This gene encodes a single-pass type I membrane protein that belongs to the neurexin family. Neurexins are cell-surface receptors that bind neuroligins to form Ca(2+)-dependent neurexin/neuroligin complexes at synapses in the central nervous system. This complex is required for efficient neurotransmission and is involved in the formation of synaptic contacts. Three members of this gene family have been studied in detail and are estimated to generate over 3,000 variants through the use of two alternative promoters (alpha and beta) and extensive alternative splicing in each family member. Recently, a third promoter (gamma) was identified for this gene in the 3' region. Mutations in this gene are associated with Pitt-Hopkins-like syndrome-2 and may contribute to susceptibility to schizophrenia. [provided by RefSeq, Aug 2016]
Transcription factors with Perturb-seq knockdown data for NRXN1. 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 = NRXN1 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 NRXN1, 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 |
|---|---|---|---|---|
| chr2:50,863,295–50,864,538 | 168.6 kb | Distal (>10kb) Multiome | 188 | |
| chr2:51,025,839–51,026,627 | 5.5 kb | Proximal (<10kb) | 30 | |
| chr2:51,028,353–51,028,982 | 3.1 kb | Proximal (<10kb) | 43 | |
| chr2:51,030,350–51,030,525 | 1.6 kb | Proximal (<10kb) | 48 | |
| chr2:51,031,546–51,033,214 | 173 bp | At TSS Multiome | 334 | |
| chr2:51,075,499–51,076,405 | 43.4 kb | Distal (>10kb) Multiome | 65 |
Genomic view of the NRXN1 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.