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

Gene ID: 503590, updated on 28-Oct-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, Oct 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 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

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