This gene encodes a human guanine nucleotide exchange factor. It transduces signals from CRK by binding the SH3 domain of CRK, and activating several members of the Ras family of GTPases. This signaling cascade that may be involved in apoptosis, integrin-mediated signal transduction, and cell transformation. Several alternatively spliced transcript variants of this gene have been described, but the full-length nature of some variants has not been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for RAPGEF1. 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 = RAPGEF1 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 RAPGEF1, 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 |
|---|---|---|---|---|
| chr9:131,502,603–131,504,327 | 237.1 kb | Distal (>10kb) Multiome | 860 | |
| chr9:131,530,588–131,531,834 | 208.8 kb | Distal (>10kb) Multiome | 635 | |
| chr9:131,739,378–131,740,405 | 27 bp | At TSS Multiome | 513 | |
| chr9:131,807,487–131,807,943 | 67.6 kb | Distal (>10kb) Multiome | 104 | |
| chr9:132,006,745–132,007,281 | 267.0 kb | Distal (>10kb) Multiome | 166 | |
| chr9:132,239,978–132,242,316 | 501.2 kb | Distal (>10kb) Multiome HiCAR | 555 |
Genomic view of the RAPGEF1 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.