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    rfx2 regulatory factor X, 2 (influences HLA class II expression) [ Danio rerio (zebrafish) ]

    Gene ID: 503590, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rfx2provided by ZNC
    Official Full Name
    regulatory factor X, 2 (influences HLA class II expression)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050227-4
    See related
    Ensembl:ENSDARG00000013575 AllianceGenome:ZFIN:ZDB-GENE-050227-4
    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
    cb7; zfx2; cb133; sb:cb7; sb:cb133; zgc:91808; wu:fd20b11
    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. Acts upstream of or within Kupffer's vesicle development and determination of left/right symmetry. Predicted to be located in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; mesoderm; neural plate; neural tube; and pronephros. Orthologous to human RFX2 (regulatory factor X2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rfx2 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (20073063..20138101, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (20040978..20106283, complement)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103911498 Neighboring gene leupaxin Neighboring gene uncharacterized LOC137496339 Neighboring gene zinc finger protein 692 Neighboring gene FCH and mu domain containing endocytic adaptor 1 Neighboring gene acyl-CoA synthetase bubblegum family member 2 Neighboring gene MLLT1 super elongation complex subunit a

    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. A function for the Joubert syndrome protein Arl13b in ciliary membrane extension and ciliary length regulation. Lu H, et al. Dev Biol, 2015 Jan 15. PMID 25448689
    2. The zebrafish foxj1a transcription factor regulates cilia function in response to injury and epithelial stretch. Hellman NE, et al. Proc Natl Acad Sci U S A, 2010 Oct 26. PMID 20937855, Free PMC Article
    3. Dynamic transcriptomic profiles of zebrafish gills in response to zinc depletion. Zheng D, et al. BMC Genomics, 2010 Oct 8. PMID 20932299, Free PMC Article
    4. Orphan G-protein coupled receptor 22 (Gpr22) regulates cilia length and structure in the zebrafish Kupffer's vesicle. Verleyen D, et al. PLoS One, 2014. PMID 25335082, Free PMC Article
    5. Notch signaling controls the differentiation of transporting epithelia and multiciliated cells in the zebrafish pronephros. Liu Y, et al. Development, 2007 Mar. PMID 17287248

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data show that that Rfx2 is expressed in motile cilia in mouse and zebrafish embryos.
      Title: RFX2 is essential in the ciliated organ of asymmetry and an RFX2 transgene identifies a population of ciliated cells sufficient for fluid flow.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    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 ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Kupffer's vesicle development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cell projection organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cilium assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within determination of left/right symmetry IMP
    Inferred from Mutant Phenotype
    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 regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DNA-binding protein RFX2
    Names
    regulatory factor X 2

    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_001013278.1 → NP_001013296.1  DNA-binding protein RFX2

      See identical proteins and their annotated locations for NP_001013296.1

      Status: PROVISIONAL

      Source sequence(s)
      BC090314
      UniProtKB/Swiss-Prot
      Q5EAP5
      Related
      ENSDARP00000039332.7, ENSDART00000029939.9
      Conserved Domains (2) summary
      pfam02257
      Location:205 → 277
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:11 → 158
      RFX1_trans_act; RFX1 transcription activation region

    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_007119.7 Reference GRCz11 Primary Assembly

      Range
      20073063..20138101 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068222937.1 → XP_068079038.1  DNA-binding protein RFX2 isoform X3

    2. XM_005166838.5 → XP_005166895.1  DNA-binding protein RFX2 isoform X2

      UniProtKB/TrEMBL
      A0A8M2BEA3
      Conserved Domains (2) summary
      pfam02257
      Location:175 → 247
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:11 → 128
      RFX1_trans_act; RFX1 transcription activation region

    3. XM_005166837.5 → XP_005166894.1  DNA-binding protein RFX2 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BEC2
      Conserved Domains (2) summary
      pfam02257
      Location:180 → 252
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:11 → 158
      RFX1_trans_act; RFX1 transcription activation region
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5EAP5.1 GenPept UniProtKB/Swiss-Prot:Q5EAP5

    Gene LinkOut

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