RNA polymerases are unable to initiate RNA synthesis in the absence of additional proteins called general transcription factors (GTFs). GTFs assemble in a complex on the DNA promoter and recruit the RNA polymerase. GTF3C family proteins (e.g., GTF3C1, MIM 603246) are essential for RNA polymerase III to make a number of small nuclear and cytoplasmic RNAs, including 5S RNA (MIM 180420), tRNA, and adenovirus-associated (VA) RNA of both cellular and viral origin.[supplied by OMIM, Mar 2008]
Transcription factors with Perturb-seq knockdown data for GTF3C6. 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 = GTF3C6 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 GTF3C6, 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 |
|---|---|---|---|---|
| chr6:110,511,262–110,512,278 | 447.0 kb | Distal (>10kb) Multiome HiCAR | 164 | |
| chr6:110,618,379–110,619,138 | 339.9 kb | Distal (>10kb) Multiome HiCAR | 186 | |
| chr6:110,786,496–110,787,137 | 171.8 kb | Distal (>10kb) Multiome | 18 | |
| chr6:110,814,145–110,816,325 | 143.0 kb | Distal (>10kb) Multiome | 1024 | |
| chr6:110,873,984–110,876,719 | 82.4 kb | Distal (>10kb) Multiome | 1070 | |
| chr6:110,958,321–110,959,190 | 14 bp | At TSS Multiome | 984 | |
| chr6:110,981,592–110,982,485 | 23.3 kb | Distal (>10kb) Multiome | 968 | |
| chr6:111,033,760–111,034,293 | 75.3 kb | Distal (>10kb) Multiome | 47 | |
| chr6:111,087,119–111,088,655 | 128.8 kb | Distal (>10kb) Multiome | 637 | |
| chr6:111,091,616–111,092,325 | 133.2 kb | Distal (>10kb) Multiome | 90 | |
| chr6:111,251,962–111,252,726 | 293.5 kb | Distal (>10kb) Multiome | 110 |
Genomic view of the GTF3C6 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.