The protein encoded by this gene binds nucleosomal DNA and is associated with transcriptionally active chromatin. Along with a similar protein, HMGN1, the encoded protein may help maintain an open chromatin configuration around transcribable genes. The protein has also been found to have antimicrobial activity against bacteria, viruses and fungi. [provided by RefSeq, Oct 2014]
Transcription factors with Perturb-seq knockdown data for HMGN2. 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 = HMGN2 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 HMGN2, 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 |
|---|---|---|---|---|
| chr1:26,177,126–26,177,750 | 295.0 kb | Distal (>10kb) Multiome | 363 | |
| chr1:26,200,994–26,201,612 | 271.2 kb | Distal (>10kb) Multiome | 369 | |
| chr1:26,225,042–26,225,908 | 247.0 kb | Distal (>10kb) Multiome | 462 | |
| chr1:26,233,613–26,234,924 | 238.3 kb | Distal (>10kb) Multiome | 867 | |
| chr1:26,275,604–26,276,096 | 196.6 kb | Distal (>10kb) Multiome | 373 | |
| chr1:26,279,438–26,280,566 | 192.5 kb | Distal (>10kb) Multiome | 820 | |
| chr1:26,306,331–26,306,935 | 165.7 kb | Distal (>10kb) Multiome | 563 | |
| chr1:26,335,993–26,337,256 | 135.9 kb | Distal (>10kb) Multiome | 655 | |
| chr1:26,360,031–26,360,668 | 112.1 kb | Distal (>10kb) Multiome | 164 | |
| chr1:26,409,125–26,412,949 | 61.9 kb | Distal (>10kb) Multiome | 517 | |
| chr1:26,416,811–26,417,349 | 55.3 kb | Distal (>10kb) Multiome | 290 | |
| chr1:26,418,111–26,419,646 | 53.3 kb | Distal (>10kb) Multiome | 189 | |
| chr1:26,431,868–26,432,811 | 40.2 kb | Distal (>10kb) Multiome | 1083 | |
| chr1:26,470,391–26,470,757 | 1.7 kb | Proximal (<10kb) | 318 | |
| chr1:26,471,339–26,473,364 | 498 bp | At TSS Multiome | 992 | |
| chr1:26,500,060–26,501,704 | 27.9 kb | Distal (>10kb) Multiome | 1028 | |
| chr1:26,529,200–26,531,855 | 58.9 kb | Distal (>10kb) Multiome | 703 | |
| chr1:26,620,089–26,621,718 | 148.2 kb | Distal (>10kb) Multiome | 1174 | |
| chr1:26,692,203–26,693,499 | 220.0 kb | Distal (>10kb) Multiome | 974 | |
| chr1:26,695,271–26,696,473 | 223.3 kb | Distal (>10kb) Multiome | 1053 | |
| chr1:26,723,135–26,723,892 | 251.1 kb | Distal (>10kb) Multiome | 671 |
Genomic view of the HMGN2 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.