Enables RNA binding activity. Involved in mRNA splicing, via spliceosome. Located in nucleoplasm. Part of U2-type precatalytic spliceosome. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for PRPF38A. 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 = PRPF38A 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 PRPF38A, 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 |
|---|---|---|---|---|
| chr1:52,141,669–52,142,926 | 262.5 kb | Distal (>10kb) Multiome | 839 | |
| chr1:52,240,504–52,241,012 | 163.8 kb | Distal (>10kb) Multiome | 110 | |
| chr1:52,365,194–52,367,305 | 38.3 kb | Distal (>10kb) Multiome | 969 | |
| chr1:52,368,430–52,369,016 | 36.0 kb | Distal (>10kb) Multiome | 340 | |
| chr1:52,396,940–52,397,252 | 7.3 kb | Proximal (<10kb) | 16 | |
| chr1:52,403,732–52,405,027 | 74 bp | At TSS Multiome | 789 | |
| chr1:52,552,164–52,554,055 | 148.8 kb | Distal (>10kb) Multiome | 955 | |
| chr1:52,602,249–52,602,924 | 197.9 kb | Distal (>10kb) Multiome | 267 | |
| chr1:52,632,811–52,633,791 | 228.7 kb | Distal (>10kb) Multiome | 269 | |
| chr1:52,662,669–52,663,405 | 258.5 kb | Distal (>10kb) Multiome | 285 | |
| chr1:52,697,629–52,698,936 | 293.8 kb | Distal (>10kb) Multiome HiCAR | 997 | |
| chr1:52,702,879–52,703,689 | 298.6 kb | Distal (>10kb) Multiome | 872 |
Genomic view of the PRPF38A 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.