Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of DNA-templated transcription. Located in nucleoplasm. Part of PRC1 complex. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for PHC3. 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 = PHC3 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 PHC3, 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 |
|---|---|---|---|---|
| chr3:169,966,015–169,967,550 | 215.0 kb | Distal (>10kb) Multiome | 1017 | |
| chr3:170,037,354–170,039,248 | 143.7 kb | Distal (>10kb) Multiome | 804 | |
| chr3:170,179,808–170,180,014 | 1.7 kb | Proximal (<10kb) | 54 | |
| chr3:170,180,142–170,180,480 | 1.3 kb | Proximal (<10kb) | 122 | |
| chr3:170,180,833–170,182,100 | 12 bp | At TSS Multiome | 813 | |
| chr3:170,189,226–170,189,386 | 7.5 kb | Proximal (<10kb) | 171 | |
| chr3:170,221,926–170,223,285 | 40.6 kb | Distal (>10kb) Multiome | 847 | |
| chr3:170,356,326–170,358,653 | 175.5 kb | Distal (>10kb) Multiome | 971 | |
| chr3:170,418,375–170,421,188 | 237.0 kb | Distal (>10kb) Multiome | 413 | |
| chr3:170,425,589–170,426,593 | 244.4 kb | Distal (>10kb) Multiome | 432 | |
| chr3:170,476,158–170,477,136 | 294.9 kb | Distal (>10kb) Multiome | 116 |
Genomic view of the PHC3 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.