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: E1 ubiquitin-activating enzymes, E2 ubiquitin-conjugating enzymes, and E3 ubiquitin-protein ligases. This gene encodes a member of the E3 ubiquitin-conjugating enzyme family which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme and transfers the ubiquitin to the targeted substrates. A HECT (homology to E6-AP C-terminus) domain in the C-terminus of the longer isoform of this protein is the catalytic site of ubiquitin transfer and forms a complex with E2 conjugases. Shorter isoforms of this protein which lack the C-terminal HECT domain are therefore unlikely to bind E2 enzymes. Alternatively spliced transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2012]
Transcription factors with Perturb-seq knockdown data for UBE3B. 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 = UBE3B 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 UBE3B, 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 |
|---|---|---|---|---|
| chr12:109,308,986–109,310,221 | 168.3 kb | Distal (>10kb) Multiome | 331 | |
| chr12:109,476,943–109,477,929 | 228 bp | At TSS Multiome | 911 | |
| chr12:109,573,025–109,574,078 | 96.0 kb | Distal (>10kb) Multiome | 1005 | |
| chr12:109,597,611–109,598,240 | 120.3 kb | Distal (>10kb) Multiome | 536 | |
| chr12:109,679,688–109,680,306 | 202.5 kb | Distal (>10kb) Multiome | 69 | |
| chr12:109,697,996–109,698,635 | 220.7 kb | Distal (>10kb) Multiome | 115 | |
| chr12:109,713,288–109,715,156 | 236.1 kb | Distal (>10kb) Multiome | 793 | |
| chr12:109,717,933–109,718,896 | 240.9 kb | Distal (>10kb) Multiome | 199 | |
| chr12:109,737,442–109,738,212 | 260.3 kb | Distal (>10kb) Multiome | 231 | |
| chr12:109,739,699–109,741,057 | 262.6 kb | Distal (>10kb) Multiome | 245 |
Genomic view of the UBE3B 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.