This gene encodes subunit 3 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. Subunit 3 has also been identified as a component of the STAGA (SPT3-TAF(II)31-GCN5L acetylase) transcription coactivator-HAT (histone acetyltransferase) complex, and the TFTC (TATA-binding-protein-free TAF(II)-containing complex). These complexes may function in chromatin modification, transcription, splicing, and DNA repair. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SF3B3. 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 = SF3B3 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 SF3B3, 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 |
|---|---|---|---|---|
| chr16:70,250,987–70,252,565 | 271.9 kb | Distal (>10kb) Multiome | 1128 | |
| chr16:70,288,832–70,289,863 | 234.3 kb | Distal (>10kb) Multiome | 1002 | |
| chr16:70,346,498–70,347,297 | 177.0 kb | Distal (>10kb) Multiome | 945 | |
| chr16:70,380,270–70,382,056 | 142.3 kb | Distal (>10kb) Multiome | 1036 | |
| chr16:70,415,208–70,415,782 | 108.4 kb | Distal (>10kb) Multiome | 229 | |
| chr16:70,427,766–70,429,282 | 95.4 kb | Distal (>10kb) Multiome | 981 | |
| chr16:70,431,040–70,431,529 | 92.7 kb | Distal (>10kb) Multiome | 302 | |
| chr16:70,436,957–70,437,432 | 86.6 kb | Distal (>10kb) Multiome | 457 | |
| chr16:70,438,422–70,439,873 | 84.6 kb | Distal (>10kb) Multiome | 926 | |
| chr16:70,454,276–70,454,976 | 69.3 kb | Distal (>10kb) Multiome | 845 | |
| chr16:70,457,673–70,458,151 | 65.8 kb | Distal (>10kb) Multiome | 38 | |
| chr16:70,523,103–70,524,281 | 105 bp | At TSS Multiome | 903 | |
| chr16:70,679,595–70,680,466 | 156.3 kb | Distal (>10kb) Multiome | 216 | |
| chr16:70,685,497–70,686,558 | 162.3 kb | Distal (>10kb) Multiome | 655 | |
| chr16:70,800,702–70,801,519 | 277.4 kb | Distal (>10kb) Multiome | 768 |
Genomic view of the SF3B3 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.