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    rfx1b regulatory factor X, 1b (influences HLA class II expression) [ Danio rerio (zebrafish) ]

    Gene ID: 555183, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rfx1bprovided by ZNC
    Official Full Name
    regulatory factor X, 1b (influences HLA class II expression)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041008-101
    See related
    Ensembl:ENSDARG00000075904 AllianceGenome:ZFIN:ZDB-GENE-041008-101
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7137369
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding 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 located in nucleus. Orthologous to human RFX1 (regulatory factor X1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See rfx1b in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (54088541..54111461, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (53427586..53447814, complement)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene single-pass membrane protein with aspartate-rich tail 1b Neighboring gene DDB1 and CUL4 associated factor 15 Neighboring gene relaxin 3b Neighboring gene transportin 2b

    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. Function-driven discovery of disease genes in zebrafish using an integrated genomics big data resource. Shim H, et al. Nucleic Acids Res, 2016 Nov 16. PMID 27903883, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    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
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    MHC class II regulatory factor RFX1

    NCBI Reference Sequences (RefSeq)

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    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_007112.7 Reference GRCz11 Primary Assembly

      Range
      54088541..54111461 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021477399.2 → XP_021333074.1  MHC class II regulatory factor RFX1 isoform X2

      UniProtKB/TrEMBL
      A0A8M9Q7I5
      Related
      ENSDARP00000124460.1, ENSDART00000148382.3
      Conserved Domains (2) summary
      pfam02257
      Location:280 → 356
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:107 → 209
      RFX1_trans_act; RFX1 transcription activation region

    2. XM_021477396.2 → XP_021333071.1  MHC class II regulatory factor RFX1 isoform X1

      UniProtKB/TrEMBL
      A0A8M9QBM6
      Conserved Domains (2) summary
      pfam02257
      Location:281 → 357
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:107 → 210
      RFX1_trans_act; RFX1 transcription activation region
    Nucleotide Protein Strain
    Heading Accession and Version

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