Transcription factors with Perturb-seq knockdown data for RIPOR3. 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 = RIPOR3 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 RIPOR3, 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 |
|---|---|---|---|---|
| chr20:50,509,813–50,510,874 | 181.3 kb | Distal (>10kb) Multiome | 1005 | |
| chr20:50,635,765–50,636,791 | 55.5 kb | Distal (>10kb) Multiome HiCAR | 720 | |
| chr20:50,641,661–50,642,825 | 49.0 kb | Distal (>10kb) Multiome | 190 | |
| chr20:50,645,216–50,645,868 | 45.9 kb | Distal (>10kb) Multiome | 792 | |
| chr20:50,730,245–50,732,382 | 39.7 kb | Distal (>10kb) Multiome | 1014 | |
| chr20:50,790,529–50,791,153 | 99.3 kb | Distal (>10kb) Multiome | 980 | |
| chr20:50,794,408–50,795,648 | 103.4 kb | Distal (>10kb) Multiome | 794 | |
| chr20:50,818,246–50,818,886 | 127.0 kb | Distal (>10kb) Multiome | 844 | |
| chr20:50,870,405–50,871,527 | 179.4 kb | Distal (>10kb) Multiome | 254 | |
| chr20:50,930,214–50,932,320 | 240.1 kb | Distal (>10kb) Multiome | 1082 | |
| chr20:50,958,262–50,959,227 | 267.1 kb | Distal (>10kb) Multiome | 929 |
Genomic view of the RIPOR3 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.