RPA2
replication protein A2

This gene encodes a 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 RPA complex protects 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. The heterotrimeric complex has two different modes of ssDNA binding, a low-affinity and high-affinity mode, determined by which oligonucleotide/oligosaccharide-binding (OB) domains of the complex are utilized, and differing in the length of DNA bound. This subunit contains a single OB domain that participates in high-affinity DNA binding and also contains a winged helix domain at its carboxy terminus, which interacts with many genome maintenance protein. Post-translational modifications of the RPA complex also plays a role in co-ordinating different damage response pathways. [provided by RefSeq, Sep 2017]

Member of: DE-6
Biological processes 51 terms
DNA binding (GO:0003677)DNA damage checkpoint signaling (GO:0000077)DNA recombination (GO:0006310)DNA repair (GO:0006281)DNA replication (GO:0006260)DNA replication (GO:0006260)DNA replication (GO:0006260)DNA replication (GO:0006260)DNA replication (GO:0006260)DNA replication factor A complex (GO:0005662)DNA replication factor A complex (GO:0005662)DNA replication factor A complex (GO:0005662)G-rich strand telomeric DNA binding (GO:0098505)PML body (GO:0016605)PML body (GO:0016605)PML body (GO:0016605)base-excision repair (GO:0006284)chromatin (GO:0000785)chromosome, telomeric region (GO:0000781)chromosome, telomeric region (GO:0000781)damaged DNA binding (GO:0003684)double-strand break repair via homologous recombination (GO:0000724)double-strand break repair via homologous recombination (GO:0000724)double-strand break repair via homologous recombination (GO:0000724)enzyme binding (GO:0019899)mismatch repair (GO:0006298)mitotic G1 DNA damage checkpoint signaling (GO:0031571)nuclear body (GO:0016604)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleotide-excision repair (GO:0006289)nucleotide-excision repair (GO:0006289)nucleotide-excision repair (GO:0006289)nucleotide-excision repair (GO:0006289)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)protein localization to chromosome (GO:0034502)protein phosphatase binding (GO:0019903)regulation of DNA damage checkpoint (GO:2000001)regulation of double-strand break repair via homologous recombination (GO:0010569)single-stranded DNA binding (GO:0003697)single-stranded DNA binding (GO:0003697)single-stranded DNA binding (GO:0003697)single-stranded DNA binding (GO:0003697)site of double-strand break (GO:0035861)telomere maintenance (GO:0000723)telomere maintenance (GO:0000723)telomere maintenance (GO:0000723)telomeric repeat DNA binding (GO:0042162)ubiquitin protein ligase binding (GO:0031625)
Expression (TPM)
RPA2 — as a Regulated Gene

TFs regulating RPA2 0 TFs

Transcription factors with Perturb-seq knockdown data for RPA2. 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 = RPA2 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to RPA2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RPA2, 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
chr1:27,614,890–27,615,294 299.6 kb Distal (>10kb) Multiome 84
chr1:27,659,614–27,660,451 254.6 kb Distal (>10kb) Multiome 525
chr1:27,662,782–27,663,455 251.5 kb Distal (>10kb) Multiome 386
chr1:27,725,017–27,726,553 188.9 kb Distal (>10kb) Multiome 896
chr1:27,770,363–27,771,047 144.1 kb Distal (>10kb) Multiome 104
chr1:27,772,649–27,773,796 141.6 kb Distal (>10kb) Multiome 826
chr1:27,830,416–27,831,407 84.0 kb Distal (>10kb) Multiome 899
chr1:27,872,169–27,873,143 42.2 kb Distal (>10kb) Multiome 412
chr1:27,914,296–27,915,026 42 bp At TSS Multiome 866
chr1:27,934,817–27,935,435 20.3 kb Distal (>10kb) Multiome 308
chr1:27,959,376–27,960,547 45.1 kb Distal (>10kb) Multiome 711
chr1:28,088,113–28,088,897 174.0 kb Distal (>10kb) Multiome 827
chr1:28,104,959–28,105,483 190.5 kb Distal (>10kb) Multiome 240

Genome Browser

Genomic view of the RPA2 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.

chr1:27,604,890 – 28,115,483
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq