This gene produces a long RNA containing a repeating sequence. This RNA interacts with heterogeneous nuclear ribonucleoprotein U and coats chromosomes, where it plays an important role in the maintenance of repressive chromatin. This transcript can also act post-transcriptionally to regulate the stability of mRNAs during the innate immune response. [provided by RefSeq, Dec 2017]
Transcription factors with Perturb-seq knockdown data for FIRRE. 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 = FIRRE 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 FIRRE, 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 |
|---|---|---|---|---|
| chrX:131,828,032–131,828,310 | 2.3 kb | Proximal (<10kb) | 139 | |
| chrX:131,830,409–131,831,150 | 143 bp | At TSS Multiome | 630 | |
| chrX:132,022,650–132,024,225 | 192.6 kb | Distal (>10kb) Multiome | 634 | |
| chrX:132,217,117–132,218,510 | 386.9 kb | Distal (>10kb) Multiome HiCAR | 709 | |
| chrX:132,489,302–132,490,128 | 659.0 kb | Distal (>10kb) Multiome HiCAR | 444 |
Genomic view of the FIRRE 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.