SYT2
synaptotagmin 2

This gene encodes a synaptic vesicle membrane protein. The encoded protein is thought to function as a calcium sensor in vesicular trafficking and exocytosis. Mutations in this gene are associated with myasthenic syndrome, presynaptic, congenital, with or without motor neuropathy. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2014]

Developmental clusters: GC5
Biological processes 25 terms
SNARE binding (GO:0000149)axon (GO:0030424)calcium ion sensor activity (GO:0061891)calcium-dependent activation of synaptic vesicle fusion (GO:0099502)calcium-dependent phospholipid binding (GO:0005544)calcium-dependent phospholipid binding (GO:0005544)chromaffin granule membrane (GO:0042584)clathrin-coated endocytic vesicle membrane (GO:0030669)clathrin-coated endocytic vesicle membrane (GO:0030669)cytoplasm (GO:0005737)dense core granule (GO:0031045)exocytic vesicle (GO:0070382)inositol 1,3,4,5 tetrakisphosphate binding (GO:0043533)membrane (GO:0016020)plasma membrane (GO:0005886)plasma membrane (GO:0005886)positive regulation of dendrite extension (GO:1903861)positive regulation of dendrite extension (GO:1903861)protein binding (GO:0005515)regulation of calcium ion-dependent exocytosis (GO:0017158)regulation of synaptic vesicle exocytosis (GO:2000300)synaptic vesicle membrane (GO:0030672)synaptic vesicle membrane (GO:0030672)synaptic vesicle membrane (GO:0030672)vesicle-mediated transport (GO:0016192)
Expression (TPM)
SYT2 — as a Regulated Gene

TFs regulating SYT2 0 TFs

Transcription factors with Perturb-seq knockdown data for SYT2. 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 = SYT2 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to SYT2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SYT2, 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
chr1:202,184,705–202,185,268 525.5 kb Distal (>10kb) Multiome HiCAR 258
chr1:202,214,010–202,214,579 496.1 kb Distal (>10kb) Multiome HiCAR 215
chr1:202,341,446–202,342,246 368.4 kb Distal (>10kb) Multiome HiCAR 728
chr1:202,348,195–202,349,447 361.8 kb Distal (>10kb) Multiome HiCAR 898
chr1:202,638,017–202,638,513 72.1 kb Distal (>10kb) Multiome 19
chr1:202,643,050–202,644,080 66.6 kb Distal (>10kb) Multiome 115
chr1:202,709,842–202,710,859 15 bp At TSS Multiome 255
chr1:202,711,859–202,712,230 1.4 kb Proximal (<10kb) 26
chr1:202,719,653–202,719,908 9.2 kb Proximal (<10kb) 272
chr1:202,806,787–202,808,806 98.0 kb Distal (>10kb) Multiome 869
chr1:202,810,279–202,811,748 100.4 kb Distal (>10kb) Multiome 933
chr1:202,818,850–202,819,302 108.6 kb Distal (>10kb) Multiome 40
chr1:202,860,760–202,862,216 151.2 kb Distal (>10kb) Multiome 695
chr1:202,888,353–202,889,540 178.5 kb Distal (>10kb) Multiome 894
chr1:202,926,591–202,927,689 216.8 kb Distal (>10kb) Multiome 1072
chr1:202,957,716–202,958,953 247.9 kb Distal (>10kb) Multiome 787
chr1:202,966,422–202,967,948 256.9 kb Distal (>10kb) Multiome 536
chr1:203,005,211–203,007,890 295.1 kb Distal (>10kb) Multiome 874

Genome Browser

Genomic view of the SYT2 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.

chr1:202,174,705 – 203,017,890
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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