This gene encodes a member of the Ras family of small GTPases. The encoded protein undergoes a change in conformational state and activity, depending on whether it is bound to GTP or GDP. This protein is activated by several types of guanine nucleotide exchange factors (GEFs), and inactivated by two groups of GTPase-activating proteins (GAPs). The activation status of the encoded protein is therefore affected by the balance of intracellular levels of GEFs and GAPs. The encoded protein regulates signaling pathways that affect cell proliferation and adhesion, and may play a role in tumor malignancy. Pseudogenes of this gene have been defined on chromosomes 14 and 17. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2014]
Transcription factors with Perturb-seq knockdown data for RAP1A. 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 = RAP1A 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 RAP1A, 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 |
|---|---|---|---|---|
| chr1:111,346,093–111,347,079 | 273.3 kb | Distal (>10kb) Multiome | 541 | |
| chr1:111,448,546–111,449,931 | 170.5 kb | Distal (>10kb) Multiome | 782 | |
| chr1:111,507,573–111,508,705 | 111.7 kb | Distal (>10kb) Multiome | 791 | |
| chr1:111,515,518–111,516,406 | 103.7 kb | Distal (>10kb) Multiome | 240 | |
| chr1:111,617,926–111,618,510 | 1.5 kb | Proximal (<10kb) Multiome | 90 | |
| chr1:111,619,191–111,620,837 | 9 bp | At TSS Multiome | 640 | |
| chr1:111,639,680–111,640,200 | 20.1 kb | Distal (>10kb) Multiome | 183 | |
| chr1:111,738,257–111,740,696 | 120.7 kb | Distal (>10kb) Multiome | 967 | |
| chr1:111,755,078–111,756,393 | 135.9 kb | Distal (>10kb) Multiome | 952 |
Genomic view of the RAP1A 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.