Predicted to enable channel regulator activity and signaling receptor binding activity. Involved in regulation of AMPA receptor activity. Predicted to be located in dendritic shaft and postsynaptic membrane. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in dendrite and glutamatergic synapse. [provided by Alliance of Genome Resources, Apr 2025]
Transcription factors with Perturb-seq knockdown data for CNIH3. 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 = CNIH3 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 CNIH3, 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 |
|---|---|---|---|---|
| chr1:224,182,841–224,184,249 | 251.7 kb | Distal (>10kb) Multiome | 901 | |
| chr1:224,329,851–224,330,705 | 104.6 kb | Distal (>10kb) Multiome | 865 | |
| chr1:224,356,549–224,357,612 | 78.0 kb | Distal (>10kb) Multiome | 791 | |
| chr1:224,434,594–224,435,312 | 36 bp | At TSS Multiome | 865 | |
| chr1:224,498,011–224,499,031 | 63.7 kb | Distal (>10kb) Multiome | 326 | |
| chr1:224,502,820–224,504,228 | 68.7 kb | Distal (>10kb) Multiome | 820 | |
| chr1:224,615,699–224,617,266 | 181.3 kb | Distal (>10kb) Multiome | 511 | |
| chr1:224,639,152–224,640,098 | 204.7 kb | Distal (>10kb) Multiome | 68 | |
| chr1:224,700,754–224,701,811 | 266.4 kb | Distal (>10kb) Multiome | 221 | |
| chr1:224,720,167–224,720,687 | 285.5 kb | Distal (>10kb) Multiome | 31 | |
| chr1:224,929,306–224,930,138 | 494.7 kb | Distal (>10kb) Multiome HiCAR | 992 |
Genomic view of the CNIH3 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.