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    Usf3 upstream transcription factor family member 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303946, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Usf3provided by RGD
    Official Full Name
    upstream transcription factor family member 3provided by RGD
    Primary source
    RGD:1560175
    See related
    EnsemblRapid:ENSRNOG00000027756 AllianceGenome:RGD:1560175
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1560175
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of epithelial to mesenchymal transition and positive regulation of transcription by RNA polymerase II. Orthologous to human USF3 (upstream transcription factor family member 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 114.7), Kidney (RPKM 114.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Usf3 in Genome Data Viewer
    Location:
    11q21
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (69976658..70035809, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (56470738..56529736, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (61427140..61499668, complement)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene spindle and centriole associated protein 1 Neighboring gene SID1 transmembrane family, member 1 Neighboring gene U2 spliceosomal RNA Neighboring gene uncharacterized LOC120095658 Neighboring gene N(alpha)-acetyltransferase 50, NatE catalytic subunit Neighboring gene ATPase H+ transporting V1 subunit A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Germline compound heterozygous poly-glutamine deletion in USF3 may be involved in predisposition to heritable and sporadic epithelial thyroid carcinoma. Ni Y, et al. Hum Mol Genet, 2017 Jan 15. PMID 28011713, Free PMC Article
    2. The novel testicular enrichment protein Cfap58 is required for Notch-associated ciliogenesis. Li ZZ, et al. Biosci Rep, 2020 Jan 31. PMID 31904090, 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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of epithelial to mesenchymal transition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of epithelial to mesenchymal transition ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    basic helix-loop-helix domain-containing protein USF3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086029.1 Reference GRCr8

      Range
      69976658..70035809 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006248357.4 → XP_006248419.1  basic helix-loop-helix domain-containing protein USF3

      See identical proteins and their annotated locations for XP_006248419.1

      UniProtKB/TrEMBL
      A6IR12, D4ABR5
      Conserved Domains (2) summary
      PHA03247
      Location:311 → 644
      PHA03247; large tegument protein UL36; Provisional
      cd18910
      Location:15 → 79
      bHLHzip_USF3; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in basic helix-loop-helix domain-containing protein USF3 and similar proteins

    2. XM_006248356.4 → XP_006248418.1  basic helix-loop-helix domain-containing protein USF3

      See identical proteins and their annotated locations for XP_006248418.1

      UniProtKB/TrEMBL
      A6IR12, D4ABR5
      Conserved Domains (2) summary
      PHA03247
      Location:311 → 644
      PHA03247; large tegument protein UL36; Provisional
      cd18910
      Location:15 → 79
      bHLHzip_USF3; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in basic helix-loop-helix domain-containing protein USF3 and similar proteins

    3. XM_039088895.2 → XP_038944823.1  basic helix-loop-helix domain-containing protein USF3

      UniProtKB/TrEMBL
      A6IR12, D4ABR5
      Related
      ENSRNOP00000040722.5, ENSRNOT00000046208.7
      Conserved Domains (2) summary
      PHA03247
      Location:311 → 644
      PHA03247; large tegument protein UL36; Provisional
      cd18910
      Location:15 → 79
      bHLHzip_USF3; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in basic helix-loop-helix domain-containing protein USF3 and similar proteins

    4. XM_221454.10 → XP_221454.5  basic helix-loop-helix domain-containing protein USF3

      See identical proteins and their annotated locations for XP_221454.5

      UniProtKB/TrEMBL
      A6IR12, D4ABR5
      Conserved Domains (2) summary
      PHA03247
      Location:311 → 644
      PHA03247; large tegument protein UL36; Provisional
      cd18910
      Location:15 → 79
      bHLHzip_USF3; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in basic helix-loop-helix domain-containing protein USF3 and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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