This gene encodes a subunit of the tRNA splicing endonuclease complex, which catalyzes the removal of introns from precursor tRNAs. The complex is also implicated in pre-mRNA 3-prime end processing. Mutations in this gene result in pontocerebellar hypoplasia type 2.[provided by RefSeq, Oct 2009]
Transcription factors with Perturb-seq knockdown data for TSEN54. 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 = TSEN54 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 TSEN54, 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 |
|---|---|---|---|---|
| chr17:75,240,373–75,240,941 | 275.9 kb | Distal (>10kb) Multiome | 436 | |
| chr17:75,261,304–75,262,404 | 254.8 kb | Distal (>10kb) Multiome | 983 | |
| chr17:75,270,231–75,271,942 | 245.3 kb | Distal (>10kb) Multiome | 946 | |
| chr17:75,288,761–75,289,874 | 227.0 kb | Distal (>10kb) Multiome | 941 | |
| chr17:75,346,809–75,347,324 | 169.4 kb | Distal (>10kb) Multiome | 265 | |
| chr17:75,393,479–75,394,300 | 122.6 kb | Distal (>10kb) Multiome | 834 | |
| chr17:75,404,856–75,406,161 | 110.8 kb | Distal (>10kb) Multiome | 917 | |
| chr17:75,456,149–75,457,264 | 60.0 kb | Distal (>10kb) Multiome | 865 | |
| chr17:75,481,081–75,481,680 | 35.2 kb | Distal (>10kb) Multiome | 64 | |
| chr17:75,514,425–75,517,171 | 867 bp | At TSS Multiome | 1158 | |
| chr17:75,524,764–75,527,160 | 9.0 kb | Proximal (<10kb) Multiome | 951 | |
| chr17:75,549,465–75,550,388 | 33.4 kb | Distal (>10kb) Multiome | 602 | |
| chr17:75,587,697–75,590,735 | 72.8 kb | Distal (>10kb) Multiome HiCAR | 744 | |
| chr17:75,633,694–75,634,328 | 117.5 kb | Distal (>10kb) Multiome | 559 | |
| chr17:75,666,763–75,667,767 | 150.7 kb | Distal (>10kb) Multiome | 783 | |
| chr17:75,720,933–75,721,693 | 204.8 kb | Distal (>10kb) Multiome | 509 | |
| chr17:75,753,534–75,754,285 | 237.3 kb | Distal (>10kb) Multiome | 699 | |
| chr17:75,764,621–75,765,674 | 248.6 kb | Distal (>10kb) Multiome | 769 | |
| chr17:75,778,786–75,780,191 | 263.3 kb | Distal (>10kb) Multiome | 1118 | |
| chr17:75,784,060–75,785,640 | 268.3 kb | Distal (>10kb) Multiome | 1176 |
Genomic view of the TSEN54 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.