This gene encodes an essential component of the DNA damage checkpoint. The encoded protein binds to single-stranded DNA coated with replication protein A. The protein also interacts with the ataxia telangiectasia and Rad3 related protein kinase, resulting in its accumulation at intranuclear foci induced by DNA damage. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Aug 2012]
Transcription factors with Perturb-seq knockdown data for ATRIP. 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 = ATRIP 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 ATRIP, 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 |
|---|---|---|---|---|
| chr3:48,187,500–48,188,989 | 258.2 kb | Distal (>10kb) Multiome | 820 | |
| chr3:48,240,728–48,241,473 | 205.6 kb | Distal (>10kb) Multiome HiCAR | 843 | |
| chr3:48,300,947–48,301,746 | 145.3 kb | Distal (>10kb) Multiome | 954 | |
| chr3:48,372,864–48,373,543 | 73.5 kb | Distal (>10kb) Multiome | 49 | |
| chr3:48,428,528–48,430,504 | 16.7 kb | Distal (>10kb) Multiome | 910 | |
| chr3:48,439,801–48,440,548 | 6.5 kb | Proximal (<10kb) Multiome | 787 | |
| chr3:48,446,396–48,447,180 | 50 bp | At TSS Multiome | 767 | |
| chr3:48,465,344–48,466,310 | 19.0 kb | Distal (>10kb) Multiome | 670 | |
| chr3:48,472,636–48,473,658 | 26.5 kb | Distal (>10kb) Multiome | 821 | |
| chr3:48,503,451–48,504,839 | 57.4 kb | Distal (>10kb) Multiome | 419 | |
| chr3:48,556,022–48,557,666 | 110.3 kb | Distal (>10kb) Multiome | 794 | |
| chr3:48,558,131–48,558,793 | 111.7 kb | Distal (>10kb) Multiome | 503 | |
| chr3:48,608,816–48,610,628 | 162.9 kb | Distal (>10kb) Multiome | 850 | |
| chr3:48,634,696–48,636,251 | 188.9 kb | Distal (>10kb) Multiome | 898 | |
| chr3:48,655,787–48,657,257 | 209.7 kb | Distal (>10kb) Multiome | 438 | |
| chr3:48,661,275–48,664,636 | 215.0 kb | Distal (>10kb) Multiome | 1248 | |
| chr3:48,685,362–48,686,531 | 239.2 kb | Distal (>10kb) Multiome | 770 | |
| chr3:48,716,958–48,717,863 | 270.6 kb | Distal (>10kb) Multiome | 634 |
Genomic view of the ATRIP 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.