This gene encodes a cell-cycle and transcription regulatory protein. The encoded protein interacts with the cell cycle inhibitor cyclin-dependent kinase 4 inhibitor B and may function as a negative regulator of G(1)/S phase progression. This protein also forms homo- and hetrodimers with the protein, regulation of nuclear pre-mRNA domain-containing protein 1B, to form a scaffold that interacts with the C-terminal domain of RNA polymerase II subunit B1 and regulates several aspects of transcription. Alternate splicing results in multiple transcript variants. A pseudogene of this gene is found on chromosome 16. [provided by RefSeq, Dec 2014]
Transcription factors with Perturb-seq knockdown data for RPRD1A. 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 = RPRD1A 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 RPRD1A, 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 |
|---|---|---|---|---|
| chr18:35,827,502–35,828,102 | 239.8 kb | Distal (>10kb) Multiome | 227 | |
| chr18:35,849,802–35,850,882 | 217.4 kb | Distal (>10kb) Multiome | 177 | |
| chr18:35,851,060–35,852,119 | 216.0 kb | Distal (>10kb) Multiome | 244 | |
| chr18:35,949,718–35,950,700 | 117.2 kb | Distal (>10kb) Multiome | 420 | |
| chr18:35,971,798–35,973,006 | 95.0 kb | Distal (>10kb) Multiome | 1056 | |
| chr18:36,066,875–36,067,975 | 13 bp | At TSS Multiome | 832 | |
| chr18:36,128,266–36,130,354 | 62.0 kb | Distal (>10kb) Multiome | 1064 | |
| chr18:36,186,392–36,188,500 | 120.0 kb | Distal (>10kb) Multiome | 747 | |
| chr18:36,296,503–36,298,742 | 230.1 kb | Distal (>10kb) Multiome | 532 |
Genomic view of the RPRD1A 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.