This gene represents a long non-coding RNA locus that has been identified as a candidate oncogene. Increased copy number and overexpression of this gene are associated with many types of cancers including breast and ovarian cancers, acute myeloid leukemia and Hodgkin lymphoma. Allelic variants of this gene are also associated with end-stage renal disease attributed to type 1 diabetes. Consistent with its association with various types of cancer, transcription of this gene is regulated by the tumor suppressor p53 through a canonical p53-binding site, and it has been implicated in regulating levels of the proto-oncogene MYC to promote tumorigenesis. [provided by RefSeq, Sep 2015]
Transcription factors with Perturb-seq knockdown data for PVT1. 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 = PVT1 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 PVT1, 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 |
|---|---|---|---|---|
| chr8:127,618,811–127,619,872 | 175.3 kb | Distal (>10kb) Multiome | 163 | |
| chr8:127,733,783–127,736,880 | 59.5 kb | Distal (>10kb) Multiome | 1123 | |
| chr8:127,736,970–127,739,571 | 55.4 kb | Distal (>10kb) Multiome | 736 | |
| chr8:127,793,785–127,794,960 | 133 bp | At TSS Multiome | 671 | |
| chr8:127,795,052–127,795,198 | 527 bp | At TSS | 268 | |
| chr8:127,799,155–127,799,320 | 4.6 kb | Proximal (<10kb) | 49 | |
| chr8:127,800,749–127,801,185 | 6.2 kb | Proximal (<10kb) | 357 | |
| chr8:127,809,701–127,811,172 | 15.8 kb | Distal (>10kb) Multiome | 536 | |
| chr8:127,817,766–127,818,945 | 23.7 kb | Distal (>10kb) Multiome | 295 | |
| chr8:127,854,279–127,855,978 | 60.8 kb | Distal (>10kb) Multiome | 526 | |
| chr8:127,866,850–127,868,020 | 72.9 kb | Distal (>10kb) Multiome HiCAR | 355 | |
| chr8:129,515,453–129,516,252 | 1721.2 kb | Distal (>10kb) Multiome HiCAR | 248 |
Genomic view of the PVT1 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.