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Usf3 upstream transcription factor family member 3 [ Mus musculus (house mouse) ]

Gene ID: 207806, updated on 21-Apr-2024

Summary

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Official Symbol
Usf3provided by MGI
Official Full Name
upstream transcription factor family member 3provided by MGI
Primary source
MGI:MGI:2685454
See related
Ensembl:ENSMUSG00000068284 AllianceGenome:MGI:2685454
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm608; Gm1779; mKIAA2018; 5530400K22Rik
Summary
Predicted to be involved in negative regulation of epithelial to mesenchymal transition. Is expressed in several structures, including aorta; endocrine gland; genitourinary system; nervous system; and trachea. Orthologous to human USF3 (upstream transcription factor family member 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in colon adult (RPKM 6.7), kidney adult (RPKM 5.2) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
16 B4; 16 28.51 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (43993566..44047828)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (44173236..44227465)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_40894 Neighboring gene ATPase, H+ transporting, lysosomal V1 subunit A Neighboring gene STARR-seq mESC enhancer starr_40895 Neighboring gene STARR-positive B cell enhancer ABC_E9932 Neighboring gene STARR-seq mESC enhancer starr_40896 Neighboring gene N(alpha)-acetyltransferase 50, NatE catalytic subunit Neighboring gene STARR-positive B cell enhancer ABC_E11613 Neighboring gene STARR-positive B cell enhancer ABC_E2462 Neighboring gene SID1 transmembrane family, member 1 Neighboring gene STARR-seq mESC enhancer starr_40897 Neighboring gene STARR-seq mESC enhancer starr_40898 Neighboring gene STARR-seq mESC enhancer starr_40899 Neighboring gene spindle and centriole associated protein 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
  2. High-throughput discovery of novel developmental phenotypes. Dickinson ME, et al. Nature, 2016 Sep 22. PMID 27626380, Free PMC Article
  3. The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. Koscielny G, et al. Nucleic Acids Res, 2014 Jan. PMID 24194600, Free PMC Article
  4. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4) 
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

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
  
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 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_001029889.2 → NP_001025060.1  basic helix-loop-helix domain-containing protein USF3

    See identical proteins and their annotated locations for NP_001025060.1

    Status: VALIDATED

    Source sequence(s)
    AC125191, AI607791, AW047901, BX519295, BX639976
    Consensus CDS
    CCDS28184.1
    UniProtKB/TrEMBL
    B2RUQ2
    Related
    ENSMUSP00000128627.2, ENSMUST00000169582.3
    Conserved Domains (1) summary
    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

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    43993566..44047828
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521898.2 → XP_006521961.1  basic helix-loop-helix domain-containing protein USF3 isoform X1

    See identical proteins and their annotated locations for XP_006521961.1

    UniProtKB/TrEMBL
    B2RUQ2
    Related
    ENSMUSP00000112620.2, ENSMUST00000119746.8
    Conserved Domains (1) summary
    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_006521899.1 → XP_006521962.1  basic helix-loop-helix domain-containing protein USF3 isoform X1

    See identical proteins and their annotated locations for XP_006521962.1

    UniProtKB/TrEMBL
    B2RUQ2
    Conserved Domains (1) summary
    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_006521901.1 → XP_006521964.1  basic helix-loop-helix domain-containing protein USF3 isoform X1

    See identical proteins and their annotated locations for XP_006521964.1

    UniProtKB/TrEMBL
    B2RUQ2
    Conserved Domains (1) summary
    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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