This gene encodes a component of the U5 small nuclear ribonucleoprotein (snRNP) particle. The U5 snRNP is part of the spliceosome, a multiprotein complex that catalyzes the removal of introns from pre-messenger RNAs. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SNRNP40. 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 = SNRNP40 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 SNRNP40, 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 |
|---|---|---|---|---|
| chr1:31,065,191–31,066,200 | 231.0 kb | Distal (>10kb) Multiome | 984 | |
| chr1:31,072,313–31,072,760 | 224.1 kb | Distal (>10kb) Multiome | 160 | |
| chr1:31,154,613–31,155,769 | 141.7 kb | Distal (>10kb) Multiome | 807 | |
| chr1:31,162,718–31,163,222 | 133.9 kb | Distal (>10kb) Multiome | 461 | |
| chr1:31,182,154–31,182,689 | 114.4 kb | Distal (>10kb) Multiome | 644 | |
| chr1:31,239,028–31,240,122 | 57.2 kb | Distal (>10kb) Multiome | 323 | |
| chr1:31,296,477–31,297,658 | 131 bp | At TSS Multiome | 749 | |
| chr1:31,372,771–31,374,054 | 76.9 kb | Distal (>10kb) Multiome | 474 | |
| chr1:31,375,901–31,376,374 | 79.5 kb | Distal (>10kb) Multiome | 20 | |
| chr1:31,394,503–31,395,142 | 98.1 kb | Distal (>10kb) Multiome | 592 | |
| chr1:31,412,821–31,414,256 | 116.4 kb | Distal (>10kb) Multiome | 550 | |
| chr1:31,548,778–31,549,765 | 252.4 kb | Distal (>10kb) Multiome | 641 |
Genomic view of the SNRNP40 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.