This gene encodes a transcription termination factor that is localized to the nucleolus and plays a critical role in ribosomal gene transcription. The encoded protein mediates the termination of RNA polymerase I transcription by binding to Sal box terminator elements downstream of pre-rRNA coding regions. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. This gene shares the symbol/alias 'TFF1' with another gene, NK2 homeobox 1, also known as thyroid transcription factor 1, which plays a role in the regulation of thyroid-specific gene expression. [provided by RefSeq, Apr 2011]
Transcription factors with Perturb-seq knockdown data for TTF1. 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 = TTF1 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 TTF1, 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 |
|---|---|---|---|---|
| chr9:132,239,978–132,242,316 | 165.6 kb | Distal (>10kb) Multiome | 555 | |
| chr9:132,259,091–132,259,539 | 147.5 kb | Distal (>10kb) Multiome | 443 | |
| chr9:132,354,395–132,355,656 | 51.7 kb | Distal (>10kb) Multiome | 895 | |
| chr9:132,406,761–132,407,013 | at TSS | At TSS | 512 | |
| chr9:132,407,308–132,407,509 | 468 bp | At TSS | 30 | |
| chr9:132,409,879–132,410,471 | 3.2 kb | Proximal (<10kb) Multiome | 293 | |
| chr9:132,411,065–132,411,553 | 4.4 kb | Proximal (<10kb) Multiome | 342 | |
| chr9:132,412,208–132,412,387 | 5.4 kb | Proximal (<10kb) | 109 | |
| chr9:132,582,095–132,582,589 | 175.4 kb | Distal (>10kb) Multiome | 938 | |
| chr9:132,669,401–132,670,935 | 263.5 kb | Distal (>10kb) Multiome | 1040 |
Genomic view of the TTF1 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.