This gene produces a spliced long non-coding RNA and is a member of the 5' terminal oligo-pyrimidine class of genes. It is a small nucleolar RNA host gene, containing multiple C/D box snoRNA genes in its introns. Part of the secondary RNA structure of the encoded transcript mimics glucocorticoid response element (GRE) which means it can bind to the DNA binding domain of the glucocorticoid receptor (nuclear receptor subfamily 3, group C, member 1). This action blocks the glucocorticoid receptor from being activated and thereby stops it from regulating the transcription of its target genes. This transcript is also thought to regulate the transcriptional activity of other receptors, such as androgen, progesterone and mineralocorticoid receptors, that can bind to its GRE mimic region. Multiple functions have been associated with this transcript, including cellular growth arrest and apoptosis. It has also been identified as a potential tumor suppressor, with its down-regulation associated with cancer in multiple different tissues. [provided by RefSeq, Mar 2015]
Transcription factors with Perturb-seq knockdown data for GAS5. 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 = GAS5 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 GAS5, 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 |
|---|---|---|---|---|
| chr1:172,544,331–172,545,606 | 1323.0 kb | Distal (>10kb) Multiome HiCAR | 138 | |
| chr1:173,669,068–173,669,991 | 198.3 kb | Distal (>10kb) Multiome | 247 | |
| chr1:173,714,634–173,715,651 | 153.0 kb | Distal (>10kb) Multiome | 1013 | |
| chr1:173,824,030–173,825,369 | 43.4 kb | Distal (>10kb) Multiome | 904 | |
| chr1:173,852,512–173,853,711 | 14.9 kb | Distal (>10kb) Multiome | 358 | |
| chr1:173,859,027–173,863,516 | 5.3 kb | Proximal (<10kb) Multiome | 578 | |
| chr1:173,866,947–173,869,294 | 409 bp | At TSS Multiome | 1182 | |
| chr1:174,021,545–174,024,235 | 154.3 kb | Distal (>10kb) Multiome | 1001 | |
| chr1:174,158,556–174,160,514 | 291.5 kb | Distal (>10kb) Multiome | 924 |
Genomic view of the GAS5 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.