Transcription factors with Perturb-seq knockdown data for CCDC149. 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 = CCDC149 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 CCDC149, 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 |
|---|---|---|---|---|
| chr4:24,661,948–24,662,562 | 250.7 kb | Distal (>10kb) Multiome | 55 | |
| chr4:24,795,107–24,795,850 | 117.4 kb | Distal (>10kb) Multiome | 178 | |
| chr4:24,799,487–24,800,855 | 112.9 kb | Distal (>10kb) Multiome | 178 | |
| chr4:24,912,021–24,913,398 | 157 bp | At TSS Multiome | 420 | |
| chr4:24,917,161–24,917,569 | 4.2 kb | Proximal (<10kb) | 39 | |
| chr4:24,988,783–24,989,362 | 76.0 kb | Distal (>10kb) Multiome | 120 | |
| chr4:25,030,155–25,031,590 | 118.0 kb | Distal (>10kb) Multiome | 304 | |
| chr4:25,081,936–25,082,684 | 169.4 kb | Distal (>10kb) Multiome | 92 | |
| chr4:25,131,511–25,132,461 | 219.1 kb | Distal (>10kb) Multiome | 74 | |
| chr4:25,159,654–25,161,108 | 247.5 kb | Distal (>10kb) Multiome | 899 |
Genomic view of the CCDC149 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.