Predicted to enable PDZ domain binding activity. Predicted to be involved in regulation of postsynaptic neurotransmitter receptor activity and regulation of short-term neuronal synaptic plasticity. Predicted to act upstream of or within regulation of AMPA receptor activity. Predicted to be located in synapse. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in dendritic spine membrane; glutamatergic synapse; and postsynaptic density membrane. [provided by Alliance of Genome Resources, Apr 2025]
Transcription factors with Perturb-seq knockdown data for SHISA9. 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 = SHISA9 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 SHISA9, 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 |
|---|---|---|---|---|
| chr16:12,775,760–12,776,224 | 125.6 kb | Distal (>10kb) Multiome | 45 | |
| chr16:12,803,162–12,804,087 | 97.8 kb | Distal (>10kb) Multiome | 1141 | |
| chr16:12,900,356–12,902,356 | 100 bp | At TSS Multiome | 255 | |
| chr16:12,903,052–12,903,314 | 1.5 kb | Proximal (<10kb) | 85 | |
| chr16:12,903,554–12,903,727 | 2.0 kb | Proximal (<10kb) | 31 | |
| chr16:13,070,291–13,070,801 | 168.9 kb | Distal (>10kb) Multiome | 60 | |
| chr16:13,324,720–13,325,207 | 423.5 kb | Distal (>10kb) Multiome HiCAR | 18 |
Genomic view of the SHISA9 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.