This gene encodes a protein that belongs to the non-histone chromosomal high mobility group (HMG) protein family. HMG proteins function as architectural factors and are essential components of the enhancesome. This protein contains structural DNA-binding domains and may act as a transcriptional regulating factor. Identification of the deletion, amplification, and rearrangement of this gene that are associated with myxoid liposarcoma suggests a role in adipogenesis and mesenchymal differentiation. A gene knock out study of the mouse counterpart demonstrated that this gene is involved in diet-induced obesity. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for HMGA2. 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 = HMGA2 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 HMGA2, 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 |
|---|---|---|---|---|
| chr12:65,566,010–65,566,599 | 258.1 kb | Distal (>10kb) Multiome | 314 | |
| chr12:65,638,328–65,638,825 | 185.9 kb | Distal (>10kb) Multiome | 85 | |
| chr12:65,740,801–65,742,990 | 81.9 kb | Distal (>10kb) Multiome | 695 | |
| chr12:65,754,735–65,755,896 | 69.3 kb | Distal (>10kb) Multiome | 173 | |
| chr12:65,817,596–65,818,266 | 6.4 kb | Proximal (<10kb) Multiome | 138 | |
| chr12:65,818,566–65,818,763 | 5.7 kb | Proximal (<10kb) | 33 | |
| chr12:65,822,819–65,823,229 | 1.2 kb | Proximal (<10kb) | 511 | |
| chr12:65,823,369–65,823,705 | 753 bp | At TSS | 348 | |
| chr12:65,823,815–65,826,447 | 10 bp | At TSS Multiome | 894 | |
| chr12:65,826,609–65,826,749 | 2.1 kb | Proximal (<10kb) | 143 | |
| chr12:65,827,974–65,828,199 | 3.5 kb | Proximal (<10kb) | 61 | |
| chr12:65,845,814–65,846,311 | 21.5 kb | Distal (>10kb) Multiome | 145 | |
| chr12:65,897,482–65,897,992 | 73.2 kb | Distal (>10kb) Multiome | 129 | |
| chr12:65,925,832–65,927,041 | 101.9 kb | Distal (>10kb) Multiome | 384 | |
| chr12:66,061,688–66,062,514 | 237.7 kb | Distal (>10kb) Multiome | 137 |
Genomic view of the HMGA2 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.