The protein encoded by this gene is a single stranded DNA-binding protein that binds to multiple DNA elements, including the far upstream element (FUSE) located upstream of c-myc. Binding to FUSE occurs on the non-coding strand, and is important to the regulation of c-myc in undifferentiated cells. This protein contains three domains, an amphipathic helix N-terminal domain, a DNA-binding central domain, and a C-terminal transactivation domain that contains three tyrosine-rich motifs. The N-terminal domain is thought to repress the activity of the C-terminal domain. This protein is also thought to bind RNA, and contains 3'-5' helicase activity with in vitro activity on both DNA-DNA and RNA-RNA duplexes. Aberrant expression of this gene has been found in malignant tissues, and this gene is important to neural system and lung development. Binding of this protein to viral RNA is thought to play a role in several viral diseases, including hepatitis C and hand, foot and mouth disease. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
Transcription factors with Perturb-seq knockdown data for FUBP1. 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 = FUBP1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of FUBP1, 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 |
|---|---|---|---|---|
| chr1:77,681,742–77,684,058 | 295.7 kb | Distal (>10kb) Multiome | 1050 | |
| chr1:77,686,763–77,688,131 | 291.4 kb | Distal (>10kb) Multiome | 208 | |
| chr1:77,758,895–77,760,199 | 219.3 kb | Distal (>10kb) Multiome | 856 | |
| chr1:77,779,465–77,780,294 | 199.4 kb | Distal (>10kb) Multiome | 779 | |
| chr1:77,888,069–77,889,521 | 90.4 kb | Distal (>10kb) Multiome | 648 | |
| chr1:77,906,727–77,907,344 | 72.0 kb | Distal (>10kb) Multiome | 128 | |
| chr1:77,976,530–77,976,964 | 2.1 kb | Proximal (<10kb) | 75 | |
| chr1:77,978,065–77,980,001 | 150 bp | At TSS Multiome | 993 | |
| chr1:77,983,355–77,983,855 | 4.2 kb | Proximal (<10kb) | 37 | |
| chr1:78,045,313–78,046,896 | 67.1 kb | Distal (>10kb) Multiome | 583 | |
| chr1:78,200,021–78,201,015 | 221.3 kb | Distal (>10kb) Multiome | 129 | |
| chr1:78,214,003–78,214,778 | 235.4 kb | Distal (>10kb) Multiome | 12 | |
| chr1:78,226,716–78,228,073 | 248.2 kb | Distal (>10kb) Multiome | 201 | |
| chr1:78,236,703–78,237,945 | 258.5 kb | Distal (>10kb) Multiome | 336 |
Genomic view of the FUBP1 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.