This gene encodes a nuclear pre-mRNA splicing factor. The encoded protein specifically recognizes the intron branch point sequence at the 3' splice site, together with the large subunit of U2 auxiliary factor (U2AF), and is required for the early stages of spliceosome assembly. It also plays a role in nuclear pre-mRNA retention and transcriptional repression. The encoded protein contains an N-terminal U2AF ligand motif, a central hnRNP K homology motif and quaking 2 region which bind a key branch-site adenosine within the branch point sequence, a zinc knuckles domain, and a C-terminal proline-rich domain. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2016]
Transcription factors with Perturb-seq knockdown data for SF1. 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 = SF1 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 SF1, 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 |
|---|---|---|---|---|
| chr11:64,630,081–64,630,643 | 148.5 kb | Distal (>10kb) Multiome | 226 | |
| chr11:64,637,888–64,638,531 | 140.6 kb | Distal (>10kb) Multiome | 168 | |
| chr11:64,656,654–64,657,126 | 121.8 kb | Distal (>10kb) Multiome | 80 | |
| chr11:64,688,437–64,688,967 | 90.1 kb | Distal (>10kb) Multiome | 581 | |
| chr11:64,710,919–64,711,752 | 67.4 kb | Distal (>10kb) Multiome | 152 | |
| chr11:64,729,775–64,730,315 | 48.8 kb | Distal (>10kb) Multiome | 115 | |
| chr11:64,742,520–64,743,124 | 35.9 kb | Distal (>10kb) Multiome | 501 | |
| chr11:64,759,882–64,760,354 | 18.7 kb | Distal (>10kb) Multiome HiCAR | 172 | |
| chr11:64,777,493–64,779,271 | 1.1 kb | Proximal (<10kb) Multiome | 859 | |
| chr11:64,802,650–64,803,485 | 24.6 kb | Distal (>10kb) Multiome | 522 | |
| chr11:64,809,807–64,811,090 | 31.9 kb | Distal (>10kb) Multiome | 702 | |
| chr11:64,844,075–64,845,264 | 66.0 kb | Distal (>10kb) Multiome | 645 | |
| chr11:64,846,953–64,847,598 | 68.5 kb | Distal (>10kb) Multiome | 509 | |
| chr11:64,877,434–64,879,352 | 99.9 kb | Distal (>10kb) Multiome | 980 | |
| chr11:64,887,785–64,888,374 | 109.2 kb | Distal (>10kb) Multiome | 633 | |
| chr11:64,916,057–64,917,940 | 138.6 kb | Distal (>10kb) Multiome | 873 | |
| chr11:64,924,041–64,924,916 | 145.6 kb | Distal (>10kb) Multiome | 808 | |
| chr11:64,971,835–64,972,454 | 193.4 kb | Distal (>10kb) Multiome | 265 | |
| chr11:65,013,538–65,014,838 | 235.2 kb | Distal (>10kb) Multiome | 980 | |
| chr11:65,027,243–65,027,944 | 248.8 kb | Distal (>10kb) Multiome | 851 | |
| chr11:65,040,595–65,041,884 | 262.3 kb | Distal (>10kb) Multiome | 838 |
Genomic view of the SF1 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.