This gene encodes a member of the glutamate-gated ion channel protein family. The encoded protein is an N-methyl-D-aspartate (NMDA) receptor subunit. NMDA receptors are both ligand-gated and voltage-dependent, and are involved in long-term potentiation, an activity-dependent increase in the efficiency of synaptic transmission thought to underlie certain kinds of memory and learning. These receptors are permeable to calcium ions, and activation results in a calcium influx into post-synaptic cells, which results in the activation of several signaling cascades. Disruption of this gene is associated with focal epilepsy and speech disorder with or without cognitive disability. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2014]
Transcription factors with Perturb-seq knockdown data for GRIN2A. 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 = GRIN2A 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 GRIN2A, 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 |
|---|---|---|---|---|
| chr16:9,370,057–9,370,636 | 810.4 kb | Distal (>10kb) Multiome HiCAR | 59 | |
| chr16:10,039,232–10,039,818 | 141.3 kb | Distal (>10kb) Multiome | 107 | |
| chr16:10,180,776–10,182,442 | 954 bp | At TSS Multiome | 514 | |
| chr16:10,182,598–10,183,674 | 1.8 kb | Proximal (<10kb) | 173 | |
| chr16:10,282,522–10,283,683 | 102.6 kb | Distal (>10kb) Multiome | 60 | |
| chr16:10,385,788–10,386,451 | 205.3 kb | Distal (>10kb) Multiome | 964 |
Genomic view of the GRIN2A 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.