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    rxrbb retinoid x receptor, beta b [ Danio rerio (zebrafish) ]

    Gene ID: 30486, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rxrbbprovided by ZNC
    Official Full Name
    retinoid x receptor, beta bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990415-242
    See related
    Ensembl:ENSDARG00000002006 AllianceGenome:ZFIN:ZDB-GENE-990415-242
    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
    RXR; rxrd; unp286
    Summary
    Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in negative regulation of DNA-templated transcription. Acts upstream of or within regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Is expressed in blastoderm; ovary; and testis. Orthologous to human RXRB (retinoid X receptor beta). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See rxrbb in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (18535596..18570789)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (18730049..18763291)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101883025 Neighboring gene uncharacterized LOC137487889 Neighboring gene formin homology 2 domain containing 3b Neighboring gene solute carrier family 6 member 19b

    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. Linkage of RXRB-like genes to class I and not to class II Mhc genes in the zebrafish. Gongora R, et al. Immunogenetics, 1998 Jul. PMID 9634478
    2. The orphan COUP-TF nuclear receptors are markers for neurogenesis from cnidarians to vertebrates. Gauchat D, et al. Dev Biol, 2004 Nov 1. PMID 15464576
    3. Retinoid requirements in the reproduction of zebrafish. Alsop D, et al. Gen Comp Endocrinol, 2008 Mar 1. PMID 18158153
    4. 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
    5. Thyroid hormone regulates abrupt skin morphogenesis during zebrafish postembryonic development. Aman AJ, et al. Dev Biol, 2021 Sep. PMID 34089732, Free PMC Article

    See all (23) 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 DNA-binding transcription factor activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    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 negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    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 nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    retinoic acid receptor RXR-beta-B
    Names
    NR2B2-B
    nuclear receptor subfamily 2 group B member 2-B
    retinoic acid receptor RXR-delta
    retinoid X receptor beta-B
    retinoid X receptor delta
    retinoid receptor-delta
    retinoid x receptor, delta

    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_131238.1 → NP_571313.1  retinoic acid receptor RXR-beta-B

      See identical proteins and their annotated locations for NP_571313.1

      Status: PROVISIONAL

      Source sequence(s)
      U29941
      UniProtKB/Swiss-Prot
      Q90417
      Related
      ENSDARP00000022973.8, ENSDART00000021596.9
      Conserved Domains (3) summary
      cd06943
      Location:183 → 403
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:89 → 164
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:21 → 77
      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_007127.7 Reference GRCz11 Primary Assembly

      Range
      18535596..18570789
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021466616.2 → XP_021322291.1  retinoic acid receptor RXR-beta-B isoform X1

      UniProtKB/TrEMBL
      B3DG77
      Conserved Domains (3) summary
      cd06943
      Location:183 → 403
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:89 → 164
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:21 → 78
      Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1

    2. XM_021466617.2 → XP_021322292.1  retinoic acid receptor RXR-beta-B isoform X1

      UniProtKB/TrEMBL
      B3DG77
      Related
      ENSDARP00000145278.1, ENSDART00000180168.1
      Conserved Domains (3) summary
      cd06943
      Location:183 → 403
      NR_LBD_RXR_like; The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily
      cd06956
      Location:89 → 164
      NR_DBD_RXR; DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers
      pfam11825
      Location:21 → 78
      Nuc_recep-AF1; Nuclear/hormone receptor activator site AF-1

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394959.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      166151..194337
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q90417.1 GenPept UniProtKB/Swiss-Prot:Q90417

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