This gene encodes a nucleic acid-binding protein that plays a role in a variety of nuclear processes, including pre-mRNA splicing and transcriptional regulation. The encoded protein forms a complex with the far upstream DNA element (FUSE) and FUSE-binding protein at the myelocytomatosis oncogene (MYC) promoter. This complex represses MYC transcription through the core-TFIIH basal transcription factor. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Aug 2012]
Transcription factors with Perturb-seq knockdown data for PUF60. 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 = PUF60 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 PUF60, 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 |
|---|---|---|---|---|
| chr8:143,540,714–143,542,061 | 287.8 kb | Distal (>10kb) Multiome | 849 | |
| chr8:143,553,122–143,554,177 | 275.6 kb | Distal (>10kb) Multiome | 775 | |
| chr8:143,558,225–143,558,936 | 270.8 kb | Distal (>10kb) Multiome | 600 | |
| chr8:143,567,166–143,570,227 | 260.2 kb | Distal (>10kb) Multiome | 485 | |
| chr8:143,571,367–143,572,283 | 257.6 kb | Distal (>10kb) Multiome | 443 | |
| chr8:143,577,641–143,578,799 | 251.0 kb | Distal (>10kb) Multiome | 470 | |
| chr8:143,596,744–143,599,643 | 231.7 kb | Distal (>10kb) Multiome | 973 | |
| chr8:143,608,979–143,610,357 | 219.6 kb | Distal (>10kb) Multiome | 735 | |
| chr8:143,617,068–143,618,380 | 211.7 kb | Distal (>10kb) Multiome | 823 | |
| chr8:143,635,715–143,636,601 | 193.3 kb | Distal (>10kb) Multiome | 786 | |
| chr8:143,684,308–143,684,747 | 144.9 kb | Distal (>10kb) Multiome | 686 | |
| chr8:143,716,075–143,716,913 | 113.0 kb | Distal (>10kb) Multiome | 311 | |
| chr8:143,733,345–143,734,440 | 95.5 kb | Distal (>10kb) Multiome | 663 | |
| chr8:143,740,039–143,740,754 | 88.8 kb | Distal (>10kb) Multiome | 308 | |
| chr8:143,771,202–143,772,221 | 57.5 kb | Distal (>10kb) Multiome | 405 | |
| chr8:143,814,945–143,816,493 | 13.6 kb | Distal (>10kb) Multiome HiCAR | 893 | |
| chr8:143,828,724–143,829,946 | 36 bp | At TSS Multiome | 933 | |
| chr8:143,840,284–143,841,979 | 11.8 kb | Distal (>10kb) Multiome | 551 | |
| chr8:143,877,814–143,879,346 | 49.2 kb | Distal (>10kb) Multiome | 444 | |
| chr8:143,941,814–143,942,929 | 112.9 kb | Distal (>10kb) Multiome | 630 | |
| chr8:143,943,562–143,944,432 | 114.7 kb | Distal (>10kb) Multiome | 587 | |
| chr8:143,951,583–143,954,394 | 124.5 kb | Distal (>10kb) Multiome | 943 | |
| chr8:143,972,817–143,973,908 | 144.2 kb | Distal (>10kb) Multiome | 436 | |
| chr8:143,976,288–143,977,568 | 147.7 kb | Distal (>10kb) Multiome | 738 | |
| chr8:143,989,521–143,991,038 | 160.7 kb | Distal (>10kb) Multiome | 596 | |
| chr8:144,049,063–144,051,761 | 221.3 kb | Distal (>10kb) Multiome | 342 | |
| chr8:144,060,259–144,061,087 | 231.4 kb | Distal (>10kb) Multiome | 727 | |
| chr8:144,078,142–144,079,235 | 249.3 kb | Distal (>10kb) Multiome | 912 | |
| chr8:144,082,187–144,083,105 | 253.2 kb | Distal (>10kb) Multiome | 763 | |
| chr8:144,094,454–144,095,491 | 265.6 kb | Distal (>10kb) Multiome | 798 | |
| chr8:144,103,485–144,105,242 | 275.0 kb | Distal (>10kb) Multiome | 1033 | |
| chr8:144,108,038–144,108,663 | 279.0 kb | Distal (>10kb) Multiome | 137 |
Genomic view of the PUF60 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.