This gene encodes the largest subunit of the heterotrimeric Replication Protein A (RPA) complex, which binds to single-stranded DNA (ssDNA), forming a nucleoprotein complex that plays an important role in DNA metabolism, being involved in DNA replication, repair, recombination, telomere maintenance, and co-ordinating the cellular response to DNA damage through activation of the ataxia telangiectasia and Rad3-related protein (ATR) kinase. The nucleoprotein complex protects the single-stranded DNA from nucleases, prevents formation of secondary structures that would interfere with repair, and co-ordinates the recruitment and departure of different genome maintenance factors. This subunit contains four oligonucleotide/oligosaccharide-binding (OB) domains, though the majority of ssDNA binding occurs in two of these domains. The heterotrimeric complex has two different modes of ssDNA binding, a low-affinity and high-affinity mode, determined by which ssDNA binding domains are utilized. The different binding modes differ in the length of DNA bound and in the proteins with which it interacts, thereby playing a role in regulating different genomic maintenance pathways. [provided by RefSeq, Sep 2017]
Transcription factors with Perturb-seq knockdown data for RPA1. 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 = RPA1 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 RPA1, 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 |
|---|---|---|---|---|
| chr17:1,562,314–1,563,047 | 267.1 kb | Distal (>10kb) Multiome | 685 | |
| chr17:1,589,843–1,590,457 | 239.9 kb | Distal (>10kb) Multiome | 538 | |
| chr17:1,627,811–1,629,617 | 201.2 kb | Distal (>10kb) Multiome | 753 | |
| chr17:1,642,697–1,644,482 | 186.7 kb | Distal (>10kb) Multiome | 467 | |
| chr17:1,648,163–1,650,244 | 180.8 kb | Distal (>10kb) Multiome | 932 | |
| chr17:1,684,343–1,685,342 | 145.1 kb | Distal (>10kb) Multiome | 728 | |
| chr17:1,710,017–1,710,765 | 119.5 kb | Distal (>10kb) Multiome | 500 | |
| chr17:1,713,886–1,717,908 | 112.5 kb | Distal (>10kb) Multiome | 1042 | |
| chr17:1,724,373–1,725,206 | 105.2 kb | Distal (>10kb) Multiome | 720 | |
| chr17:1,829,368–1,830,287 | 42 bp | At TSS Multiome | 660 | |
| chr17:1,908,573–1,908,999 | 78.7 kb | Distal (>10kb) Multiome | 239 | |
| chr17:1,931,964–1,932,566 | 102.3 kb | Distal (>10kb) Multiome | 198 | |
| chr17:1,960,870–1,961,658 | 131.4 kb | Distal (>10kb) Multiome | 192 | |
| chr17:1,997,556–1,998,757 | 168.1 kb | Distal (>10kb) Multiome | 543 | |
| chr17:2,023,483–2,024,229 | 193.8 kb | Distal (>10kb) Multiome | 281 | |
| chr17:2,024,769–2,026,284 | 195.5 kb | Distal (>10kb) Multiome | 459 | |
| chr17:2,029,741–2,030,885 | 200.9 kb | Distal (>10kb) Multiome | 871 | |
| chr17:2,041,423–2,042,366 | 211.9 kb | Distal (>10kb) Multiome | 834 | |
| chr17:2,048,764–2,051,218 | 219.1 kb | Distal (>10kb) Multiome | 658 | |
| chr17:2,053,643–2,054,179 | 223.8 kb | Distal (>10kb) Multiome | 473 | |
| chr17:2,054,616–2,055,766 | 225.1 kb | Distal (>10kb) Multiome | 544 | |
| chr17:2,058,401–2,059,503 | 228.8 kb | Distal (>10kb) Multiome | 366 |
Genomic view of the RPA1 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.