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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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