This gene encodes GTPase-activating protein for ras-related p21-rac and a phorbol ester receptor. It is predominantly expressed in neurons, and plays an important role in neuronal signal-transduction mechanisms. Mutations in this gene are associated with Duane's retraction syndrome 2 (DURS2). Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Apr 2011]
Transcription factors with Perturb-seq knockdown data for CHN1. 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 = CHN1 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 CHN1, 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 |
|---|---|---|---|---|
| chr2:174,681,628–174,683,737 | 322.5 kb | Distal (>10kb) Multiome | 464 | |
| chr2:174,729,757–174,730,844 | 275.1 kb | Distal (>10kb) Multiome HiCAR | 185 | |
| chr2:174,771,448–174,772,436 | 233.5 kb | Distal (>10kb) Multiome HiCAR | 457 | |
| chr2:174,788,536–174,789,234 | 216.7 kb | Distal (>10kb) Multiome | 107 | |
| chr2:174,847,531–174,847,775 | at TSS | At TSS | 104 | |
| chr2:174,925,097–174,925,704 | 79.8 kb | Distal (>10kb) Multiome | 80 | |
| chr2:175,004,425–175,005,846 | 99 bp | At TSS Multiome | 671 | |
| chr2:175,167,310–175,168,864 | 163.0 kb | Distal (>10kb) Multiome | 1063 | |
| chr2:175,180,872–175,182,073 | 176.3 kb | Distal (>10kb) Multiome | 1051 | |
| chr2:175,276,744–175,277,617 | 271.8 kb | Distal (>10kb) Multiome | 69 | |
| chr2:176,091,485–176,093,664 | 1087.3 kb | Distal (>10kb) Multiome HiCAR | 351 | |
| chr2:176,096,693–176,099,096 | 1092.3 kb | Distal (>10kb) Multiome HiCAR | 661 |
Genomic view of the CHN1 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.