The protein encoded by this gene is a type IV membrane protein. It is present in the plasma membrane and intracellular vesicles. It may also be associated with the cytoskeleton. This protein may function in vesicle trafficking, membrane fusion, protein complex assembly and cell motility. Alternative splicing occurs at this locus and two transcript variants encoding distinct isoforms have been identified. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for VAPA. 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 = VAPA 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 VAPA, 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 |
|---|---|---|---|---|
| chr18:9,613,721–9,615,403 | 299.1 kb | Distal (>10kb) Multiome | 740 | |
| chr18:9,700,207–9,700,899 | 213.5 kb | Distal (>10kb) Multiome | 297 | |
| chr18:9,707,924–9,708,548 | 205.8 kb | Distal (>10kb) Multiome | 464 | |
| chr18:9,876,800–9,877,632 | 36.6 kb | Distal (>10kb) Multiome | 502 | |
| chr18:9,913,270–9,915,160 | 166 bp | At TSS Multiome | 983 | |
| chr18:10,032,431–10,032,888 | 118.6 kb | Distal (>10kb) Multiome | 165 | |
| chr18:10,131,837–10,132,366 | 218.0 kb | Distal (>10kb) Multiome | 250 |
Genomic view of the VAPA 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.