Transcription factors with Perturb-seq knockdown data for SEMA6A-AS2. 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 = SEMA6A-AS2 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 SEMA6A-AS2, 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 |
|---|---|---|---|---|
| chr5:116,343,834–116,344,383 | 231.0 kb | Distal (>10kb) Multiome | 101 | |
| chr5:116,361,097–116,362,155 | 213.5 kb | Distal (>10kb) Multiome | 208 | |
| chr5:116,559,039–116,560,382 | 15.7 kb | Distal (>10kb) Multiome | 241 | |
| chr5:116,565,193–116,565,423 | 9.7 kb | Proximal (<10kb) | 30 | |
| chr5:116,571,947–116,575,430 | 235 bp | At TSS Multiome | 841 | |
| chr5:116,575,628–116,576,752 | 1.2 kb | Proximal (<10kb) Multiome | 439 | |
| chr5:116,773,703–116,774,539 | 199.0 kb | Distal (>10kb) Multiome HiCAR | 283 | |
| chr5:116,777,987–116,778,688 | 203.1 kb | Distal (>10kb) Multiome HiCAR | 159 | |
| chr5:116,863,972–116,865,177 | 289.4 kb | Distal (>10kb) Multiome HiCAR | 571 | |
| chr5:116,945,611–116,946,249 | 370.8 kb | Distal (>10kb) Multiome HiCAR | 89 |
Genomic view of the SEMA6A-AS2 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.