Members of the RAS (see HRAS; MIM 190020) subfamily of GTPases function in signal transduction as GTP/GDP-regulated switches that cycle between inactive GDP- and active GTP-bound states. Guanine nucleotide exchange factors (GEFs), such as RAPGEF5, serve as RAS activators by promoting acquisition of GTP to maintain the active GTP-bound state and are the key link between cell surface receptors and RAS activation (Rebhun et al., 2000 [PubMed 10934204]).[supplied by OMIM, Mar 2008]
Transcription factors with Perturb-seq knockdown data for RAPGEF5. 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 = RAPGEF5 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 RAPGEF5, 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 |
|---|---|---|---|---|
| chr7:22,082,625–22,083,698 | 274.0 kb | Distal (>10kb) Multiome | 664 | |
| chr7:22,193,275–22,194,024 | 163.4 kb | Distal (>10kb) Multiome | 146 | |
| chr7:22,319,900–22,320,510 | 37.0 kb | Distal (>10kb) Multiome | 131 | |
| chr7:22,356,400–22,357,987 | 1 bp | At TSS Multiome | 577 | |
| chr7:22,452,174–22,452,922 | 95.3 kb | Distal (>10kb) Multiome | 396 | |
| chr7:22,477,712–22,479,056 | 121.0 kb | Distal (>10kb) Multiome | 137 | |
| chr7:22,499,925–22,500,379 | 143.0 kb | Distal (>10kb) Multiome | 271 | |
| chr7:22,549,622–22,550,567 | 193.1 kb | Distal (>10kb) Multiome | 336 |
Genomic view of the RAPGEF5 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.