This gene encodes a protein containing several motifs involved in protein-protein interaction, including PDZ, PH (Pleckstrin homology), and SAM (sterile alpha motif) domains. The encoded protein acts as a scaffold component for receptor tyrosine kinase signaling and may mediate crosstalk between different signaling pathways. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]
Transcription factors with Perturb-seq knockdown data for CNKSR1. 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 = CNKSR1 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 CNKSR1, 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 |
|---|---|---|---|---|
| chr1:25,895,422–25,895,979 | 281.9 kb | Distal (>10kb) Multiome | 500 | |
| chr1:25,905,055–25,907,219 | 271.9 kb | Distal (>10kb) Multiome | 917 | |
| chr1:25,922,512–25,923,426 | 254.7 kb | Distal (>10kb) Multiome | 386 | |
| chr1:25,968,758–25,969,159 | 208.6 kb | Distal (>10kb) Multiome | 17 | |
| chr1:25,997,628–25,998,708 | 179.2 kb | Distal (>10kb) Multiome | 1091 | |
| chr1:26,021,572–26,022,167 | 155.7 kb | Distal (>10kb) Multiome | 231 | |
| chr1:26,034,958–26,036,424 | 141.4 kb | Distal (>10kb) Multiome | 780 | |
| chr1:26,045,386–26,046,127 | 131.5 kb | Distal (>10kb) Multiome | 178 | |
| chr1:26,093,947–26,095,162 | 83.2 kb | Distal (>10kb) Multiome | 403 | |
| chr1:26,110,626–26,112,596 | 65.7 kb | Distal (>10kb) Multiome | 934 | |
| chr1:26,161,287–26,162,232 | 15.7 kb | Distal (>10kb) Multiome | 564 | |
| chr1:26,164,134–26,165,044 | 13.0 kb | Distal (>10kb) Multiome | 500 | |
| chr1:26,169,358–26,170,373 | 7.6 kb | Proximal (<10kb) Multiome | 969 | |
| chr1:26,177,126–26,177,750 | 62 bp | At TSS Multiome | 363 | |
| chr1:26,200,994–26,201,612 | 23.8 kb | Distal (>10kb) Multiome | 369 | |
| chr1:26,225,042–26,225,908 | 48.0 kb | Distal (>10kb) Multiome | 462 | |
| chr1:26,233,613–26,234,924 | 56.6 kb | Distal (>10kb) Multiome | 867 | |
| chr1:26,275,604–26,276,096 | 98.3 kb | Distal (>10kb) Multiome | 373 | |
| chr1:26,279,438–26,280,566 | 102.5 kb | Distal (>10kb) Multiome | 820 | |
| chr1:26,306,331–26,306,935 | 129.2 kb | Distal (>10kb) Multiome | 563 | |
| chr1:26,335,993–26,337,256 | 159.1 kb | Distal (>10kb) Multiome | 655 | |
| chr1:26,360,031–26,360,668 | 182.9 kb | Distal (>10kb) Multiome | 164 | |
| chr1:26,409,125–26,412,949 | 233.0 kb | Distal (>10kb) Multiome | 517 | |
| chr1:26,416,811–26,417,349 | 239.7 kb | Distal (>10kb) Multiome | 290 | |
| chr1:26,418,111–26,419,646 | 241.7 kb | Distal (>10kb) Multiome | 189 | |
| chr1:26,431,868–26,432,811 | 254.7 kb | Distal (>10kb) Multiome | 1083 | |
| chr1:26,471,339–26,473,364 | 295.5 kb | Distal (>10kb) Multiome | 992 |
Genomic view of the CNKSR1 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.