The product of this intronless gene is a capped lncRNA that is nuclear-enriched and associated with chromatin. The encoded transcript may be involved in the regulation of developmental gene expression in a context-dependent manner, functioning as a repressor in non-pluripotent cells and an activator in pluripotent cells. Transcription of this gene is activated in 8-cell human embryos during the major wave of zygotic genome activation, independently of and prior to the activation of TFAP2A, an overlapping gene found on the opposite strand. Expression of this gene is characterized by high cell-to-cell variability in the cells of totipotent human embryos and in stable cell lines. [provided by RefSeq, Mar 2017]
Transcription factors with Perturb-seq knockdown data for TFAP2A-AS2. 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 = TFAP2A-AS2 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 TFAP2A-AS2, 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 |
|---|---|---|---|---|
| chr6:10,395,774–10,396,478 | 8.0 kb | Proximal (<10kb) | 134 | |
| chr6:10,398,166–10,398,903 | 5.6 kb | Proximal (<10kb) | 134 | |
| chr6:10,403,471–10,405,165 | at TSS | At TSS | 843 | |
| chr6:10,409,616–10,410,556 | 5.1 kb | Proximal (<10kb) | 170 | |
| chr6:10,411,106–10,413,568 | 6.6 kb | Proximal (<10kb) | 571 | |
| chr6:10,413,795–10,414,423 | 9.3 kb | Proximal (<10kb) | 251 |
Genomic view of the TFAP2A-AS2 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.