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

Gene ID: 303946, updated on 5-Mar-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
Ensembl: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 protein dimerization activity. Predicted to be involved in negative regulation of epithelial to mesenchymal transition. Orthologous to human USF3 (upstream transcription factor family member 3). [provided by Alliance of Genome Resources, Apr 2022]
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
    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
    Related
    ENSRNOP00000040722.5
    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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