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    ubtf.S upstream binding transcription factor S homeolog [ Xenopus laevis (African clawed frog) ]

    Gene ID: 379116, updated on 4-Nov-2024

    Summary

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    Official Symbol
    ubtf.S
    Official Full Name
    upstream binding transcription factor S homeolog
    Primary source
    Xenbase:XB-GENE-966569
    Locus tag
    XELAEV_18046049mg
    See related
    EnsemblRapid:ENSXLAG00005033458 AllianceGenome:Xenbase:XB-GENE-966569
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Xenopus laevis
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
    Also known as
    ubf; ubf1; ubf2; ubtf; xUBF; ubtf-a; ubtf-b; xUBFbeta2
    Summary
    Predicted to enable DNA binding activity. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase I. Predicted to be located in nucleolus. Human ortholog(s) of this gene implicated in childhood-onset neurodegeneration with brain atrophy. Orthologous to human UBTF (upstream binding transcription factor). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See ubtf.S in Genome Data Viewer
    Location:
    chromosome: 9_10S
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 9_10S NC_054388.1 (4851041..4872102)
    100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 9_10S NC_030741.1 (4710554..4731184)

    Chromosome 9_10S - NC_054388.1Genomic Context describing neighboring genes Neighboring gene RUN domain containing 3A S homeolog Neighboring gene solute carrier family 4 member 1 (Diego blood group)S homeolog Neighboring gene ataxin 7-like 3 S homeolog Neighboring gene transmembrane and ubiquitin-like domain containing 2 S homeolog

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. xUBF and Rib 1 are both required for formation of a stable polymerase I promoter complex in X. laevis. McStay B, et al. EMBO J, 1991 Aug. PMID 2065665, Free PMC Article
    2. xUBF contains a novel dimerization domain essential for RNA polymerase I transcription. McStay B, et al. Genes Dev, 1991 Nov. PMID 1936987
    3. Heterogeneity in the Xenopus ribosomal transcription factor xUBF has a molecular basis distinct from that in mammals. Bachvarov D, et al. FEBS Lett, 1991 Aug 19. PMID 1879565
    4. Two distinct modes of DNMT1 recruitment ensure stable maintenance DNA methylation. Nishiyama A, et al. Nat Commun, 2020 Mar 6. PMID 32144273, Free PMC Article
    5. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • MGC52607

    Gene Ontology Provided by Xenbase

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase I ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    nucleolar transcription factor 1-B
    Names
    UBF-1-B
    upstream binding transcription factor, RNA polymerase I S homeolog
    upstream-binding factor 1-B
    xUBF-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_001085960.1 → NP_001079429.1  nucleolar transcription factor 1-B

      See identical proteins and their annotated locations for NP_001079429.1

      Status: PROVISIONAL

      Source sequence(s)
      X59863
      UniProtKB/Swiss-Prot
      P25980
      Conserved Domains (2) summary
      cd01390
      Location:112 → 177
      HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...
      pfam14887
      Location:419 → 502
      HMG_box_5; HMG (high mobility group) box 5

    RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Xenopus_laevis_v10.1 Primary Assembly

    Genomic

    1. NC_054388.1 Reference Xenopus_laevis_v10.1 Primary Assembly

      Range
      4851041..4872102
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_018237170.2 → XP_018092659.1  nucleolar transcription factor 1-B isoform X1

      UniProtKB/Swiss-Prot
      P25980
      UniProtKB/TrEMBL
      A0A974BSX5, Q8AVJ8
      Related
      ENSXLAP00005100609.1, ENSXLAT00005102568.1

    2. XM_018237171.2 → XP_018092660.1  nucleolar transcription factor 1-B isoform X1

      UniProtKB/Swiss-Prot
      P25980
      UniProtKB/TrEMBL
      A0A974BSX5, Q8AVJ8
      Related
      ENSXLAP00005100875.1, ENSXLAT00005102838.1

    3. XM_018237169.2 → XP_018092658.1  nucleolar transcription factor 1-B isoform X1

      UniProtKB/Swiss-Prot
      P25980
      UniProtKB/TrEMBL
      A0A974BSX5, Q8AVJ8
      Related
      ENSXLAP00005100951.1, ENSXLAT00005102917.1

    4. XM_041577617.1 → XP_041433551.1  nucleolar transcription factor 1-B isoform X2

      UniProtKB/Swiss-Prot
      P25980
      UniProtKB/TrEMBL
      A0A8J1LWW4
      Related
      ENSXLAP00005100679.1, ENSXLAT00005102638.1
      Conserved Domains (2) summary
      cd01390
      Location:112 → 177
      HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
      pfam14887
      Location:397 → 480
      HMG_box_5; HMG (high mobility group) box 5
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P25980.1 GenPept UniProtKB/Swiss-Prot:P25980

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