Photon absorption triggers a signaling cascade in rod photoreceptors that activates cGMP phosphodiesterase (PDE), resulting in the rapid hydrolysis of cGMP, closure of cGMP-gated cation channels, and hyperpolarization of the cell. PDE is a peripheral membrane heterotrimeric enzyme made up of alpha, beta, and gamma subunits. This gene encodes the beta subunit. Mutations in this gene result in retinitis pigmentosa and autosomal dominant congenital stationary night blindness. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2009]
Transcription factors with Perturb-seq knockdown data for PDE6B. 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 = PDE6B 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 PDE6B, 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 |
|---|---|---|---|---|
| chr4:336,352–338,341 | 287.9 kb | Distal (>10kb) Multiome | 493 | |
| chr4:473,613–474,432 | 151.4 kb | Distal (>10kb) Multiome | 745 | |
| chr4:498,731–499,543 | 126.4 kb | Distal (>10kb) Multiome | 869 | |
| chr4:575,294–576,132 | 50.1 kb | Distal (>10kb) Multiome | 154 | |
| chr4:663,207–664,324 | 38.2 kb | Distal (>10kb) Multiome HiCAR | 298 | |
| chr4:673,501–675,336 | 48.8 kb | Distal (>10kb) Multiome | 920 | |
| chr4:680,919–681,550 | 55.8 kb | Distal (>10kb) Multiome | 275 | |
| chr4:688,280–689,636 | 63.7 kb | Distal (>10kb) Multiome | 218 | |
| chr4:705,313–706,398 | 80.1 kb | Distal (>10kb) Multiome | 613 | |
| chr4:781,187–782,732 | 156.4 kb | Distal (>10kb) Multiome | 893 | |
| chr4:825,232–826,278 | 200.2 kb | Distal (>10kb) Multiome | 317 | |
| chr4:931,599–932,710 | 306.8 kb | Distal (>10kb) Multiome | 818 | |
| chr4:945,351–946,054 | 320.0 kb | Distal (>10kb) Multiome | 73 |
Genomic view of the PDE6B 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.