Originally named because of its sequence similarity to the Saccharomyces cerevisiae NHP2 (non-histone protein 2), this protein appears to be a highly conserved nuclear protein that is a component of the [U4/U6.U5] tri-snRNP. It binds to the 5' stem-loop of U4 snRNA. Two transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SNU13. 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 = SNU13 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 SNU13, 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 |
|---|---|---|---|---|
| chr22:41,413,486–41,414,305 | 275.0 kb | Distal (>10kb) Multiome | 832 | |
| chr22:41,444,084–41,445,743 | 244.3 kb | Distal (>10kb) Multiome | 607 | |
| chr22:41,446,165–41,449,007 | 242.0 kb | Distal (>10kb) Multiome | 1188 | |
| chr22:41,468,341–41,469,602 | 219.9 kb | Distal (>10kb) Multiome | 920 | |
| chr22:41,512,659–41,513,151 | 175.9 kb | Distal (>10kb) Multiome | 354 | |
| chr22:41,543,855–41,544,782 | 144.3 kb | Distal (>10kb) Multiome | 755 | |
| chr22:41,589,188–41,590,530 | 98.9 kb | Distal (>10kb) Multiome | 758 | |
| chr22:41,620,173–41,622,049 | 67.7 kb | Distal (>10kb) Multiome | 880 | |
| chr22:41,666,496–41,667,405 | 22.0 kb | Distal (>10kb) Multiome | 725 | |
| chr22:41,682,380–41,682,586 | at TSS | At TSS | 550 | |
| chr22:41,688,610–41,689,019 | 6.2 kb | Proximal (<10kb) | 805 | |
| chr22:41,697,169–41,697,792 | 8.5 kb | Proximal (<10kb) Multiome | 464 | |
| chr22:41,800,274–41,801,345 | 111.7 kb | Distal (>10kb) Multiome | 816 | |
| chr22:41,832,291–41,834,215 | 144.0 kb | Distal (>10kb) Multiome | 1023 | |
| chr22:41,845,927–41,846,489 | 157.3 kb | Distal (>10kb) Multiome | 271 | |
| chr22:41,909,821–41,910,788 | 221.4 kb | Distal (>10kb) Multiome | 251 | |
| chr22:41,913,915–41,914,497 | 225.3 kb | Distal (>10kb) Multiome | 143 | |
| chr22:41,914,624–41,915,454 | 226.2 kb | Distal (>10kb) Multiome | 273 | |
| chr22:41,919,501–41,920,436 | 231.1 kb | Distal (>10kb) Multiome | 337 | |
| chr22:41,926,076–41,926,820 | 237.4 kb | Distal (>10kb) Multiome | 442 | |
| chr22:41,945,821–41,947,304 | 258.1 kb | Distal (>10kb) Multiome HiCAR | 896 | |
| chr22:41,957,553–41,958,332 | 269.0 kb | Distal (>10kb) Multiome | 456 | |
| chr22:41,976,503–41,977,084 | 287.9 kb | Distal (>10kb) Multiome | 294 |
Genomic view of the SNU13 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.