Enables phosphatidylinositol binding activity and transcription corepressor activity. Involved in negative regulation of DNA-templated transcription. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in nucleoplasm. Part of Sin3-type complex and transcription repressor complex. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for PHF12. 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 = PHF12 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 PHF12, 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 |
|---|---|---|---|---|
| chr17:28,661,635–28,662,527 | 289.5 kb | Distal (>10kb) Multiome | 809 | |
| chr17:28,710,720–28,712,813 | 240.2 kb | Distal (>10kb) Multiome | 892 | |
| chr17:28,717,030–28,718,784 | 233.7 kb | Distal (>10kb) Multiome | 492 | |
| chr17:28,718,918–28,720,313 | 231.8 kb | Distal (>10kb) Multiome | 927 | |
| chr17:28,724,652–28,729,474 | 224.6 kb | Distal (>10kb) Multiome | 1286 | |
| chr17:28,743,083–28,744,926 | 207.5 kb | Distal (>10kb) Multiome | 991 | |
| chr17:28,745,076–28,746,436 | 206.0 kb | Distal (>10kb) Multiome | 568 | |
| chr17:28,749,859–28,750,549 | 201.4 kb | Distal (>10kb) Multiome | 550 | |
| chr17:28,811,615–28,812,945 | 139.1 kb | Distal (>10kb) Multiome | 699 | |
| chr17:28,842,307–28,843,098 | 108.8 kb | Distal (>10kb) Multiome | 717 | |
| chr17:28,854,460–28,855,289 | 96.7 kb | Distal (>10kb) Multiome | 780 | |
| chr17:28,896,962–28,898,028 | 54.0 kb | Distal (>10kb) Multiome | 846 | |
| chr17:28,902,302–28,903,488 | 48.6 kb | Distal (>10kb) Multiome | 967 | |
| chr17:28,948,959–28,949,139 | 1.5 kb | Proximal (<10kb) | 240 | |
| chr17:28,949,236–28,950,174 | 487 bp | At TSS | 548 | |
| chr17:28,950,281–28,952,708 | 71 bp | At TSS Multiome | 989 | |
| chr17:28,953,432–28,953,793 | 2.8 kb | Proximal (<10kb) | 161 | |
| chr17:28,984,463–28,984,954 | 33.0 kb | Distal (>10kb) Multiome | 33 | |
| chr17:28,985,971–28,986,457 | 34.6 kb | Distal (>10kb) Multiome | 123 | |
| chr17:29,005,841–29,006,414 | 54.5 kb | Distal (>10kb) Multiome | 707 | |
| chr17:29,039,928–29,040,500 | 88.6 kb | Distal (>10kb) Multiome | 99 | |
| chr17:29,042,531–29,043,259 | 91.3 kb | Distal (>10kb) Multiome | 553 | |
| chr17:29,148,688–29,149,641 | 197.4 kb | Distal (>10kb) Multiome | 709 | |
| chr17:29,176,562–29,177,220 | 225.2 kb | Distal (>10kb) Multiome | 782 | |
| chr17:29,179,268–29,180,802 | 227.8 kb | Distal (>10kb) Multiome | 781 |
Genomic view of the PHF12 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.