This gene is a member of the calsyntenin family, a subset of the cadherin superfamily. The encoded transmembrane protein, also known as alcadein-alpha, is thought to bind to kinesin-1 motors to mediate the axonal anterograde transport of certain types of vesicle. Amyloid precursor protein (APP) is trafficked via these vesicles and so this protein is being investigated to see how it might contribute to the mechanisms underlying Alzheimer's disease. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2014]
Transcription factors with Perturb-seq knockdown data for CLSTN1. 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 = CLSTN1 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 CLSTN1, 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 |
|---|---|---|---|---|
| chr1:9,538,797–9,540,343 | 284.6 kb | Distal (>10kb) Multiome | 879 | |
| chr1:9,588,272–9,589,797 | 235.3 kb | Distal (>10kb) Multiome | 633 | |
| chr1:9,593,403–9,593,904 | 230.4 kb | Distal (>10kb) Multiome | 326 | |
| chr1:9,627,002–9,627,511 | 196.8 kb | Distal (>10kb) Multiome | 773 | |
| chr1:9,651,631–9,652,549 | 171.9 kb | Distal (>10kb) Multiome | 373 | |
| chr1:9,687,158–9,688,089 | 136.4 kb | Distal (>10kb) Multiome | 575 | |
| chr1:9,688,950–9,690,301 | 134.4 kb | Distal (>10kb) Multiome | 585 | |
| chr1:9,823,213–9,824,739 | 92 bp | At TSS Multiome | 652 | |
| chr1:9,825,436–9,825,850 | 1.5 kb | Proximal (<10kb) | 354 | |
| chr1:9,874,956–9,875,558 | 51.1 kb | Distal (>10kb) Multiome | 397 | |
| chr1:9,909,556–9,911,240 | 86.5 kb | Distal (>10kb) Multiome | 791 | |
| chr1:9,942,849–9,943,619 | 119.3 kb | Distal (>10kb) Multiome | 1015 | |
| chr1:10,032,377–10,033,814 | 208.9 kb | Distal (>10kb) Multiome | 891 |
Genomic view of the CLSTN1 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.