Enables RNA polymerase II-specific DNA-binding transcription factor binding activity and identical protein binding activity. Involved in positive regulation of DNA-templated transcription. Located in cytoplasm. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for NIF3L1. 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 = NIF3L1 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 NIF3L1, 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 |
|---|---|---|---|---|
| chr2:200,648,397–200,649,297 | 240.6 kb | Distal (>10kb) Multiome | 229 | |
| chr2:200,713,048–200,713,472 | 176.1 kb | Distal (>10kb) Multiome | 763 | |
| chr2:200,736,302–200,737,549 | 152.4 kb | Distal (>10kb) Multiome | 210 | |
| chr2:200,810,854–200,812,782 | 77.8 kb | Distal (>10kb) Multiome | 1048 | |
| chr2:200,863,766–200,865,261 | 24.7 kb | Distal (>10kb) Multiome | 1111 | |
| chr2:200,888,532–200,889,950 | 24 bp | At TSS Multiome | 1108 | |
| chr2:200,962,915–200,964,242 | 74.3 kb | Distal (>10kb) Multiome | 1021 | |
| chr2:201,071,202–201,072,338 | 182.4 kb | Distal (>10kb) Multiome | 993 | |
| chr2:201,090,426–201,091,071 | 201.4 kb | Distal (>10kb) Multiome | 68 | |
| chr2:201,116,279–201,117,190 | 227.3 kb | Distal (>10kb) Multiome | 907 | |
| chr2:201,118,264–201,119,153 | 229.4 kb | Distal (>10kb) Multiome | 863 | |
| chr2:201,125,205–201,126,756 | 237.0 kb | Distal (>10kb) Multiome | 696 | |
| chr2:201,157,926–201,158,657 | 269.0 kb | Distal (>10kb) Multiome | 540 | |
| chr2:201,182,711–201,183,380 | 293.7 kb | Distal (>10kb) Multiome | 624 |
Genomic view of the NIF3L1 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.