Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in chromatin. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for SP9. 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 = SP9 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 SP9, 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 |
|---|---|---|---|---|
| chr2:174,325,925–174,326,959 | 8.0 kb | Proximal (<10kb) | 381 | |
| chr2:174,327,067–174,327,414 | 7.5 kb | Proximal (<10kb) | 121 | |
| chr2:174,328,111–174,328,346 | 6.6 kb | Proximal (<10kb) | 56 | |
| chr2:174,328,457–174,328,986 | 6.0 kb | Proximal (<10kb) | 86 | |
| chr2:174,332,418–174,332,981 | 2.0 kb | Proximal (<10kb) | 158 | |
| chr2:174,333,695–174,335,223 | at TSS | At TSS | 488 | |
| chr2:174,335,637–174,337,967 | 684 bp | At TSS | 695 | |
| chr2:174,340,034–174,341,133 | 5.1 kb | Proximal (<10kb) | 312 | |
| chr2:174,341,577–174,342,556 | 6.6 kb | Proximal (<10kb) | 510 | |
| chr2:174,343,626–174,344,136 | 8.7 kb | Proximal (<10kb) | 113 | |
| chr2:174,344,713–174,344,984 | 9.8 kb | Proximal (<10kb) | 36 |
Genomic view of the SP9 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.