Predicted to contribute to pre-mRNA 5'-splice site binding activity. Predicted to be involved in mRNA 5'-splice site recognition. Predicted to be located in nucleus. Predicted to be part of U1 snRNP; U2-type prespliceosome; and commitment complex. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for PRPF39. 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 = PRPF39 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 PRPF39, 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 |
|---|---|---|---|---|
| chr14:44,820,008–44,820,982 | 263.5 kb | Distal (>10kb) Multiome | 103 | |
| chr14:44,896,801–44,898,169 | 186.8 kb | Distal (>10kb) Multiome | 826 | |
| chr14:44,913,447–44,914,054 | 170.3 kb | Distal (>10kb) Multiome | 280 | |
| chr14:44,961,013–44,963,177 | 122.0 kb | Distal (>10kb) Multiome | 890 | |
| chr14:45,076,441–45,076,652 | 7.5 kb | Proximal (<10kb) | 13 | |
| chr14:45,080,258–45,081,205 | 2.9 kb | Proximal (<10kb) | 47 | |
| chr14:45,083,317–45,084,737 | 28 bp | At TSS Multiome | 770 | |
| chr14:45,133,924–45,135,140 | 50.4 kb | Distal (>10kb) Multiome | 799 | |
| chr14:45,135,659–45,136,491 | 51.9 kb | Distal (>10kb) Multiome | 641 | |
| chr14:45,252,907–45,254,209 | 169.2 kb | Distal (>10kb) Multiome | 1004 | |
| chr14:45,294,661–45,295,649 | 211.0 kb | Distal (>10kb) Multiome | 171 |
Genomic view of the PRPF39 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.