Transcription factors with Perturb-seq knockdown data for SYNGAP1-AS1. 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 = SYNGAP1-AS1 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 SYNGAP1-AS1, 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 |
|---|---|---|---|---|
| chr6:33,161,505–33,162,100 | 292.7 kb | Distal (>10kb) Multiome | 589 | |
| chr6:33,199,801–33,201,289 | 253.8 kb | Distal (>10kb) Multiome | 1049 | |
| chr6:33,204,263–33,205,422 | 249.8 kb | Distal (>10kb) Multiome | 762 | |
| chr6:33,208,069–33,208,990 | 245.8 kb | Distal (>10kb) Multiome | 858 | |
| chr6:33,248,132–33,249,983 | 205.0 kb | Distal (>10kb) Multiome | 961 | |
| chr6:33,271,370–33,272,508 | 182.5 kb | Distal (>10kb) Multiome | 1058 | |
| chr6:33,276,685–33,277,905 | 177.1 kb | Distal (>10kb) Multiome | 807 | |
| chr6:33,288,941–33,289,881 | 165.1 kb | Distal (>10kb) Multiome | 701 | |
| chr6:33,297,445–33,300,232 | 156.6 kb | Distal (>10kb) Multiome | 1095 | |
| chr6:33,312,436–33,314,207 | 141.5 kb | Distal (>10kb) Multiome | 795 | |
| chr6:33,317,189–33,318,504 | 136.5 kb | Distal (>10kb) Multiome | 649 | |
| chr6:33,322,636–33,323,832 | 131.3 kb | Distal (>10kb) Multiome | 941 | |
| chr6:33,390,888–33,392,247 | 62.9 kb | Distal (>10kb) Multiome | 993 | |
| chr6:33,409,936–33,411,502 | 44.0 kb | Distal (>10kb) Multiome | 977 | |
| chr6:33,417,606–33,419,249 | 36.2 kb | Distal (>10kb) Multiome | 973 | |
| chr6:33,419,793–33,420,532 | 34.2 kb | Distal (>10kb) Multiome | 162 | |
| chr6:33,425,590–33,426,362 | 28.6 kb | Distal (>10kb) Multiome | 665 | |
| chr6:33,431,024–33,432,096 | 23.2 kb | Distal (>10kb) Multiome | 337 | |
| chr6:33,454,074–33,454,852 | 21 bp | At TSS Multiome | 906 | |
| chr6:33,570,899–33,571,638 | 116.9 kb | Distal (>10kb) Multiome | 755 | |
| chr6:33,579,935–33,580,700 | 125.8 kb | Distal (>10kb) Multiome | 639 | |
| chr6:33,592,764–33,593,449 | 138.5 kb | Distal (>10kb) Multiome | 224 | |
| chr6:33,620,828–33,622,474 | 166.8 kb | Distal (>10kb) Multiome | 594 | |
| chr6:33,632,607–33,634,721 | 179.4 kb | Distal (>10kb) Multiome | 600 | |
| chr6:33,711,017–33,712,173 | 257.3 kb | Distal (>10kb) Multiome | 943 |
Genomic view of the SYNGAP1-AS1 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.