This gene encodes a member of the U-box ubiquitin ligase family. The encoded protein is involved in multiubiquitin chain assembly and plays a critical role in chromosome condensation and separation through the polyubiquitination of securin. Autoantibodies against the encoded protein may be markers for scleroderma and Crohn's disease. A pseudogene of this gene is located on the long arm of chromosome 3. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Feb 2011]
Transcription factors with Perturb-seq knockdown data for UBE4A. 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 = UBE4A 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 UBE4A, 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 |
|---|---|---|---|---|
| chr11:118,145,213–118,146,237 | 214.0 kb | Distal (>10kb) Multiome | 567 | |
| chr11:118,152,392–118,153,276 | 206.7 kb | Distal (>10kb) Multiome | 297 | |
| chr11:118,171,543–118,172,070 | 187.8 kb | Distal (>10kb) Multiome | 332 | |
| chr11:118,359,034–118,359,890 | 44 bp | At TSS Multiome | 779 | |
| chr11:118,401,086–118,402,051 | 41.9 kb | Distal (>10kb) Multiome | 732 | |
| chr11:118,434,505–118,437,761 | 76.7 kb | Distal (>10kb) Multiome | 1053 | |
| chr11:118,530,432–118,531,848 | 171.5 kb | Distal (>10kb) Multiome | 763 | |
| chr11:118,571,906–118,572,919 | 212.8 kb | Distal (>10kb) Multiome | 760 | |
| chr11:118,610,391–118,611,672 | 251.7 kb | Distal (>10kb) Multiome | 488 | |
| chr11:118,620,694–118,621,880 | 261.8 kb | Distal (>10kb) Multiome | 683 | |
| chr11:118,634,418–118,635,567 | 275.4 kb | Distal (>10kb) Multiome | 475 | |
| chr11:118,659,166–118,660,029 | 300.1 kb | Distal (>10kb) Multiome | 459 |
Genomic view of the UBE4A 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.