This gene encodes a protein containing domains that associate it with the peptidase family C19, also known as family 2 of ubiquitin carboxyl-terminal hydrolases. Family members function as deubiquitinating enzymes, recognizing and hydrolyzing the peptide bond at the C-terminal glycine of ubiquitin. Enzymes in peptidase family C19 are involved in the processing of poly-ubiquitin precursors as well as that of ubiquitinated proteins. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for USP48. 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 = USP48 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 USP48, 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 |
|---|---|---|---|---|
| chr1:21,490,894–21,491,460 | 292.6 kb | Distal (>10kb) Multiome | 154 | |
| chr1:21,491,962–21,492,562 | 291.3 kb | Distal (>10kb) Multiome | 116 | |
| chr1:21,497,823–21,498,256 | 285.5 kb | Distal (>10kb) Multiome | 85 | |
| chr1:21,508,855–21,510,512 | 273.2 kb | Distal (>10kb) Multiome | 399 | |
| chr1:21,607,576–21,608,530 | 175.6 kb | Distal (>10kb) Multiome | 338 | |
| chr1:21,621,983–21,623,132 | 161.0 kb | Distal (>10kb) Multiome | 228 | |
| chr1:21,638,784–21,640,464 | 143.8 kb | Distal (>10kb) Multiome | 542 | |
| chr1:21,651,625–21,652,424 | 131.7 kb | Distal (>10kb) Multiome | 367 | |
| chr1:21,659,145–21,659,637 | 124.2 kb | Distal (>10kb) Multiome | 960 | |
| chr1:21,668,987–21,670,050 | 114.1 kb | Distal (>10kb) Multiome | 743 | |
| chr1:21,782,310–21,784,177 | 188 bp | At TSS Multiome | 1096 | |
| chr1:21,784,287–21,784,980 | 1.1 kb | Proximal (<10kb) | 168 | |
| chr1:21,814,299–21,814,932 | 31.0 kb | Distal (>10kb) Multiome | 227 | |
| chr1:21,922,465–21,923,180 | 139.2 kb | Distal (>10kb) Multiome | 263 | |
| chr1:21,936,519–21,938,007 | 153.8 kb | Distal (>10kb) Multiome | 630 | |
| chr1:22,024,858–22,026,137 | 241.9 kb | Distal (>10kb) Multiome | 937 | |
| chr1:22,052,314–22,053,858 | 269.1 kb | Distal (>10kb) Multiome | 912 |
Genomic view of the USP48 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.