This gene encodes a member of the AAA ATPase family of proteins. The encoded protein plays a role in protein degradation, intracellular membrane fusion, DNA repair and replication, regulation of the cell cycle, and activation of the NF-kappa B pathway. This protein forms a homohexameric complex that interacts with a variety of cofactors and extracts ubiquitinated proteins from lipid membranes or protein complexes. Mutations in this gene cause IBMPFD (inclusion body myopathy with paget disease of bone and frontotemporal dementia), ALS (amyotrophic lateral sclerosis) and Charcot-Marie-Tooth disease in human patients. [provided by RefSeq, Aug 2017]
Transcription factors with Perturb-seq knockdown data for VCP. 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 = VCP 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 VCP, 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 |
|---|---|---|---|---|
| chr9:34,957,639–34,958,516 | 114.5 kb | Distal (>10kb) Multiome | 211 | |
| chr9:34,988,494–34,990,699 | 83.0 kb | Distal (>10kb) Multiome | 703 | |
| chr9:35,026,200–35,027,109 | 45.8 kb | Distal (>10kb) Multiome | 187 | |
| chr9:35,071,688–35,073,229 | 612 bp | At TSS Multiome | 975 | |
| chr9:35,079,435–35,080,247 | 7.3 kb | Proximal (<10kb) Multiome | 773 | |
| chr9:35,095,921–35,096,910 | 23.8 kb | Distal (>10kb) Multiome | 960 | |
| chr9:35,102,684–35,103,800 | 30.6 kb | Distal (>10kb) Multiome | 886 | |
| chr9:35,110,953–35,112,122 | 39.0 kb | Distal (>10kb) Multiome | 527 | |
| chr9:35,113,899–35,117,460 | 44.7 kb | Distal (>10kb) Multiome | 840 | |
| chr9:35,161,521–35,162,743 | 89.3 kb | Distal (>10kb) Multiome | 827 |
Genomic view of the VCP 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.