This gene encodes one of several alternate regulatory subunits of serine/threonine protein phosphatase 4 (PP4). The protein features multiple HEAT repeats. This protein forms a complex with PP4RC. This complex may have a distinct role from other PP4 complexes, including regulation of HDAC3 (Zhang et al., PMID: 15805470). There is also a transcribed pseudogene on chromosome 20. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2012]
Transcription factors with Perturb-seq knockdown data for PPP4R1. 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 = PPP4R1 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 PPP4R1, 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 |
|---|---|---|---|---|
| chr18:9,333,728–9,335,352 | 279.9 kb | Distal (>10kb) Multiome | 738 | |
| chr18:9,474,512–9,476,246 | 139.1 kb | Distal (>10kb) Multiome | 971 | |
| chr18:9,495,937–9,496,497 | 118.3 kb | Distal (>10kb) Multiome | 78 | |
| chr18:9,613,721–9,615,403 | 411 bp | At TSS Multiome | 740 | |
| chr18:9,700,207–9,700,899 | 86.0 kb | Distal (>10kb) Multiome | 297 | |
| chr18:9,707,924–9,708,548 | 93.7 kb | Distal (>10kb) Multiome | 464 | |
| chr18:9,876,800–9,877,632 | 262.9 kb | Distal (>10kb) Multiome | 502 | |
| chr18:9,913,270–9,915,160 | 299.3 kb | Distal (>10kb) Multiome | 983 |
Genomic view of the PPP4R1 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.