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 an additional conjugation factor, E4, which is involved in multiubiquitin chain assembly. This gene is also the strongest candidate in the neuroblastoma tumor suppressor genes. 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 UBE4B. 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 = UBE4B 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 UBE4B, 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 |
|---|---|---|---|---|
| chr1:9,823,213–9,824,739 | 208.9 kb | Distal (>10kb) Multiome | 652 | |
| chr1:9,874,956–9,875,558 | 157.8 kb | Distal (>10kb) Multiome | 397 | |
| chr1:9,909,556–9,911,240 | 122.5 kb | Distal (>10kb) Multiome | 791 | |
| chr1:9,942,849–9,943,619 | 89.6 kb | Distal (>10kb) Multiome | 1015 | |
| chr1:10,032,377–10,033,814 | 92 bp | At TSS Multiome | 891 | |
| chr1:10,209,800–10,211,585 | 177.5 kb | Distal (>10kb) Multiome | 934 |
Genomic view of the UBE4B 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.