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ubtf upstream binding transcription factor [ Xenopus tropicalis (tropical clawed frog) ]

Gene ID: 100135747, updated on 4-Nov-2024

Summary

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Official Symbol
ubtfprovided by Xenbase
Official Full Name
upstream binding transcription factorprovided by Xenbase
Primary source
Xenbase:XB-GENE-966565
See related
Ensembl:ENSXETG00000003356 AllianceGenome:Xenbase:XB-GENE-966565
Gene type
protein coding
RefSeq status
MODEL
Organism
Xenopus tropicalis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Also known as
ubf; ubf1; xUBF; nor-90; ubtf-a; ubtf-b; xUBFbeta2
Summary
Predicted to enable DNA binding activity. Predicted to be located in nucleus. 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]
Orthologs
human mouse all
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Genomic context

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See ubtf in Genome Data Viewer
Location:
chromosome: 10
Exon count:
25
Annotation release Status Assembly Chr Location
104 current UCB_Xtro_10.0 (GCF_000004195.4) 10 NC_030686.2 (18513025..18525841, complement)
103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 10 NC_030686.1 (14214104..14226929, complement)

Chromosome 10 - NC_030686.2Genomic Context describing neighboring genes Neighboring gene transmembrane and ubiquitin-like domain containing 2 Neighboring gene ataxin 7-like 3 Neighboring gene solute carrier family 4 member 1 (Diego blood group) Neighboring gene RUN domain containing 3A

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. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables DNA binding 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
nucleolar transcription factor 1
Names
upstream binding transcription factor, RNA polymerase I

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...Open this link in a new tab

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

  1. NC_030686.2 Reference UCB_Xtro_10.0 Primary Assembly

    Range
    18513025..18525841 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_004918581.4 → XP_004918638.1  nucleolar transcription factor 1 isoform X2

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A8J0R793
    Related
    ENSXETP00000094103.2, ENSXETT00000086611.2
    Conserved Domains (3) summary
    smart00398
    Location:485 → 552
    HMG; high mobility group
    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

  2. XM_002935536.4 → XP_002935582.2  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_002935582.2

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Related
    ENSXETP00000007293.5, ENSXETT00000007293.5
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  3. XM_004918573.4 → XP_004918630.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918630.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  4. XM_004918572.4 → XP_004918629.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918629.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  5. XM_004918577.4 → XP_004918634.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918634.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  6. XM_004918575.4 → XP_004918632.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918632.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  7. XM_004918579.4 → XP_004918636.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918636.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  8. XM_004918578.4 → XP_004918635.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918635.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  9. XM_004918576.4 → XP_004918633.1  nucleolar transcription factor 1 isoform X1

    See identical proteins and their annotated locations for XP_004918633.1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5

  10. XM_018097897.2 → XP_017953386.1  nucleolar transcription factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A6I8SQ12, A0A7D9NK92
    Conserved Domains (3) summary
    smart00398
    Location:506 → 573
    HMG; high mobility group
    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:418 → 501
    HMG_box_5; HMG (high mobility group) box 5
Nucleotide Protein Strain
Heading Accession and Version

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