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Aliases for USF3 Gene

Aliases for USF3 Gene

  • Upstream Transcription Factor Family Member 3 2 3 5
  • KIAA2018 2 3 4
  • Upstream Transcription Factor 3 3 4
  • Basic Helix-Loop-Helix Domain-Containing Protein USF3 3

External Ids for USF3 Gene

Previous HGNC Symbols for USF3 Gene

  • KIAA2018

Summaries for USF3 Gene

GeneCards Summary for USF3 Gene

USF3 (Upstream Transcription Factor Family Member 3) is a Protein Coding gene. Diseases associated with USF3 include Cowden Syndrome 1.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USF3 Gene

Genomics for USF3 Gene

Regulatory Elements for USF3 Gene

Enhancers for USF3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03F113658 1.4 Ensembl ENCODE 12 +34.6 34617 6.7 ATF1 ZNF133 THRB ZNF48 RAD21 RARA YY1 FOS CREM MIXL1 USF3 SIDT1 ATP6V1A GC03M113671 RN7SL767P
GH03F113625 1 ENCODE 11.6 +70.3 70336 1.8 GTF2F1 CTCF MAX CEBPG ZNF48 ZSCAN9 RAD21 RFX5 ZKSCAN1 ZNF143 SIDT1-AS1 SIDT1 USF3 SPICE1 ATP6V1A RN7SL767P GC03M113598
GH03F113667 0.9 Ensembl ENCODE 11.5 +28.5 28540 1.0 USF3 SIDT1 GC03M113671 RN7SL767P
GH03F113736 1.2 Ensembl ENCODE 11.3 -40.6 -40571 2.3 CTCF ZNF654 HLF TRIM22 ZNF384 REST RAD21 RCOR2 SMC3 CREB1 USF3 QTRT2 CCDC191 ATP6V1A ENSG00000239280 GC03P113719
GH03F113629 0.9 Ensembl ENCODE 11.1 +66.0 66026 2.1 POLR2A FOXA3 REST SIDT1-AS1 SIDT1 USF3 ATP6V1A RN7SL767P GC03M113598
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around USF3 on UCSC Golden Path with GeneCards custom track

Promoters for USF3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001371058 -654 4600 HDGF PKNOX1 ATF1 ARID4B SIN3A YBX1 DMAP1 ZNF48 YY1 GLIS2

Genomic Location for USF3 Gene

Chromosome:
3
Start:
113,648,385 bp from pter
End:
113,696,646 bp from pter
Size:
48,262 bases
Orientation:
Minus strand

Genomic View for USF3 Gene

Genes around USF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USF3 Gene

Proteins for USF3 Gene

  • Protein details for USF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q68DE3-USF3_HUMAN
    Recommended name:
    Basic helix-loop-helix domain-containing protein USF3
    Protein Accession:
    Q68DE3
    Secondary Accessions:
    • Q7Z3L9
    • Q8IVF3
    • Q9H8T4

    Protein attributes for USF3 Gene

    Size:
    2245 amino acids
    Molecular mass:
    241681 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB14518.1; Type=Miscellaneous discrepancy; Note=Chimeric cDNA.; Evidence={ECO:0000305}; Sequence=CAH18277.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

neXtProt entry for USF3 Gene

Post-translational modifications for USF3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for USF3 Gene

No data available for DME Specific Peptides for USF3 Gene

Domains & Families for USF3 Gene

Protein Domains for USF3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for USF3 Gene

Graphical View of Domain Structure for InterPro Entry

Q68DE3

UniProtKB/Swiss-Prot:

USF3_HUMAN :
  • Contains 1 bHLH (basic helix-loop-helix) domain.
Domain:
  • Contains 1 bHLH (basic helix-loop-helix) domain.
genes like me logo Genes that share domains with USF3: view

No data available for Gene Families for USF3 Gene

Function for USF3 Gene

Gene Ontology (GO) - Molecular Function for USF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0004571 mannosyl-oligosaccharide 1,2-alpha-mannosidase activity IBA --
GO:0046983 protein dimerization activity IEA --
genes like me logo Genes that share ontologies with USF3: view

Phenotypes for USF3 Gene

MGI mutant phenotypes for USF3:
inferred from 1 alleles
GenomeRNAi human phenotypes for USF3:
genes like me logo Genes that share phenotypes with USF3: view

Animal Models for USF3 Gene

MGI Knock Outs for USF3:
  • Usf3 tm2b(EUCOMM)Wtsi

Animal Model Products

miRNA for USF3 Gene

miRTarBase miRNAs that target USF3

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for USF3 Gene

Localization for USF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USF3 Gene

