This gene encodes a member of the vacuolar protein sorting-associated protein 51 family. The encoded protein is a component of the Golgi-associated retrograde protein complex which acts as a tethering factor for carriers in retrograde transport from the early and late endosomes to the trans-Golgi network. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2012]
Transcription factors with Perturb-seq knockdown data for VPS51. 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 = VPS51 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 VPS51, 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 |
|---|---|---|---|---|
| chr11:64,802,650–64,803,485 | 292.8 kb | Distal (>10kb) Multiome | 522 | |
| chr11:64,809,807–64,811,090 | 285.6 kb | Distal (>10kb) Multiome | 702 | |
| chr11:64,844,075–64,845,264 | 251.4 kb | Distal (>10kb) Multiome HiCAR | 645 | |
| chr11:64,846,953–64,847,598 | 249.0 kb | Distal (>10kb) Multiome HiCAR | 509 | |
| chr11:64,877,434–64,879,352 | 217.5 kb | Distal (>10kb) Multiome | 980 | |
| chr11:64,887,785–64,888,374 | 208.2 kb | Distal (>10kb) Multiome | 633 | |
| chr11:64,916,057–64,917,940 | 178.8 kb | Distal (>10kb) Multiome | 873 | |
| chr11:64,924,041–64,924,916 | 171.8 kb | Distal (>10kb) Multiome | 808 | |
| chr11:64,971,835–64,972,454 | 124.1 kb | Distal (>10kb) Multiome | 265 | |
| chr11:65,013,538–65,014,838 | 82.2 kb | Distal (>10kb) Multiome | 980 | |
| chr11:65,027,243–65,027,944 | 68.6 kb | Distal (>10kb) Multiome | 851 | |
| chr11:65,040,595–65,041,884 | 55.1 kb | Distal (>10kb) Multiome | 838 | |
| chr11:65,083,636–65,084,788 | 12.0 kb | Distal (>10kb) Multiome | 898 | |
| chr11:65,095,834–65,097,052 | 240 bp | At TSS Multiome | 1061 | |
| chr11:65,111,466–65,113,404 | 15.6 kb | Distal (>10kb) Multiome | 919 | |
| chr11:65,116,528–65,118,298 | 21.6 kb | Distal (>10kb) Multiome | 973 | |
| chr11:65,121,474–65,122,848 | 26.0 kb | Distal (>10kb) Multiome | 817 | |
| chr11:65,134,120–65,135,530 | 38.8 kb | Distal (>10kb) Multiome | 997 | |
| chr11:65,180,773–65,182,676 | 85.4 kb | Distal (>10kb) Multiome | 832 | |
| chr11:65,184,109–65,184,542 | 88.1 kb | Distal (>10kb) Multiome | 85 | |
| chr11:65,213,383–65,213,853 | 117.4 kb | Distal (>10kb) Multiome | 174 | |
| chr11:65,225,439–65,226,037 | 129.4 kb | Distal (>10kb) Multiome | 522 | |
| chr11:65,261,186–65,262,526 | 165.6 kb | Distal (>10kb) Multiome | 777 | |
| chr11:65,314,302–65,316,053 | 219.5 kb | Distal (>10kb) Multiome | 803 | |
| chr11:65,333,360–65,334,372 | 237.6 kb | Distal (>10kb) Multiome | 654 | |
| chr11:65,354,023–65,355,987 | 258.4 kb | Distal (>10kb) Multiome | 677 | |
| chr11:65,366,306–65,366,977 | 270.3 kb | Distal (>10kb) Multiome | 309 | |
| chr11:65,381,835–65,382,758 | 286.0 kb | Distal (>10kb) Multiome | 984 | |
| chr11:65,386,320–65,387,097 | 290.4 kb | Distal (>10kb) Multiome | 757 |
Genomic view of the VPS51 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.