The protein encoded by this gene is a member of the serine/arginine (SR)-rich family of pre-mRNA splicing factors, which constitute part of the spliceosome. Each of these factors contains an RNA recognition motif (RRM) for binding RNA and an RS domain for binding other proteins. The RS domain is rich in serine and arginine residues and facilitates interaction between different SR splicing factors. In addition to being critical for mRNA splicing, the SR proteins have also been shown to be involved in mRNA export from the nucleus and in translation. Two pseudogenes, one on chromosome 15 and the other on chromosome 21, have been found for this gene. [provided by RefSeq, Sep 2010]
Transcription factors with Perturb-seq knockdown data for SRSF9. 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 = SRSF9 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 SRSF9, 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 |
|---|---|---|---|---|
| chr12:120,194,328–120,196,208 | 275.0 kb | Distal (>10kb) Multiome | 1032 | |
| chr12:120,200,671–120,201,921 | 268.5 kb | Distal (>10kb) Multiome | 1006 | |
| chr12:120,228,170–120,231,900 | 241.1 kb | Distal (>10kb) Multiome | 1050 | |
| chr12:120,265,150–120,266,362 | 203.9 kb | Distal (>10kb) Multiome | 617 | |
| chr12:120,290,301–120,293,526 | 176.5 kb | Distal (>10kb) Multiome | 1338 | |
| chr12:120,302,138–120,302,609 | 167.4 kb | Distal (>10kb) Multiome | 711 | |
| chr12:120,317,215–120,317,997 | 152.1 kb | Distal (>10kb) Multiome | 872 | |
| chr12:120,361,277–120,362,299 | 107.9 kb | Distal (>10kb) Multiome HiCAR | 308 | |
| chr12:120,368,637–120,370,303 | 100.5 kb | Distal (>10kb) Multiome HiCAR | 250 | |
| chr12:120,388,762–120,389,560 | 80.5 kb | Distal (>10kb) Multiome | 178 | |
| chr12:120,394,470–120,395,052 | 74.9 kb | Distal (>10kb) Multiome | 283 | |
| chr12:120,413,842–120,414,516 | 55.5 kb | Distal (>10kb) Multiome | 289 | |
| chr12:120,437,436–120,438,568 | 31.7 kb | Distal (>10kb) Multiome | 725 | |
| chr12:120,445,927–120,446,970 | 23.2 kb | Distal (>10kb) Multiome | 982 | |
| chr12:120,466,635–120,466,851 | 2.9 kb | Proximal (<10kb) | 97 | |
| chr12:120,468,864–120,470,390 | 41 bp | At TSS Multiome | 942 | |
| chr12:120,495,362–120,496,939 | 26.3 kb | Distal (>10kb) Multiome HiCAR | 794 | |
| chr12:120,528,856–120,529,468 | 59.4 kb | Distal (>10kb) Multiome | 849 | |
| chr12:120,534,230–120,535,077 | 64.8 kb | Distal (>10kb) Multiome | 730 | |
| chr12:120,580,919–120,581,830 | 111.7 kb | Distal (>10kb) Multiome | 736 | |
| chr12:120,584,329–120,585,045 | 115.0 kb | Distal (>10kb) Multiome | 460 | |
| chr12:120,640,005–120,641,704 | 170.8 kb | Distal (>10kb) Multiome | 562 | |
| chr12:120,648,914–120,649,665 | 179.6 kb | Distal (>10kb) Multiome | 405 | |
| chr12:120,668,575–120,669,135 | 199.1 kb | Distal (>10kb) Multiome | 98 | |
| chr12:120,686,185–120,687,741 | 217.1 kb | Distal (>10kb) Multiome | 1030 | |
| chr12:120,710,025–120,711,277 | 240.7 kb | Distal (>10kb) Multiome | 573 | |
| chr12:120,725,271–120,726,309 | 256.1 kb | Distal (>10kb) Multiome | 663 |
Genomic view of the SRSF9 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.