Predicted to enable nucleic acid binding activity. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for R3HDM4. 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 = R3HDM4 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 R3HDM4, 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 |
|---|---|---|---|---|
| chr19:632,653–633,806 | 279.6 kb | Distal (>10kb) Multiome | 758 | |
| chr19:639,456–640,331 | 273.4 kb | Distal (>10kb) Multiome | 389 | |
| chr19:662,267–663,864 | 249.9 kb | Distal (>10kb) Multiome | 723 | |
| chr19:679,616–681,731 | 232.5 kb | Distal (>10kb) Multiome | 832 | |
| chr19:703,387–704,718 | 209.2 kb | Distal (>10kb) Multiome | 586 | |
| chr19:708,425–709,293 | 204.4 kb | Distal (>10kb) Multiome | 317 | |
| chr19:796,668–798,362 | 116.0 kb | Distal (>10kb) Multiome | 956 | |
| chr19:821,294–822,728 | 91.1 kb | Distal (>10kb) Multiome | 254 | |
| chr19:861,664–863,223 | 51.0 kb | Distal (>10kb) Multiome | 530 | |
| chr19:892,703–893,746 | 20.0 kb | Distal (>10kb) Multiome | 715 | |
| chr19:912,925–913,346 | at TSS | At TSS | 398 | |
| chr19:917,038–918,169 | 4.6 kb | Proximal (<10kb) Multiome | 711 | |
| chr19:921,691–922,009 | 8.5 kb | Proximal (<10kb) | 500 | |
| chr19:924,743–926,242 | 12.5 kb | Distal (>10kb) Multiome | 796 | |
| chr19:927,058–927,629 | 14.1 kb | Distal (>10kb) Multiome | 362 | |
| chr19:982,565–983,215 | 69.6 kb | Distal (>10kb) Multiome HiCAR | 590 | |
| chr19:984,046–985,154 | 71.3 kb | Distal (>10kb) Multiome HiCAR | 829 | |
| chr19:1,000,142–1,000,881 | 87.1 kb | Distal (>10kb) Multiome | 399 | |
| chr19:1,020,611–1,022,069 | 108.2 kb | Distal (>10kb) Multiome | 1017 | |
| chr19:1,026,155–1,026,856 | 113.3 kb | Distal (>10kb) Multiome | 598 | |
| chr19:1,027,770–1,028,926 | 115.3 kb | Distal (>10kb) Multiome | 584 | |
| chr19:1,039,648–1,040,400 | 126.8 kb | Distal (>10kb) Multiome | 684 | |
| chr19:1,040,481–1,041,402 | 128.0 kb | Distal (>10kb) Multiome | 556 | |
| chr19:1,044,758–1,045,598 | 132.1 kb | Distal (>10kb) Multiome | 402 | |
| chr19:1,061,840–1,062,923 | 149.3 kb | Distal (>10kb) Multiome | 204 | |
| chr19:1,063,045–1,065,722 | 151.6 kb | Distal (>10kb) Multiome | 681 | |
| chr19:1,066,682–1,067,587 | 154.0 kb | Distal (>10kb) Multiome | 489 | |
| chr19:1,071,107–1,071,721 | 157.9 kb | Distal (>10kb) Multiome | 178 | |
| chr19:1,081,317–1,083,172 | 169.2 kb | Distal (>10kb) Multiome | 484 | |
| chr19:1,094,985–1,095,654 | 182.2 kb | Distal (>10kb) Multiome | 671 | |
| chr19:1,103,487–1,105,654 | 190.8 kb | Distal (>10kb) Multiome | 849 | |
| chr19:1,112,029–1,112,884 | 199.1 kb | Distal (>10kb) Multiome | 294 | |
| chr19:1,113,014–1,114,139 | 200.3 kb | Distal (>10kb) Multiome | 690 | |
| chr19:1,122,934–1,123,720 | 210.0 kb | Distal (>10kb) Multiome | 231 | |
| chr19:1,173,441–1,174,438 | 261.0 kb | Distal (>10kb) Multiome | 682 | |
| chr19:1,194,370–1,194,985 | 281.4 kb | Distal (>10kb) Multiome | 531 | |
| chr19:1,205,175–1,206,374 | 292.4 kb | Distal (>10kb) Multiome | 746 |
Genomic view of the R3HDM4 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.