Article
  4. Zebrafish sex determination and differentiation: involvement of FTZ-F1 genes. von Hofsten J, et al. Reprod Biol Endocrinol, 2005 Nov 10. PMID 16281973, Free PMC Article
  5. Gene duplication, gene loss and evolution of expression domains in the vertebrate nuclear receptor NR5A (Ftz-F1) family. Kuo MW, et al. Biochem J, 2005 Jul 1. PMID 15725073, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The cloning and expression of 4 homologous genes in D. rerio are reported.
    Title: Gene duplication, gene loss and evolution of expression domains in the vertebrate nuclear receptor NR5A (Ftz-F1) family.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Clone Names

  • MGC153866

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding NAS
Non-traceable Author Statement
more info
 PubMed 
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 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 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
involved_in hormone-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
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
  
involved_in tissue development 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 nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
nuclear receptor subfamily 5, group A, member 5

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_001077272.2 → NP_001070740.2  nuclear receptor subfamily 5, group A, member 5 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    BX088711
    UniProtKB/TrEMBL
    A0A8M1NBN2, F1QKV6
    Related
    ENSDARP00000057122.6, ENSDART00000057123.8
    Conserved Domains (2) summary
    cd06944
    Location:272 → 509
    NR_LBD_Ftz-F1_like; The ligand binding domain of FTZ-F1 like nuclear receptors
    cd07167
    Location:25 → 117
    NR_DBD_Lrh-1_like; The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers

  2. NM_214779.2 → NP_999944.2  nuclear receptor subfamily 5, group A, member 5 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    BX088711
    UniProtKB/TrEMBL
    A0A8M1PK13, B3DKN2
    Related
    ENSDARP00000105488.2, ENSDART00000125515.3
    Conserved Domains (2) summary
    cd06944
    Location:298 → 535
    NR_LBD_Ftz-F1_like; The ligand binding domain of FTZ-F1 like nuclear receptors
    cd07167
    Location:51 → 143
    NR_DBD_Lrh-1_like; The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007114.7 Reference GRCz11 Primary Assembly

    Range
    53457189..53465252 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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