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    rorab RAR-related orphan receptor A, paralog b [ Danio rerio (zebrafish) ]

    Gene ID: 554722, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rorabprovided by ZNC
    Official Full Name
    RAR-related orphan receptor A, paralog bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-855
    See related
    Ensembl:ENSDARG00000001910 AllianceGenome:ZFIN:ZDB-GENE-040426-855
    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
    Rora; zgc:55954; wu:fq24g04
    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 several structures, including alar plate midbrain region; brain; immature eye; optic primordium; and visual system. Orthologous to human RORA (RAR related orphan receptor A). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See rorab in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (29538638..29625525, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (29267480..29355375, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene intelectin 4 Neighboring gene annexin A2b Neighboring gene vacuolar protein sorting 13 homolog C Neighboring gene serine/threonine-protein kinase pim-2-like

    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. Expression of zebrafish ROR alpha gene in cerebellar-like structures. Katsuyama Y, et al. Dev Dyn, 2007 Sep. PMID 17685489
    2. The zebrafish retinoid-related orphan receptor (ror) gene family. Flores MV, et al. Gene Expr Patterns, 2007 Apr. PMID 17374568
    3. Transcriptomics reveal an integrative role for maternal thyroid hormones during zebrafish embryogenesis. Silva N, et al. Sci Rep, 2017 Nov 30. PMID 29192226, Free PMC Article
    4. 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
    5. 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

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC55954, MGC174539

    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
    nuclear receptor ROR-alpha B
    Names
    NR1F1-A
    RORalpha-A
    retinoid-related orphan receptor alpha 1
    retinoid-related orphan receptor-alpha B
    rora1

    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_201067.1 → NP_957361.1  nuclear receptor ROR-alpha B

      See identical proteins and their annotated locations for NP_957361.1

      Status: PROVISIONAL

      Source sequence(s)
      BC051158
      UniProtKB/Swiss-Prot
      B0JZJ5, F1QJF4, Q7ZU39
      Related
      ENSDARP00000015111.9, ENSDART00000019140.12
      Conserved Domains (2) summary
      cd06939
      Location:222 → 462
      NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
      cd06968
      Location:10 → 104
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      29538638..29625525 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021477531.2 → XP_021333206.1  nuclear receptor ROR-alpha B isoform X2

      UniProtKB/Swiss-Prot
      B0JZJ5, F1QJF4, Q7ZU39
      UniProtKB/TrEMBL
      A0A8M9QBZ9
      Conserved Domains (2) summary
      cd06939
      Location:264 → 504
      NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
      cd06968
      Location:52 → 146
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers

    2. XM_017356860.3 → XP_017212349.1  nuclear receptor ROR-alpha B isoform X3

      UniProtKB/Swiss-Prot
      B0JZJ5, F1QJF4, Q7ZU39
      UniProtKB/TrEMBL
      A0A8M6YZZ4

    3. XM_009303216.4 → XP_009301491.1  nuclear receptor ROR-alpha B isoform X1

      UniProtKB/Swiss-Prot
      B0JZJ5, F1QJF4, Q7ZU39
      UniProtKB/TrEMBL
      A0A1D5NSP3, A0A8M3AU94
      Related
      ENSDARP00000142860.1, ENSDART00000173723.2
      Conserved Domains (2) summary
      cd06939
      Location:274 → 514
      NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
      cd06968
      Location:62 → 156
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394694.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      412226..446108 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395266.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      219211..252146 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F1QJF4.1 GenPept UniProtKB/Swiss-Prot:F1QJF4

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