This gene encodes a phosphoinositide phosphatase that regulates levels of membrane phosphatidylinositol-4,5-bisphosphate. As such, expression of this enzyme may affect synaptic transmission and membrane trafficking. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2011]
Transcription factors with Perturb-seq knockdown data for SYNJ1. 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 = SYNJ1 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 SYNJ1, 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 |
|---|---|---|---|---|
| chr21:32,432,983–32,433,635 | 294.6 kb | Distal (>10kb) Multiome | 99 | |
| chr21:32,569,288–32,570,076 | 158.2 kb | Distal (>10kb) Multiome | 731 | |
| chr21:32,612,057–32,613,158 | 115.3 kb | Distal (>10kb) Multiome | 971 | |
| chr21:32,727,289–32,728,748 | 179 bp | At TSS Multiome | 944 | |
| chr21:32,739,948–32,740,414 | 12.2 kb | Distal (>10kb) Multiome | 12 | |
| chr21:32,770,875–32,772,328 | 44.0 kb | Distal (>10kb) Multiome | 1027 | |
| chr21:33,025,114–33,026,163 | 297.8 kb | Distal (>10kb) Multiome | 320 | |
| chr21:33,027,208–33,027,934 | 299.7 kb | Distal (>10kb) Multiome | 107 |
Genomic view of the SYNJ1 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.