Enables histone binding activity and peptidase activity. Involved in mRNA splicing, via spliceosome; negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction; and protein deubiquitination. Predicted to be located in nucleoplasm. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for USP49. 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 = USP49 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 USP49, 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 |
|---|---|---|---|---|
| chr6:41,638,107–41,639,488 | 256.9 kb | Distal (>10kb) Multiome | 240 | |
| chr6:41,683,281–41,684,037 | 211.6 kb | Distal (>10kb) Multiome | 492 | |
| chr6:41,733,652–41,736,107 | 161.1 kb | Distal (>10kb) Multiome | 908 | |
| chr6:41,779,509–41,781,116 | 115.3 kb | Distal (>10kb) Multiome | 857 | |
| chr6:41,786,100–41,787,779 | 108.8 kb | Distal (>10kb) Multiome | 1106 | |
| chr6:41,894,347–41,896,221 | 25 bp | At TSS Multiome | 822 | |
| chr6:41,920,834–41,921,901 | 25.9 kb | Distal (>10kb) Multiome | 955 | |
| chr6:41,939,116–41,939,782 | 44.1 kb | Distal (>10kb) Multiome | 401 | |
| chr6:41,940,689–41,942,238 | 46.5 kb | Distal (>10kb) Multiome | 798 | |
| chr6:41,965,433–41,966,075 | 70.4 kb | Distal (>10kb) Multiome | 152 | |
| chr6:42,030,637–42,031,169 | 135.6 kb | Distal (>10kb) Multiome | 297 | |
| chr6:42,048,292–42,049,051 | 153.3 kb | Distal (>10kb) Multiome | 627 | |
| chr6:42,050,080–42,050,921 | 155.2 kb | Distal (>10kb) Multiome | 912 | |
| chr6:42,104,179–42,104,979 | 209.1 kb | Distal (>10kb) Multiome | 486 | |
| chr6:42,136,520–42,137,140 | 241.5 kb | Distal (>10kb) Multiome | 555 | |
| chr6:42,142,113–42,142,966 | 247.2 kb | Distal (>10kb) Multiome | 489 | |
| chr6:42,166,489–42,167,048 | 271.4 kb | Distal (>10kb) Multiome | 451 | |
| chr6:42,177,902–42,178,547 | 282.8 kb | Distal (>10kb) Multiome | 161 |
Genomic view of the USP49 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.