Located in nucleus. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for SPRYD4. 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 = SPRYD4 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 SPRYD4, 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 |
|---|---|---|---|---|
| chr12:56,188,836–56,190,865 | 279.0 kb | Distal (>10kb) Multiome | 954 | |
| chr12:56,221,094–56,222,691 | 246.6 kb | Distal (>10kb) Multiome | 884 | |
| chr12:56,222,996–56,223,487 | 245.4 kb | Distal (>10kb) Multiome | 38 | |
| chr12:56,223,843–56,224,800 | 244.3 kb | Distal (>10kb) Multiome | 765 | |
| chr12:56,257,471–56,258,774 | 210.1 kb | Distal (>10kb) Multiome | 710 | |
| chr12:56,266,608–56,267,683 | 201.5 kb | Distal (>10kb) Multiome HiCAR | 857 | |
| chr12:56,299,744–56,300,865 | 168.2 kb | Distal (>10kb) Multiome HiCAR | 923 | |
| chr12:56,315,380–56,316,674 | 152.4 kb | Distal (>10kb) Multiome HiCAR | 934 | |
| chr12:56,333,366–56,334,588 | 134.6 kb | Distal (>10kb) Multiome HiCAR | 853 | |
| chr12:56,359,808–56,360,881 | 108.3 kb | Distal (>10kb) Multiome HiCAR | 860 | |
| chr12:56,448,848–56,449,756 | 19.3 kb | Distal (>10kb) Multiome | 920 | |
| chr12:56,464,377–56,464,605 | 4.0 kb | Proximal (<10kb) | 354 | |
| chr12:56,468,239–56,468,840 | 32 bp | At TSS Multiome | 907 | |
| chr12:56,487,633–56,488,590 | 19.7 kb | Distal (>10kb) Multiome | 784 | |
| chr12:56,629,725–56,630,674 | 161.8 kb | Distal (>10kb) Multiome | 759 | |
| chr12:56,633,838–56,637,505 | 165.8 kb | Distal (>10kb) Multiome | 1037 | |
| chr12:56,645,530–56,646,466 | 177.6 kb | Distal (>10kb) Multiome | 902 | |
| chr12:56,687,276–56,689,898 | 221.1 kb | Distal (>10kb) Multiome | 1162 | |
| chr12:56,724,695–56,725,713 | 256.8 kb | Distal (>10kb) Multiome | 972 | |
| chr12:56,751,814–56,752,566 | 283.7 kb | Distal (>10kb) Multiome | 765 |
Genomic view of the SPRYD4 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.