The accumulation of unfolded proteins in the endoplasmic reticulum (ER) triggers the ER stress response. This response includes the inhibition of translation to prevent further accumulation of unfolded proteins, the increased expression of proteins involved in polypeptide folding, known as the unfolded protein response (UPR), and the destruction of misfolded proteins by the ER-associated protein degradation (ERAD) system. This gene may play a role in both UPR and ERAD. Its expression is induced by UPR and it has an ER stress response element in its promoter region while the encoded protein has an N-terminal ubiquitin-like domain which may interact with the ERAD system. This protein has been shown to interact with presenilin proteins and to increase the level of amyloid-beta protein following its overexpression. Alternative splicing of this gene produces multiple transcript variants encoding different isoforms. The full-length nature of all transcript variants has not been determined. [provided by RefSeq, Jan 2013]
Transcription factors with Perturb-seq knockdown data for HERPUD1. 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 = HERPUD1 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 HERPUD1, 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 |
|---|---|---|---|---|
| chr16:56,632,101–56,632,676 | 299.7 kb | Distal (>10kb) Multiome | 180 | |
| chr16:56,657,372–56,658,310 | 274.4 kb | Distal (>10kb) Multiome | 494 | |
| chr16:56,668,023–56,668,619 | 264.0 kb | Distal (>10kb) Multiome | 379 | |
| chr16:56,675,665–56,676,180 | 256.3 kb | Distal (>10kb) Multiome | 97 | |
| chr16:56,681,954–56,682,716 | 249.8 kb | Distal (>10kb) Multiome | 699 | |
| chr16:56,729,523–56,730,762 | 202.0 kb | Distal (>10kb) Multiome | 819 | |
| chr16:56,861,108–56,861,632 | 70.7 kb | Distal (>10kb) Multiome | 361 | |
| chr16:56,930,777–56,931,021 | 1.1 kb | Proximal (<10kb) | 101 | |
| chr16:56,931,455–56,933,141 | 58 bp | At TSS Multiome | 1047 | |
| chr16:56,989,388–56,989,907 | 57.4 kb | Distal (>10kb) Multiome | 646 | |
| chr16:57,092,097–57,093,443 | 160.6 kb | Distal (>10kb) Multiome | 584 | |
| chr16:57,185,577–57,186,853 | 254.1 kb | Distal (>10kb) Multiome | 925 |
Genomic view of the HERPUD1 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.