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 E1 ubiquitin-activating enzyme family. The encoded enzyme associates with AppBp1, an amyloid beta precursor protein binding protein, to form a heterodimer, and then the enzyme complex activates NEDD8, a ubiquitin-like protein, which regulates cell division, signaling and embryogenesis. Multiple alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for UBA3. 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 = UBA3 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 UBA3, 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 |
|---|---|---|---|---|
| chr3:67,653,783–67,655,256 | 1425.8 kb | Distal (>10kb) Multiome HiCAR | 862 | |
| chr3:68,931,297–68,933,078 | 147.7 kb | Distal (>10kb) Multiome | 419 | |
| chr3:69,012,112–69,014,102 | 66.8 kb | Distal (>10kb) Multiome | 935 | |
| chr3:69,079,501–69,080,755 | 39 bp | At TSS Multiome | 569 | |
| chr3:69,084,409–69,085,904 | 4.6 kb | Proximal (<10kb) Multiome | 707 | |
| chr3:69,086,247–69,086,655 | 5.9 kb | Proximal (<10kb) | 273 | |
| chr3:69,288,126–69,288,883 | 208.1 kb | Distal (>10kb) Multiome | 254 | |
| chr3:69,290,108–69,290,999 | 210.3 kb | Distal (>10kb) Multiome | 171 |
Genomic view of the UBA3 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.