Table 2.
List of known and proposed DMRs associated with imprinted genes
| DMR name | Known co-ordinates | Present co-ordinates | Hypermethylated | Nearest gene | Nanopore | RRBS | RNA-seq | Note |
|---|---|---|---|---|---|---|---|---|
| GPR1-ZDBF2 | 1:63,257,407-63,264,876 | p | Zdbf2,Gpr1 | several transient DMRs (17) | ||||
| GPR1-PLATR12/LIZ | 1:63,200,250-63,200,470 | m | Zdbf2,Gpr1 | 229 | ✓ | ✓ | Gpr1 ICR (17) | |
| SFMBT2 | 2:10,371,327-10,371,731 | m | Sfmbt2,Gm13261 | 75 | ✓ | ✓ | Sfmbt2 TSS secondary DMR | |
| MCTS2 | 2:152,686,755: 152,687,275 | 2:152,686,261-152,687,856 | m | Mcts2 | 13 | ✓ | ✓ | wider than annotation |
| NNAT | 2:157,560,050-157,561,662 | 2:157,559,825-157,561,802 | m | Nnat | 29 | ✓ | ✓ | wider than annotation |
| NESP | 2:174,284,269-174,286,690 | 2:174,283,034-174,287,439 | p | Nespas | 1 | ✓ | ✓ | |
| NESPAS | 2:174,295,707-174,300,901 | 2:174,294,696-174,300,693 | m | Gnas | 6 | ✓ | ✓ | |
| GNAS-EXON1A | 2:174,326,930-174,329,007 | m | Gnas | ✓ | ||||
| JADE1 | 3:41,555,359-41,556,940 | m | Jade1 | 19 | ✓ | ✓ | Jade1 TSS secondary DMR | |
| PEG10 | 6:4,747,209-4,747,507 | 6:4,746,012-4,749,480 | m | Peg10 | 2 | ✓ | wider than annotation | |
| MEST | 6:30,736,488-30,737,237 | 6:30,735,330-30,739,552 | m | Mest | 4 | ✓ | ✓ | |
| NAP1L5 | 6:58,906,696-58,907,062 | 6:58,906,821-58,907,095 | m | Nap1l5,Herc3 | 89 | |||
| NDN | 7:62,348,214-62,348,695 | m | Ndn | ✓ | low coverage | |||
| ZIM2 | 7:6,727,576-6,732,116 | 7:6,727,344-6,731,296 | m | Peg3 | 5 | ✓ | ✓ | |
| SNURF/SNRPN | 7:60,004,992-60,005,415 | 7:60,003,140-60,005,295 | m | Snrpn,Snurf | 16;343 | ✓ | ✓ | wider than annotation |
| INPP5F_V2 | 7:128,688,274-128,688,642 | m | Inpp5f | ✓ | lack of coverage in B6Cast, clear DMR in CastB6 | |||
| H19/IGF2 | 7:142,580,263-142,582,140 | 7:142,575,503-142,582,086 | p | H19 | 17;35;54,534 | ✓ | ✓ | wider than annotation |
| IGF2-DMR0 | 7:142,669,246-142,670,067 | m | Igf2,Igf2os,Gm49394 | 39 | ✓ | ✓ | known placenta-specific secondary DMR (57) | |
| ASCL2 | 7:142,968,946-142,969,300 | p | Ascl2 | 62 | ✓ | ✓ | Ascl2 TSS secondary DMR | |
| CD81 | 7:143,052,956-143,053,090 | p | Cd81,R74862 | 463;887 | ✓ | ✓ | Cd81/R74862 TSS secondary DMR | |
| TSSC4 | 7:143,068,896-143,069,197 | p | Tssc4,Trpm5,Cd81 | 153 | ✓ | ✓ | Tssc4 TSS secondary DMR | |
| KCNQ1OT1 | 7:143,295,155-143,295,622 | 7:143,294,879-143,296,757 | m | Kcnq1ot1 | 11 | ✓ | ✓ | wider than annotation |
| KCNQ1-INTERGENIC1 | 7:143,438,058-143,438,341 | p | 205 | ✓ | ✓ | secondary DMR with unannotated imprinted expression | ||
