Predicted to act upstream of or within DNA replication initiation and nuclear DNA replication. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for RNY3. 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 = RNY3 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 RNY3, 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 |
|---|---|---|---|---|
| chr7:148,976,008–148,976,320 | 7.4 kb | Proximal (<10kb) | 66 | |
| chr7:148,976,435–148,976,779 | 7.0 kb | Proximal (<10kb) | 105 | |
| chr7:148,982,679–148,982,828 | 925 bp | At TSS | 167 | |
| chr7:148,982,929–148,984,226 | at TSS | At TSS | 671 | |
| chr7:148,987,066–148,988,336 | 3.3 kb | Proximal (<10kb) | 765 |
Genomic view of the RNY3 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.