USF1
upstream transcription factor 1 | MLTFI, UEF, bHLHb11

This gene encodes a member of the basic helix-loop-helix leucine zipper family, and can function as a cellular transcription factor. The encoded protein can activate transcription through pyrimidine-rich initiator (Inr) elements and E-box motifs. This gene has been linked to familial combined hyperlipidemia (FCHL). Alternative splicing of this gene results in multiple transcript variants. A related pseudogene has been defined on chromosome 21. [provided by RefSeq, Feb 2013]

Biological processes 62 terms
DNA binding (GO:0003677)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)E-box binding (GO:0070888)E-box binding (GO:0070888)E-box binding (GO:0070888)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)bHLH transcription factor binding (GO:0043425)carbon catabolite regulation of transcription (GO:0045990)cellular response to glucose stimulus (GO:0071333)cellular response to glucose stimulus (GO:0071333)cellular response to insulin stimulus (GO:0032869)chromatin (GO:0000785)chromatin (GO:0000785)double-stranded DNA binding (GO:0003690)enzyme binding (GO:0019899)glucose homeostasis (GO:0042593)glucose mediated signaling pathway (GO:0010255)glucose mediated signaling pathway (GO:0010255)glucose mediated signaling pathway (GO:0010255)glucose mediated signaling pathway (GO:0010255)glucose metabolic process (GO:0006006)histone deacetylase binding (GO:0042826)identical protein binding (GO:0042802)identical protein binding (GO:0042802)late viral transcription (GO:0019086)lipid homeostasis (GO:0055088)lipid homeostasis (GO:0055088)negative regulation of fibrinolysis (GO:0051918)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)protein dimerization activity (GO:0046983)protein heterodimerization activity (GO:0046982)protein homodimerization activity (GO:0042803)protein kinase binding (GO:0019901)protein-containing complex binding (GO:0044877)protein-containing complex binding (GO:0044877)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)regulation of transcription by RNA polymerase II (GO:0006357)response to UV (GO:0009411)response to UV (GO:0009411)response to hypoxia (GO:0001666)sequence-specific DNA binding (GO:0043565)sequence-specific DNA binding (GO:0043565)sequence-specific double-stranded DNA binding (GO:1990837)transcription regulator complex (GO:0005667)
Expression (TPM)
USF1 — as a Regulated Gene

TFs regulating USF1 0 TFs

Transcription factors with Perturb-seq knockdown data for USF1. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = USF1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to USF1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of USF1, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Accessibility Element Dist. to TSS Link type TFs
chr1:160,910,331–160,911,177 135.3 kb Distal (>10kb) Multiome 97
chr1:160,947,055–160,947,669 98.5 kb Distal (>10kb) Multiome 35
chr1:160,948,561–160,949,851 96.5 kb Distal (>10kb) Multiome 173
chr1:160,981,323–160,982,552 64.2 kb Distal (>10kb) Multiome 156
chr1:161,020,536–161,021,920 24.7 kb Distal (>10kb) Multiome 846
chr1:161,037,710–161,037,969 8.0 kb Proximal (<10kb) 44
chr1:161,038,489–161,039,130 7.0 kb Proximal (<10kb) Multiome 468
chr1:161,041,560–161,041,780 4.2 kb Proximal (<10kb) 84
chr1:161,045,080–161,046,516 34 bp At TSS Multiome 927
chr1:161,097,691–161,099,047 52.3 kb Distal (>10kb) Multiome 829
chr1:161,117,504–161,118,419 72.1 kb Distal (>10kb) Multiome 794
chr1:161,131,760–161,133,351 86.7 kb Distal (>10kb) Multiome 956
chr1:161,153,700–161,154,461 108.1 kb Distal (>10kb) Multiome 816
chr1:161,158,928–161,160,167 113.6 kb Distal (>10kb) Multiome 706
chr1:161,165,740–161,167,170 120.4 kb Distal (>10kb) Multiome 888
chr1:161,176,874–161,177,972 131.6 kb Distal (>10kb) Multiome 910
chr1:161,198,215–161,199,209 152.6 kb Distal (>10kb) Multiome 357
chr1:161,201,572–161,202,783 156.4 kb Distal (>10kb) Multiome 852
chr1:161,225,326–161,226,910 180.0 kb Distal (>10kb) Multiome 710
chr1:161,227,235–161,227,802 181.6 kb Distal (>10kb) Multiome 372
chr1:161,258,515–161,259,098 212.8 kb Distal (>10kb) Multiome 281
chr1:161,305,737–161,306,708 260.4 kb Distal (>10kb) Multiome 430
chr1:161,313,977–161,314,703 268.4 kb Distal (>10kb) Multiome 824

Genome Browser

Genomic view of the USF1 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.

chr1:160,900,331 – 161,324,703
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
Huangfu Lab · Publications · Resources · Contact