This gene encodes a member of the WD-repeat protein family. The encoded protein is a component of the nucleolar small nuclear ribonucleoprotein particle (snoRNP) and is essential for 18s rRNA processing during ribosome synthesis. It contains seven WD domains required for nucleolar localization and specific interaction with the U3 small nucleolar RNA (U3 snoRNA). [provided by RefSeq, Oct 2012]
Transcription factors with Perturb-seq knockdown data for RRP9. 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 = RRP9 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 RRP9, 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 |
|---|---|---|---|---|
| chr3:50,567,311–50,568,123 | 1374.2 kb | Distal (>10kb) Multiome HiCAR | 376 | |
| chr3:50,568,824–50,569,934 | 1372.6 kb | Distal (>10kb) Multiome HiCAR | 901 | |
| chr3:51,670,855–51,672,297 | 270.7 kb | Distal (>10kb) Multiome | 799 | |
| chr3:51,681,945–51,682,394 | 259.7 kb | Distal (>10kb) Multiome | 291 | |
| chr3:51,706,614–51,707,579 | 234.9 kb | Distal (>10kb) Multiome HiCAR | 506 | |
| chr3:51,798,234–51,798,899 | 143.3 kb | Distal (>10kb) Multiome | 120 | |
| chr3:51,800,441–51,801,024 | 141.4 kb | Distal (>10kb) Multiome HiCAR | 20 | |
| chr3:51,801,591–51,802,872 | 139.6 kb | Distal (>10kb) Multiome HiCAR | 223 | |
| chr3:51,868,646–51,869,606 | 72.9 kb | Distal (>10kb) Multiome | 50 | |
| chr3:51,941,340–51,942,909 | 184 bp | At TSS Multiome | 890 | |
| chr3:51,955,723–51,956,827 | 14.6 kb | Distal (>10kb) Multiome HiCAR | 289 | |
| chr3:51,967,071–51,968,598 | 25.6 kb | Distal (>10kb) Multiome | 581 | |
| chr3:51,973,571–51,975,404 | 32.1 kb | Distal (>10kb) Multiome HiCAR | 886 | |
| chr3:51,982,506–51,983,633 | 41.3 kb | Distal (>10kb) Multiome | 933 | |
| chr3:51,990,597–51,991,772 | 49.1 kb | Distal (>10kb) Multiome HiCAR | 145 | |
| chr3:51,995,468–51,996,121 | 54.0 kb | Distal (>10kb) Multiome | 938 | |
| chr3:52,001,516–52,001,992 | 59.8 kb | Distal (>10kb) Multiome | 448 | |
| chr3:52,055,881–52,058,048 | 115.6 kb | Distal (>10kb) Multiome | 937 | |
| chr3:52,128,194–52,128,700 | 186.5 kb | Distal (>10kb) Multiome | 376 | |
| chr3:52,153,766–52,155,196 | 212.8 kb | Distal (>10kb) Multiome | 896 | |
| chr3:52,197,554–52,198,856 | 256.2 kb | Distal (>10kb) Multiome | 731 | |
| chr3:52,238,767–52,239,716 | 297.3 kb | Distal (>10kb) Multiome | 763 |
Genomic view of the RRP9 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.