Enables RNA binding activity. Involved in several processes, including cytoskeleton organization; regulation of cell shape; and regulation of cytokinesis. Located in nuclear matrix and nuclear speck. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for PRPF40A. 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 = PRPF40A 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 PRPF40A, 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 |
|---|---|---|---|---|
| chr2:152,452,653–152,454,217 | 264.0 kb | Distal (>10kb) Multiome | 237 | |
| chr2:152,715,951–152,716,157 | 1.3 kb | Proximal (<10kb) | 180 | |
| chr2:152,716,816–152,719,411 | 165 bp | At TSS Multiome | 1184 | |
| chr2:152,761,973–152,763,655 | 44.9 kb | Distal (>10kb) Multiome | 196 | |
| chr2:152,817,160–152,817,995 | 100.2 kb | Distal (>10kb) Multiome | 49 | |
| chr2:152,880,683–152,881,891 | 163.8 kb | Distal (>10kb) Multiome | 184 | |
| chr2:153,476,536–153,479,755 | 761.4 kb | Distal (>10kb) Multiome HiCAR | 828 |
Genomic view of the PRPF40A 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.