This gene produces a long non-coding RNA that promotes cell proliferation and is upregulated in prostate, colorectal, and other cancers. This RNA negatively regulates the BRCA2 tumor suppressor protein and positively regulates Myc oncoprotein. It contains binding sites for microRNAs, and may act as a sponge for microRNAs that regulate cell growth pathways. [provided by RefSeq, Dec 2017]
Transcription factors with Perturb-seq knockdown data for PCAT1. 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 = PCAT1 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 PCAT1, 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 |
|---|---|---|---|---|
| chr8:126,368,945–126,369,496 | 187.2 kb | Distal (>10kb) Multiome | 132 | |
| chr8:126,422,800–126,424,054 | 133.1 kb | Distal (>10kb) Multiome HiCAR | 251 | |
| chr8:126,449,372–126,449,956 | 106.7 kb | Distal (>10kb) Multiome | 184 | |
| chr8:126,510,314–126,510,851 | 45.8 kb | Distal (>10kb) Multiome | 218 | |
| chr8:126,544,813–126,545,611 | 11.1 kb | Distal (>10kb) Multiome | 178 | |
| chr8:126,555,279–126,559,084 | 659 bp | At TSS Multiome | 996 | |
| chr8:126,565,779–126,566,252 | 7.9 kb | Proximal (<10kb) | 58 | |
| chr8:126,566,985–126,567,193 | 9.1 kb | Proximal (<10kb) | 69 | |
| chr8:126,824,441–126,825,287 | 268.5 kb | Distal (>10kb) Multiome | 383 | |
| chr8:126,876,634–126,877,292 | at TSS | At TSS | 457 | |
| chr8:126,882,386–126,882,692 | 5.5 kb | Proximal (<10kb) | 17 | |
| chr8:126,885,382–126,885,571 | 8.5 kb | Proximal (<10kb) | 45 | |
| chr8:126,960,573–126,961,424 | 404.7 kb | Distal (>10kb) Multiome | 124 | |
| chr8:127,043,707–127,044,204 | 487.5 kb | Distal (>10kb) Multiome | 201 |
Genomic view of the PCAT1 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.