Gene Ontology (GO) - Cellular Components for USF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IBA --
GO:0005634 nucleus IEA --
GO:0005783 endoplasmic reticulum IBA --
genes like me logo Genes that share ontologies with USF3: view

No data available for Subcellular locations from COMPARTMENTS for USF3 Gene

Pathways & Interactions for USF3 Gene

SuperPathways for USF3 Gene

No Data Available

Interacting Proteins for USF3 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000320794%0d%0a9606.ENSP00000396620%0d%0a
Selected Interacting proteins: Q68DE3-USF3_HUMAN ENSP00000320794 for USF3 Gene via IID STRING

Gene Ontology (GO) - Biological Process for USF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006491 N-glycan processing IBA --
genes like me logo Genes that share ontologies with USF3: view

No data available for Pathways by source and SIGNOR curated interactions for USF3 Gene

Transcripts for USF3 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for USF3 Gene

No ASD Table

Relevant External Links for USF3 Gene

GeneLoc Exon Structure for
USF3
ECgene alternative splicing isoforms for
USF3

Expression for USF3 Gene

NURSA nuclear receptor signaling pathways regulating expression of USF3 Gene:

USF3
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for USF3 Gene

Orthologs for USF3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for USF3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia KIAA2018 34 35
  • 99.44 (n)
dog
(Canis familiaris)
Mammalia KIAA2018 34 35
  • 90.16 (n)
cow
(Bos Taurus)
Mammalia KIAA2018 34 35
  • 89.14 (n)
mouse
(Mus musculus)
Mammalia Gm608 34 35
  • 85.82 (n)
Usf3 16
rat
(Rattus norvegicus)
Mammalia RGD1560175 34
  • 85.14 (n)
oppossum
(Monodelphis domestica)
Mammalia KIAA2018 35
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia KIAA2018 35
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves KIAA2018 34 35
  • 71.89 (n)
lizard
(Anolis carolinensis)
Reptilia KIAA2018 35
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100145754 34
  • 59.73 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.33642 34
zebrafish
(Danio rerio)
Actinopterygii si:ch73-196k8.2 35
  • 31 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 23 (a)
OneToOne
Species where no ortholog for USF3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for USF3 Gene

ENSEMBL:
Gene Tree for USF3 (if available)
TreeFam:
Gene Tree for USF3 (if available)

Paralogs for USF3 Gene

No data available for Paralogs for USF3 Gene

Variants for USF3 Gene

Sequence variations from dbSNP and Humsavar for USF3 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs10606566 Likely benign 113,657,264(+) GCTGT(-/TGC)TGCTG intron-variant, cds-indel
rs1026364 -- 113,651,163(+) ATAAC(G/T)GACTC intron-variant, utr-variant-3-prime
rs1051463 -- 113,649,517(-) TTTTT(A/C)TTTTT nc-transcript-variant, utr-variant-3-prime
rs1051464 -- 113,649,510(-) aaaaa(A/C)aaaaa nc-transcript-variant, utr-variant-3-prime
rs10641398 -- 113,667,865(+) TCTCA(-/AAAC)AAACA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for USF3 Gene

Variant ID Type Subtype PubMed ID
nsv1013506 CNV gain 25217958
nsv819838 CNV loss 19587683

Variation tolerance for USF3 Gene

Residual Variation Intolerance Score: 4.25% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.22; 84.95% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for USF3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
USF3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USF3 Gene

Disorders for USF3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for USF3 Gene - From: DISEASES

Disorder Aliases PubMed IDs
cowden syndrome 1
  • lhermitte-duclos syndrome
- elite association - COSMIC cancer census association via MalaCards
Search USF3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for USF3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
USF3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
USF3
genes like me logo Genes that share disorders with USF3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for USF3 Gene

Publications for USF3 Gene

  1. Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array. (PMID: 23535732) Eeles R.A. … Easton D.F. (Nat. Genet. 2013) 3 64
  2. Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture. (PMID: 22504420) Estrada K. … Rivadeneira F. (Nat. Genet. 2012) 3 64
  3. A human MAP kinase interactome. (PMID: 20936779) Bandyopadhyay S. … Ideker T. (Nat. Methods 2010) 3 64
  4. A quantitative atlas of mitotic phosphorylation. (PMID: 18669648) Dephoure N. … Gygi S.P. (Proc. Natl. Acad. Sci. U.S.A. 2008) 4 64
  5. The full-ORF clone resource of the German cDNA consortium. (PMID: 17974005) Bechtel S. … Schupp I. (BMC Genomics 2007) 4 64

Products for USF3 Gene

Sources for USF3 Gene

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