UBXD2 is an integral membrane protein of the endoplasmic reticulum (ER) that binds valosin-containing protein (VCP; MIM 601023) and promotes ER-associated protein degradation (ERAD) (Liang et al., 2006 [PubMed 16968747]).[supplied by OMIM, Mar 2008]
Transcription factors with Perturb-seq knockdown data for UBXN4. 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 = UBXN4 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 UBXN4, 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 |
|---|---|---|---|---|
| chr2:135,530,003–135,532,319 | 210.5 kb | Distal (>10kb) Multiome | 1008 | |
| chr2:135,738,927–135,739,171 | 2.6 kb | Proximal (<10kb) | 12 | |
| chr2:135,741,176–135,742,744 | 3 bp | At TSS Multiome | 978 | |
| chr2:135,875,648–135,876,919 | 134.7 kb | Distal (>10kb) Multiome | 849 | |
| chr2:135,984,898–135,986,233 | 243.9 kb | Distal (>10kb) Multiome | 1057 | |
| chr2:135,997,201–135,997,833 | 255.8 kb | Distal (>10kb) Multiome | 160 | |
| chr2:136,025,017–136,026,218 | 283.9 kb | Distal (>10kb) Multiome | 322 |
Genomic view of the UBXN4 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.