EHMT2
euchromatic histone lysine methyltransferase 2 | Em:AF134726.3, G9A, KMT1C, NG36/G9a, BAT8, C6orf30

This gene encodes a methyltransferase that methylates lysine residues of histone H3. Methylation of H3 at lysine 9 by this protein results in recruitment of additional epigenetic regulators and repression of transcription. This gene was initially thought to be two different genes, NG36 and G9a, adjacent to each other in the HLA locus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2016]

Member of: DE-6 DE-6.17 Developmental clusters: GC6
Biological processes 46 terms
C2H2 zinc finger domain binding (GO:0070742)C2H2 zinc finger domain binding (GO:0070742)DNA methylation-dependent constitutive heterochromatin formation (GO:0006346)DNA methylation-dependent constitutive heterochromatin formation (GO:0006346)H1-4K26 methyltransferase activity (GO:0140189)RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977)cellular response to starvation (GO:0009267)chromatin (GO:0000785)chromatin (GO:0000785)chromatin (GO:0000785)chromosome (GO:0005694)chromosome condensation (GO:0030261)epigenetic regulation of gene expression (GO:0040029)histone H3 methyltransferase activity (GO:0140938)histone H3K27 methyltransferase activity (GO:0046976)histone H3K27 methyltransferase activity (GO:0046976)histone H3K56 methyltransferase activity (GO:0140759)histone H3K56 methyltransferase activity (GO:0140759)histone H3K9 methyltransferase activity (GO:0046974)histone H3K9 methyltransferase activity (GO:0046974)histone H3K9 methyltransferase activity (GO:0046974)histone H3K9 monomethyltransferase activity (GO:0140948)histone methyltransferase activity (GO:0042054)negative regulation of transcription by RNA polymerase II (GO:0000122)negative regulation of transcription by RNA polymerase II (GO:0000122)nuclear body (GO:0016604)nuclear speck (GO:0016607)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)p53 binding (GO:0002039)p53 binding (GO:0002039)peptidyl-lysine dimethylation (GO:0018027)promoter-specific chromatin binding (GO:1990841)promoter-specific chromatin binding (GO:1990841)protein binding (GO:0005515)protein-lysine N-methyltransferase activity (GO:0016279)protein-lysine N-methyltransferase activity (GO:0016279)regulation of DNA replication (GO:0006275)regulation of DNA replication (GO:0006275)transcription corepressor binding (GO:0001222)transcription corepressor binding (GO:0001222)zinc ion binding (GO:0008270)
Expression (TPM)
EHMT2 — as a Regulated Gene

TFs regulating EHMT2 0 TFs

Transcription factors with Perturb-seq knockdown data for EHMT2. 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 = EHMT2 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to EHMT2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of EHMT2, 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
chr6:31,619,744–31,621,435 277.2 kb Distal (>10kb) Multiome 1127
chr6:31,651,682–31,653,297 245.0 kb Distal (>10kb) Multiome 1113
chr6:31,660,325–31,660,941 236.9 kb Distal (>10kb) Multiome 892
chr6:31,664,725–31,666,373 232.8 kb Distal (>10kb) Multiome 1039
chr6:31,682,887–31,683,880 214.3 kb Distal (>10kb) Multiome HiCAR 248
chr6:31,702,816–31,703,520 194.4 kb Distal (>10kb) Multiome 875
chr6:31,713,576–31,714,641 183.6 kb Distal (>10kb) Multiome 171
chr6:31,728,852–31,730,814 167.5 kb Distal (>10kb) Multiome 979
chr6:31,739,236–31,740,741 157.8 kb Distal (>10kb) Multiome 1043
chr6:31,766,045–31,766,778 131.2 kb Distal (>10kb) Multiome 351
chr6:31,795,097–31,796,366 101.7 kb Distal (>10kb) Multiome 979
chr6:31,806,162–31,807,183 90.7 kb Distal (>10kb) Multiome 947
chr6:31,814,125–31,815,936 83.1 kb Distal (>10kb) Multiome 822
chr6:31,818,020–31,818,663 79.3 kb Distal (>10kb) Multiome 280
chr6:31,821,306–31,822,544 75.7 kb Distal (>10kb) Multiome 714
chr6:31,826,770–31,828,135 70.2 kb Distal (>10kb) Multiome 1000
chr6:31,834,277–31,835,371 63.0 kb Distal (>10kb) Multiome 1085
chr6:31,862,148–31,864,173 34.8 kb Distal (>10kb) Multiome 1118
chr6:31,896,965–31,898,037 110 bp At TSS Multiome 654
chr6:31,898,479–31,898,617 2.0 kb Proximal (<10kb) 351
chr6:31,901,114–31,902,643 4.5 kb Proximal (<10kb) Multiome 826
chr6:31,958,527–31,959,598 61.4 kb Distal (>10kb) Multiome 953
chr6:31,971,421–31,972,872 74.6 kb Distal (>10kb) Multiome 1059
chr6:32,048,217–32,048,679 150.7 kb Distal (>10kb) Multiome 611
chr6:32,087,265–32,088,160 190.1 kb Distal (>10kb) Multiome 473
chr6:32,127,621–32,128,720 230.6 kb Distal (>10kb) Multiome 683
chr6:32,129,973–32,130,800 232.7 kb Distal (>10kb) Multiome 717
chr6:32,144,531–32,145,041 247.0 kb Distal (>10kb) Multiome 44
chr6:32,148,431–32,149,344 251.1 kb Distal (>10kb) Multiome 145
chr6:32,153,307–32,155,059 256.3 kb Distal (>10kb) Multiome 908
chr6:32,167,399–32,168,187 270.3 kb Distal (>10kb) Multiome 411
chr6:32,175,673–32,176,347 278.4 kb Distal (>10kb) Multiome 654
chr6:32,177,078–32,178,952 280.3 kb Distal (>10kb) Multiome 820
chr6:32,190,108–32,191,167 292.7 kb Distal (>10kb) Multiome 661
chr6:32,195,084–32,196,878 298.1 kb Distal (>10kb) Multiome 1063

Genome Browser

Genomic view of the EHMT2 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.

chr6:31,609,744 – 32,206,878
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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