This gene produces a long non-coding RNA in antisense to transcription of the homeobox A11 gene. This transcript may associate with chromatin factors such as Polycomb repressive complex and act as a sponge for microRNAs, thereby participating in the regulation of expression of target genes. High levels of this transcript may be associated with tumor progression. [provided by RefSeq, Dec 2017]
Transcription factors with Perturb-seq knockdown data for HOXA11-AS. 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 = HOXA11-AS 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 HOXA11-AS, 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 |
|---|---|---|---|---|
| chr7:27,173,233–27,174,630 | 9.9 kb | Proximal (<10kb) | 329 | |
| chr7:27,175,708–27,176,093 | 8.4 kb | Proximal (<10kb) | 88 | |
| chr7:27,179,593–27,180,372 | 4.1 kb | Proximal (<10kb) | 400 | |
| chr7:27,182,906–27,183,713 | 792 bp | At TSS | 168 | |
| chr7:27,184,386–27,185,008 | at TSS | At TSS | 294 | |
| chr7:27,189,272–27,189,665 | 4.8 kb | Proximal (<10kb) | 103 | |
| chr7:27,191,835–27,192,844 | 7.3 kb | Proximal (<10kb) | 157 |
Genomic view of the HOXA11-AS 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.