Table1.
Imprinted DMRs identified in this study.
| Known imprinted DMRs (n=31) | Novel DMRs (n = 24) | |||||
|---|---|---|---|---|---|---|
| Novel DMRs within or near known imprinted loci (n=13) | ||||||
| Chr | Locus | Chr | Locus | Imprinting gene activity nearby | CGI | GC content |
| chr1 | Gpr1/Zdbf2* | chr2 | H13 DMR2 (3′ end) | Known imprinting locus, K4me3 | Yes | 0.60 |
| chr2 | Mcts2/H13* | chr7 | Snrpn U exon | Known imprinting locus, RNA | No | 0.52 |
| chr2 | Nesp | chr7 | AK086712 promoter | Known imprinting locus, K4me3, RNA | No | 0.47 |
| chr2 | Nespas/Gnasxl* | chr7 | U80893 upstream | Known imprinting locus, K4me3 | No | 0.39 |
| chr2 | Gnas1a* | chr7 | mir344b | Known imprinting locus, K4me3, K27ac | No | 0.42 |
| chr6 | Peg10/Sgce* | chr7 | mir344c | Known imprinting locus, K27ac | No | 0.41 |
| chr6 | Mest (Peg1)* | chr7 | mir344 | Known imprinting locus, K27ac | No | 0.45 |
| chr6 | Herc3/Nap1l5* | chr7 | mir344-2 | Known imprinting locus, K4me3, K27ac | No | 0.44 |
| chr7 | Peg3/Usp29* | chr7 | mir344g | Known imprinting locus, K4me3, K27ac | No | 0.37 |
| chr7 | Snurf/Snrpn* | chr7 | Magel2 promoter (known in humans) | Known imprinting locus, K4me3 | Yes | 0.52 |
| chr7 | Ndn | chr7 | Magel2-Mrkn3 intergenic | Known imprinting locus, K4me3 | No | 0.51 |
| chr7 | Mkrn3 | chr11 | Grb10 DMR2 (intragenic) | Known imprinting locus, RNA | No | 0.55 |
| chr7 | Peg12 | chr11 | Commd1 DMR2 (intragenic) | Known imprinting locus, RNA | No | 0.5 |
| chr7 | Inpp5f* | Novel diffuse DMRs within or near known imprinted loci (n=2) | ||||
| chr7 | H19 promoter | |||||
| chr7 | H19 ICR* | |||||
| chr7 | Kcnq1ot1* | Chr | Locus | Imprinting gene activity nearby | CGI | GC content |
| chr7 | Cdkn1c | chr12 | Gtl2-Mirg diffuse DMR | Known imprinting locus, RNA | NA | 0.45 |
| chr7 | Cdkn1c upstream | chr15 | Eif2c2 diffuse DMR | Known imprinting locus, RNA | NA | 0.49 |
| chr9 | Rasgrf1* | Novel DMRs outside of known imprinted loci (n=9) | ||||
| chr10 | Plagl1* | |||||
| chr11 | Grb10* | Chr | Locus | Imprinting gene activity nearby | CGI | GC content |
| chr11 | Zrsr1/Commd1* | chr6 | Casc1 intragenic | K4me3 | No | 0.51 |
| chr12 | Dlk1 | chr7 | 6330408a02Rik 3′ end | K4me3 | Yes | 0.62 |
| chr12 | Dlk1-Gtl2 IG* | chr11 | FR149454 promoter | K4me3 | No | 0.53 |
| chr12 | Gtl2 | chr12 | FR085584 promoter | K4me3 | Yes | 0.52 |
| chr15 | Peg13* | chr15 | Myo10 intragenic | K4me3 | Yes | 0.61 |
| chr15 | Slc38a4* | chr6 | Vwde promoter | No | No | 0.61 |
| chr17 | Airn* | chr10 | Neurog3 upstream | No | No | 0.46 |
| chr17 | Igf2r | chr13 | Nhlrc1 downstream | No | Yes | 0.54 |
| chr18 | Impact* | chr15 | Pvt1 promoter | No | No | 0.47 |
Known germline DMRs are marked by “*”. CGI, DMRs overlapping with CpG islands; GC content, the GC content of DMRs (or a 200bp window around the DMR if a DMR is less than 100bp); known imprinting locus, DMRs within or near known imprinted loci; K4me3, allele specific H3K4me3 enrichment observed on the opposite allele of DNA methylation in the DMR; K27ac, allele specific H3K27ac enrichment observed on the opposite allele of DNA methylation in the DMR; RNA, allele specific RNA transcripts observed on the opposite allele of DNA methylation in nearby regions; NA, not available.