This gene encodes the catalytic subunit of the DNA-dependent protein kinase (DNA-PK). It functions with the Ku70/Ku80 heterodimer protein in DNA double strand break repair and recombination. The protein encoded is a member of the PI3/PI4-kinase family.[provided by RefSeq, Jul 2010]
Transcription factors with Perturb-seq knockdown data for PRKDC. 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 = PRKDC 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 PRKDC, 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 |
|---|---|---|---|---|
| chr8:47,737,107–47,739,302 | 221.8 kb | Distal (>10kb) Multiome | 803 | |
| chr8:47,959,857–47,961,766 | 8 bp | At TSS Multiome | 1108 | |
| chr8:48,008,109–48,008,981 | 48.4 kb | Distal (>10kb) Multiome | 921 | |
| chr8:48,136,263–48,137,632 | 176.8 kb | Distal (>10kb) Multiome | 209 | |
| chr8:48,159,677–48,160,187 | 199.7 kb | Distal (>10kb) Multiome | 52 | |
| chr8:48,253,714–48,254,674 | 294.1 kb | Distal (>10kb) Multiome | 248 | |
| chr8:48,921,143–48,922,276 | 961.6 kb | Distal (>10kb) Multiome HiCAR | 612 |
Genomic view of the PRKDC 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.