This gene encodes a member of the Rad2/xeroderma pigmentosum group G nuclease family, whose members are characterized by N-terminal and internal xeroderma pigmentosum group G nuclease domains followed by helix-hairpin-helix domains and disordered C-terminal domains. The protein encoded by this gene is involved in resolution of Holliday junctions, which are intermediate four-way structures that covalently link DNA during homologous recombination and double-strand break repair. The protein resolves Holliday junctions by creating dual incisions across the junction to produce nicked duplex products that can be ligated. In addition, this protein has been found to localize to centrosomes where it has been implicated in regulation of centrosome integrity. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2016]
Transcription factors with Perturb-seq knockdown data for GEN1. 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 = GEN1 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 GEN1, 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 |
|---|---|---|---|---|
| chr2:17,517,918–17,518,924 | 235.4 kb | Distal (>10kb) Multiome | 501 | |
| chr2:17,538,445–17,541,363 | 213.3 kb | Distal (>10kb) Multiome | 1001 | |
| chr2:17,747,989–17,748,437 | 5.4 kb | Proximal (<10kb) | 60 | |
| chr2:17,752,946–17,754,742 | 56 bp | At TSS Multiome | 969 | |
| chr2:17,830,142–17,831,178 | 76.9 kb | Distal (>10kb) Multiome | 569 | |
| chr2:17,877,566–17,880,371 | 124.7 kb | Distal (>10kb) Multiome | 654 | |
| chr2:17,892,519–17,893,824 | 139.1 kb | Distal (>10kb) Multiome | 234 | |
| chr2:17,974,313–17,976,066 | 221.6 kb | Distal (>10kb) Multiome | 128 | |
| chr2:18,049,307–18,049,991 | 295.8 kb | Distal (>10kb) Multiome | 63 |
Genomic view of the GEN1 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.