| KCNQ1-INTERGENIC2 | 7:143,445,526-143,445,944 | p | Gm27901 | 67 | ✓ | ✓ | secondary DMR with unannotated imprinted expression | |
| CDKN1C | 7:143,459,775-143,459,891 | p | Cdkn1c,Gm4732 | 355 | ✓ | ✓ | Cdkn1c secondary DMR | |
| GAB1 | 8:80,859,569-80,859,745 | m | Gab1 | 221 | ✓ | ✓ | known Gab1 placental TSS secondary DMR (58) | |
| RASGRF1 | 9:89,879,568-89,879,853 | 9:89,879,601-89,880,045 | p | Rasgrf | 69 | |||
| ZAC1 | 10:13,090,470-13,091,527 | 10:13,090,313-13,092,161 | m | Plagl1 | 12 | ✓ | wider than annotation | |
| U2AF1-RS1 | 11:22,971,842-22,972,319 | 11:22,971,545-22,973,999 | m | Zrsr1 | 3 | ✓ | ✓ | wider than annotation |
| GRB10 | 11:12,025,482-12,026,332 | m | Grb10 | ✓ | ✓ | lack of coverage in B6Cast, clear DMR in CastB6 | ||
| GTL2/DLK1 | 12:109,526,740-109,528,734 | 12:109,527,519-109,528,845 | p | Gm27528,Gm27528 | 52 | ✓ | ✓ | narrower than annotation |
| MEG3 | 12:109,540,792-109,541,676 | p | Meg3,Mir1906-1,Gm27300,Gm27596 | 207;776 | ✓ | ✓ | known Meg3 TSS secondary DMR (59) | |
| MEG3-INTRON | 12:109,556,071-109,556,162 | m | Meg3 | 921 | ✓ | Meg3 intronic secondary DMR | ||
| RIAN | 12:109,612,8804-109,612,962 | m | Rian,Mir1188, Mir341 | 304 | ✓ | Rian intronic secondary DMR | ||
| PEG13 | 15:72,806,335-72,811,649 | 15:72,809,183-72,811,180 | m | Peg13 | 14 | ✓ | ✓ | narrower than annotation |
| SLC38A4 | 15:97,053,880-97,056,427 | m | Slc38a4 | 9 | ✓ | ✓ | known TSS secondary DMR (60) | |
| AC158554.1 | 15:97,166,956-97,167,257 | m | AC158554.1 | 403;406 | ✓ | ✓ | lincRNA TSS secondary DMR | |
| PDE10A | 17:8,772,760-8,773,118 | m | Pde10a | 474;701 | ✓ | Pde10a intronic secondary DMR | ||
| PARK2 | 17:11,123,807-11,124,219 | m | Park2 | 222;289;488;597; 782;827;852 | ✓ | seven Park2 intronic secondary DMRs | ||
| SLC22A2 | 17:12,607,783-12,608,088 | m | Slc22a2 | 452 | ✓ | Scl22a2 intronic secondary DMR | ||
| IGF2R/AIR | 17:12,741,297-12,742,707 | 17:12,741,160-12,742,949 | m | Igf2r,Airn | 8 | ✓ | ✓ | |
| IGF2R-TSS | 17:12,769,605-12,770,120 | p | Igf2r,Airn,Gm23833 | 37 | ✓ | ✓ | known Igf2r TSS secondary DMR (2) | |
| SMOC2-INTERGENIC | 17:14,590,437-14,590,640 | m | Smoc2, Thbs2 | 862 | ✓ | secondary DMR with unannotated imprinted expression | ||
| IMPACT | 18:12,972,197-12,973,741 | 18:12,972,182-12,974,748 | m | Impact | 7 | ✓ | ✓ | wider than annotation |
A check mark is shown where RRBS and RNA-seq evidence supports the DMR. The DMR rank is shown when supporting nanopore data exists.