Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in angiogenesis. Predicted to act upstream of or within camera-type eye development; hemopoiesis; and positive regulation of transcription by RNA polymerase II. Located in cytosol and nucleus. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for PKNOX1. 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 = PKNOX1 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 PKNOX1, 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 |
|---|---|---|---|---|
| chr21:42,793,699–42,794,977 | 180.6 kb | Distal (>10kb) Multiome | 52 | |
| chr21:42,806,044–42,807,071 | 168.0 kb | Distal (>10kb) Multiome | 113 | |
| chr21:42,878,621–42,880,078 | 95.1 kb | Distal (>10kb) Multiome | 989 | |
| chr21:42,892,360–42,893,974 | 81.4 kb | Distal (>10kb) Multiome | 992 | |
| chr21:42,923,670–42,924,528 | 50.5 kb | Distal (>10kb) Multiome | 542 | |
| chr21:42,925,494–42,925,953 | 48.8 kb | Distal (>10kb) Multiome | 42 | |
| chr21:42,936,514–42,937,904 | 37.0 kb | Distal (>10kb) Multiome HiCAR | 182 | |
| chr21:42,955,489–42,956,014 | 18.8 kb | Distal (>10kb) Multiome | 345 | |
| chr21:42,956,807–42,957,632 | 17.3 kb | Distal (>10kb) Multiome | 172 | |
| chr21:42,969,207–42,969,585 | 5.0 kb | Proximal (<10kb) | 81 | |
| chr21:42,971,083–42,971,680 | 2.9 kb | Proximal (<10kb) | 140 | |
| chr21:42,971,878–42,972,209 | 2.4 kb | Proximal (<10kb) | 262 | |
| chr21:42,972,793–42,975,770 | 162 bp | At TSS Multiome | 945 |
Genomic view of the PKNOX1 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.