Secretory carrier membrane proteins (SCAMPs) are widely distributed integral membrane proteins implicated in membrane trafficking. Most SCAMPs (e.g., SCAMP1; MIM 606911) have N-terminal cytoplasmic NPF (arg-pro-phe) repeats, 4 central transmembrane regions, and a short C-terminal cytoplasmic tail. These SCAMPs likely have a role in endocytosis that is mediated by their NPF repeats. Other SCAMPs, such as SCAMP4, lack the NPF repeats and are therefore unlikely to function in endocytosis (summary by Fernandez-Chacon and Sudhof, 2000 [PubMed 11050114]).[supplied by OMIM, Feb 2011]
Transcription factors with Perturb-seq knockdown data for SCAMP4. 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 = SCAMP4 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 SCAMP4, 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 |
|---|---|---|---|---|
| chr19:1,604,859–1,606,501 | 299.7 kb | Distal (>10kb) Multiome | 902 | |
| chr19:1,651,519–1,653,514 | 252.5 kb | Distal (>10kb) Multiome | 909 | |
| chr19:1,725,307–1,726,101 | 179.7 kb | Distal (>10kb) Multiome | 455 | |
| chr19:1,811,638–1,813,347 | 92.8 kb | Distal (>10kb) Multiome | 782 | |
| chr19:1,826,853–1,827,379 | 78.2 kb | Distal (>10kb) Multiome | 193 | |
| chr19:1,848,048–1,848,953 | 56.7 kb | Distal (>10kb) Multiome | 819 | |
| chr19:1,851,701–1,852,216 | 53.4 kb | Distal (>10kb) Multiome | 115 | |
| chr19:1,855,082–1,856,620 | 49.9 kb | Distal (>10kb) Multiome | 476 | |
| chr19:1,861,439–1,865,723 | 41.4 kb | Distal (>10kb) Multiome | 891 | |
| chr19:1,875,645–1,876,693 | 29.2 kb | Distal (>10kb) Multiome | 887 | |
| chr19:1,885,058–1,885,861 | 19.9 kb | Distal (>10kb) Multiome | 495 | |
| chr19:1,897,566–1,897,930 | 7.5 kb | Proximal (<10kb) | 854 | |
| chr19:1,904,556–1,906,084 | 59 bp | At TSS Multiome | 907 | |
| chr19:1,940,240–1,942,987 | 35.6 kb | Distal (>10kb) Multiome | 901 | |
| chr19:2,034,637–2,035,967 | 129.7 kb | Distal (>10kb) Multiome | 368 | |
| chr19:2,041,744–2,042,811 | 136.8 kb | Distal (>10kb) Multiome | 586 | |
| chr19:2,049,171–2,052,365 | 145.9 kb | Distal (>10kb) Multiome | 977 | |
| chr19:2,060,703–2,062,560 | 156.2 kb | Distal (>10kb) Multiome | 913 | |
| chr19:2,095,898–2,097,954 | 191.3 kb | Distal (>10kb) Multiome | 945 | |
| chr19:2,150,726–2,152,200 | 246.3 kb | Distal (>10kb) Multiome | 761 | |
| chr19:2,163,561–2,164,587 | 258.5 kb | Distal (>10kb) Multiome | 750 |
Genomic view of the SCAMP4 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.