This gene encodes subunit 3 of the splicing factor 3a protein complex. The splicing factor 3a heterotrimer includes subunits 1, 2 and 3 and is necessary for the in vitro conversion of 15S U2 snRNP into an active 17S particle that performs pre-mRNA splicing. Subunit 3 interacts with subunit 1 through its amino-terminus while the zinc finger domain of subunit 3 plays a role in its binding to the 15S U2 snRNP. This gene has a pseudogene on chromosome 20. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]
Transcription factors with Perturb-seq knockdown data for SF3A3. 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 = SF3A3 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 SF3A3, 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 |
|---|---|---|---|---|
| chr1:37,690,078–37,690,919 | 299.5 kb | Distal (>10kb) Multiome | 679 | |
| chr1:37,691,459–37,692,843 | 297.7 kb | Distal (>10kb) Multiome | 781 | |
| chr1:37,752,766–37,753,277 | 237.0 kb | Distal (>10kb) Multiome | 223 | |
| chr1:37,793,768–37,794,528 | 195.9 kb | Distal (>10kb) Multiome | 567 | |
| chr1:37,807,583–37,809,057 | 181.9 kb | Distal (>10kb) Multiome | 755 | |
| chr1:37,859,081–37,860,381 | 130.3 kb | Distal (>10kb) Multiome | 939 | |
| chr1:37,931,446–37,932,215 | 58.2 kb | Distal (>10kb) Multiome | 559 | |
| chr1:37,946,605–37,947,220 | 43.0 kb | Distal (>10kb) Multiome | 610 | |
| chr1:37,989,644–37,990,549 | 73 bp | At TSS Multiome | 1133 | |
| chr1:37,995,790–37,996,610 | 6.1 kb | Proximal (<10kb) Multiome | 313 | |
| chr1:38,004,771–38,006,024 | 15.5 kb | Distal (>10kb) Multiome | 442 | |
| chr1:38,012,220–38,013,284 | 22.5 kb | Distal (>10kb) Multiome | 1074 | |
| chr1:38,030,338–38,030,974 | 40.4 kb | Distal (>10kb) Multiome | 225 | |
| chr1:38,045,344–38,048,035 | 56.9 kb | Distal (>10kb) Multiome | 542 | |
| chr1:38,803,885–38,804,528 | 814.2 kb | Distal (>10kb) Multiome HiCAR | 257 | |
| chr1:38,817,720–38,818,696 | 828.2 kb | Distal (>10kb) Multiome HiCAR | 375 |
Genomic view of the SF3A3 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.