This gene encodes subunit 1 of the splicing factor 3b protein complex. Splicing factor 3b, together with splicing factor 3a and a 12S RNA unit, forms the U2 small nuclear ribonucleoproteins complex (U2 snRNP). The splicing factor 3b/3a complex binds pre-mRNA upstream of the intron's branch site in a sequence independent manner and may anchor the U2 snRNP to the pre-mRNA. Splicing factor 3b is also a component of the minor U12-type spliceosome. The carboxy-terminal two-thirds of subunit 1 have 22 non-identical, tandem HEAT repeats that form rod-like, helical structures. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SF3B1. 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 = SF3B1 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 SF3B1, 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 |
|---|---|---|---|---|
| chr2:197,143,874–197,144,411 | 290.9 kb | Distal (>10kb) Multiome | 70 | |
| chr2:197,147,612–197,148,468 | 287.0 kb | Distal (>10kb) Multiome | 159 | |
| chr2:197,163,852–197,164,800 | 270.5 kb | Distal (>10kb) Multiome | 238 | |
| chr2:197,309,737–197,311,360 | 124.3 kb | Distal (>10kb) Multiome | 642 | |
| chr2:197,322,642–197,323,971 | 111.7 kb | Distal (>10kb) Multiome | 185 | |
| chr2:197,434,572–197,435,653 | 83 bp | At TSS Multiome | 937 | |
| chr2:197,435,975–197,436,326 | 946 bp | At TSS | 195 | |
| chr2:197,452,830–197,454,321 | 18.3 kb | Distal (>10kb) Multiome | 1033 | |
| chr2:197,498,722–197,500,854 | 65.1 kb | Distal (>10kb) Multiome | 1173 | |
| chr2:197,515,482–197,516,752 | 81.0 kb | Distal (>10kb) Multiome | 1138 | |
| chr2:197,586,916–197,587,749 | 152.5 kb | Distal (>10kb) Multiome | 118 | |
| chr2:197,704,733–197,706,212 | 270.3 kb | Distal (>10kb) Multiome | 870 |
Genomic view of the SF3B1 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.