This is an evolutionarily conserved gene that produces alternatively spliced long non-coding RNAs that may be expressed predominantly in the brain and visual cortex. These transcripts may be involved in tumorigenesis, as depletion by siRNA suppressed glioma cell division. Transcripts may also bind to and regulate the activity of miR-411-5p and argonaut 2, thereby altering the expression of genes involved in tumor growth. [provided by RefSeq, Nov 2017]
Transcription factors with Perturb-seq knockdown data for MIR9-2HG. 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 = MIR9-2HG 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 MIR9-2HG, 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 |
|---|---|---|---|---|
| chr5:88,659,646–88,661,615 | at TSS | At TSS | 570 | |
| chr5:88,664,619–88,664,947 | 4.8 kb | Proximal (<10kb) | 217 | |
| chr5:88,666,812–88,667,946 | 6.9 kb | Proximal (<10kb) | 238 | |
| chr5:88,671,570–88,672,534 | 211 bp | At TSS | 221 | |
| chr5:88,672,665–88,673,110 | at TSS | At TSS | 155 | |
| chr5:88,674,048–88,676,457 | 1.3 kb | Proximal (<10kb) | 679 | |
| chr5:88,677,986–88,678,918 | 5.2 kb | Proximal (<10kb) | 165 | |
| chr5:88,680,113–88,681,161 | 7.4 kb | Proximal (<10kb) | 559 | |
| chr5:88,683,414–88,684,052 | 5.0 kb | Proximal (<10kb) | 254 | |
| chr5:88,684,266–88,685,701 | 5.8 kb | Proximal (<10kb) | 236 | |
| chr5:88,689,005–88,690,010 | 4.0 kb | Proximal (<10kb) | 213 | |
| chr5:88,690,452–88,691,491 | 5.4 kb | Proximal (<10kb) | 454 | |
| chr5:88,691,943–88,692,893 | 6.9 kb | Proximal (<10kb) | 100 | |
| chr5:88,693,118–88,694,344 | 8.1 kb | Proximal (<10kb) | 143 |
Genomic view of the MIR9-2HG 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.