This gene encodes a protein that is a subunit of the endosomal sorting complex required for transport II (ESCRT-II). This protein complex functions in sorting of ubiquitinated membrane proteins during endocytosis. A pseudogene of this gene is present on chromosome 1. [provided by RefSeq, Jul 2013]
Transcription factors with Perturb-seq knockdown data for VPS25. 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 = VPS25 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 VPS25, 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 |
|---|---|---|---|---|
| chr17:42,531,503–42,532,256 | 241.5 kb | Distal (>10kb) Multiome | 571 | |
| chr17:42,535,863–42,536,855 | 237.1 kb | Distal (>10kb) Multiome | 987 | |
| chr17:42,547,934–42,548,909 | 225.0 kb | Distal (>10kb) Multiome | 325 | |
| chr17:42,554,285–42,555,164 | 218.7 kb | Distal (>10kb) Multiome | 899 | |
| chr17:42,561,770–42,562,376 | 211.4 kb | Distal (>10kb) Multiome | 905 | |
| chr17:42,566,552–42,567,732 | 206.4 kb | Distal (>10kb) Multiome | 902 | |
| chr17:42,577,421–42,578,281 | 195.7 kb | Distal (>10kb) Multiome | 884 | |
| chr17:42,578,382–42,578,892 | 194.8 kb | Distal (>10kb) Multiome | 477 | |
| chr17:42,608,764–42,610,335 | 163.9 kb | Distal (>10kb) Multiome | 909 | |
| chr17:42,658,938–42,659,852 | 114.1 kb | Distal (>10kb) Multiome | 734 | |
| chr17:42,669,472–42,671,112 | 102.7 kb | Distal (>10kb) Multiome | 230 | |
| chr17:42,673,584–42,674,462 | 99.4 kb | Distal (>10kb) Multiome | 296 | |
| chr17:42,674,847–42,675,579 | 98.2 kb | Distal (>10kb) Multiome | 194 | |
| chr17:42,676,055–42,678,790 | 96.3 kb | Distal (>10kb) Multiome | 1070 | |
| chr17:42,679,005–42,680,519 | 93.5 kb | Distal (>10kb) Multiome | 654 | |
| chr17:42,682,736–42,683,400 | 90.7 kb | Distal (>10kb) Multiome | 480 | |
| chr17:42,744,352–42,745,375 | 28.5 kb | Distal (>10kb) Multiome | 966 | |
| chr17:42,761,003–42,761,468 | 12.4 kb | Distal (>10kb) Multiome | 335 | |
| chr17:42,763,489–42,763,716 | 9.7 kb | Proximal (<10kb) | 337 | |
| chr17:42,773,302–42,773,520 | at TSS | At TSS | 875 | |
| chr17:42,780,029–42,780,899 | 7.1 kb | Proximal (<10kb) Multiome | 712 | |
| chr17:42,798,408–42,798,877 | 25.3 kb | Distal (>10kb) Multiome | 866 | |
| chr17:42,823,968–42,824,503 | 50.9 kb | Distal (>10kb) Multiome | 829 | |
| chr17:42,832,889–42,833,841 | 59.9 kb | Distal (>10kb) Multiome | 980 | |
| chr17:42,964,237–42,964,843 | 191.1 kb | Distal (>10kb) Multiome | 655 | |
| chr17:42,979,966–42,981,044 | 207.0 kb | Distal (>10kb) Multiome | 843 | |
| chr17:42,997,598–42,998,917 | 224.9 kb | Distal (>10kb) Multiome | 1112 | |
| chr17:43,021,026–43,022,568 | 248.9 kb | Distal (>10kb) Multiome | 973 | |
| chr17:43,024,255–43,025,752 | 251.6 kb | Distal (>10kb) Multiome | 811 |
Genomic view of the VPS25 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.