This gene is a member of the synapsin gene family. Synapsins encode neuronal phosphoproteins which associate with the cytoplasmic surface of synaptic vesicles. Family members are characterized by common protein domains, and they are implicated in synaptogenesis and the modulation of neurotransmitter release, suggesting a potential role in several neuropsychiatric diseases. This member of the synapsin family encodes a neuron-specific phosphoprotein that selectively binds to small synaptic vesicles in the presynaptic nerve terminal. Polymorphisms in this gene are associated with abnormal presynaptic function and related neuronal disorders, including autism, epilepsy, bipolar disorder and schizophrenia. Alternative splicing of this gene results in multiple transcript variants. The tissue inhibitor of metalloproteinase 4 gene is located within an intron of this gene and is transcribed in the opposite direction. [provided by RefSeq, Feb 2014]
Transcription factors with Perturb-seq knockdown data for SYN2. 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 = SYN2 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 SYN2, 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 |
|---|---|---|---|---|
| chr3:11,718,742–11,720,867 | 284.8 kb | Distal (>10kb) Multiome | 845 | |
| chr3:11,770,323–11,771,120 | 233.8 kb | Distal (>10kb) Multiome | 481 | |
| chr3:11,846,284–11,847,247 | 157.5 kb | Distal (>10kb) Multiome | 833 | |
| chr3:11,995,145–11,995,312 | 9.1 kb | Proximal (<10kb) | 90 | |
| chr3:12,003,835–12,005,168 | 8 bp | At TSS Multiome | 297 | |
| chr3:12,158,493–12,159,658 | 154.8 kb | Distal (>10kb) Multiome | 334 | |
| chr3:12,287,512–12,289,112 | 283.5 kb | Distal (>10kb) Multiome | 592 | |
| chr3:12,444,448–12,445,657 | 440.6 kb | Distal (>10kb) Multiome HiCAR | 551 | |
| chr3:12,483,888–12,485,008 | 480.1 kb | Distal (>10kb) Multiome HiCAR | 832 |
Genomic view of the SYN2 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.