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

    Gene ID: 207806, updated on 27-Nov-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 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. Is expressed in several structures, including adrenal gland; aorta; genitourinary system; gut gland; and nervous system. Orthologous to human USF3 (upstream transcription factor family member 3). [provided by Alliance of Genome Resources, Nov 2024]
    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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    See Usf3 in Genome Data Viewer
    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. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    5. 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

    See all (17) 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)
    • Endonuclease-mediated (1) 
    • Targeted (4) 

    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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