The modification of proteins with ubiquitin is an important cellular mechanism for targeting abnormal or short-lived proteins for degradation. Ubiquitination involves at least three classes of enzymes: ubiquitin-activating enzymes, or E1s, ubiquitin-conjugating enzymes, or E2s, and ubiquitin-protein ligases, or E3s. This gene encodes a member of the E2 ubiquitin-conjugating enzyme family. This enzyme functions in the ubiquitination of the tumor-suppressor protein p53, which is induced by an E3 ubiquitin-protein ligase. [provided by RefSeq, Jan 2017]
Transcription factors with Perturb-seq knockdown data for UBE2D3. 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 = UBE2D3 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 UBE2D3, 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 |
|---|---|---|---|---|
| chr4:102,759,924–102,761,752 | 67.2 kb | Distal (>10kb) Multiome | 907 | |
| chr4:102,825,469–102,826,017 | at TSS | At TSS | 350 | |
| chr4:102,826,418–102,828,875 | 80 bp | At TSS Multiome | 1216 | |
| chr4:102,829,040–102,829,560 | 3.5 kb | Proximal (<10kb) | 131 | |
| chr4:102,868,279–102,869,865 | 40.9 kb | Distal (>10kb) Multiome | 1045 | |
| chr4:102,869,921–102,870,207 | 1.0 kb | Proximal (<10kb) | 69 | |
| chr4:103,018,881–103,020,188 | 191.5 kb | Distal (>10kb) Multiome | 882 | |
| chr4:103,075,865–103,077,254 | 248.4 kb | Distal (>10kb) Multiome | 845 |
Genomic view of the UBE2D3 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.