The protein encoded by this gene can be bound and phosphorylated by the protooncogene PIM1 product, a serine/threonine protein kinase . This protein localizes in nuclear speckles containing the splicing factors, and has a role in pre-mRNA splicing. CBF1-interacting protein (CIR), a corepressor of CBF1, can also bind to this protein and effects alternative splicing. Mutations in this gene result in autosomal dominant retinitis pigmentosa-9. This gene has a pseudogene (GeneID: 441212), which is located in tandem array approximately 166 kb distal to this gene. [provided by RefSeq, Sep 2009]
Transcription factors with Perturb-seq knockdown data for RP9. 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 = RP9 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 RP9, 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 |
|---|---|---|---|---|
| chr7:32,891,014–32,892,877 | 217.3 kb | Distal (>10kb) Multiome | 975 | |
| chr7:32,905,220–32,906,208 | 203.7 kb | Distal (>10kb) Multiome | 394 | |
| chr7:32,942,280–32,943,451 | 166.3 kb | Distal (>10kb) Multiome | 800 | |
| chr7:32,956,900–32,958,942 | 151.9 kb | Distal (>10kb) Multiome | 933 | |
| chr7:33,062,109–33,063,556 | 46.4 kb | Distal (>10kb) Multiome | 912 | |
| chr7:33,100,659–33,100,818 | 8.6 kb | Proximal (<10kb) | 9 | |
| chr7:33,103,368–33,103,586 | 5.8 kb | Proximal (<10kb) | 17 | |
| chr7:33,107,419–33,107,676 | 1.7 kb | Proximal (<10kb) | 107 | |
| chr7:33,107,792–33,108,192 | 1.2 kb | Proximal (<10kb) | 92 | |
| chr7:33,108,633–33,110,110 | 98 bp | At TSS Multiome | 702 | |
| chr7:33,128,895–33,130,093 | 20.0 kb | Distal (>10kb) Multiome | 726 |
Genomic view of the RP9 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.