Table 2.

Target Loci of Dnmts Detected in RLGS Confirmed by Vi-RLGS and the Methylation-Sensitive Real-Time PCR Method

Spot no.^a	Locus	Gene symbol^b	Gene name	CpG island
12	15B2	repeat (LTR element)	—	yes
15	5G2	D130017N08Rik	RIKEN cDNA D130017N08 gene	yes
17	11E2	Cbx4	chromobox homolog 4	no
18	8B1.1	—	—	no
21	12D1	LOC238316	predicted gene	yes
25	10B4	4732470K04	predicted gene	yes
30	13A5	LOC238623	predicted gene	yes
31	7B3	Dbx1	developing brain homeobox 1	yes
32	9A5.1	D130038B21 Rik	RIKEN cDNA D130038B21 gene	yes
34	18C	AA987150	predicted gene	yes
43	2H3	LOC329560	predicted gene	yes
47	19C3	Trim8	tripartite motif protein 8	yes
53	5B1	BC037112	gene with protein product	no
73	9A4	D730048106Rik	RIKEN cDNA D730048106 gene	yes
76	2H3	—	—	no
77	11A4	AL732390.10.1.195612.21298.172306	predicted gene	no
79	10C1	Agpat3	1-acylglycerol-3-phosphate O-acyltransferase 3	yes
87	14D1	Baiap1	BAI1-associated protein 1	no
88	10B4	Mm.338763 (unigene)	—	no
93	7D1	Bnc	basonuclin	yes
95	14C1	MGC38922	predicted gene	yes
97	7A3	Rps19	ribosomal protein S19	yes
99	17E3	Cox7a21	cytochrome c oxidase subunit VIIa polypeptide 2-like	yes
109	13A5	—	—	yes
111	7F3	hmm37743	predicted gene	no
115	7A2	LOC381956	predicted gene	yes
144	13B1	Tgfbi	transforming growth factor, beta induced	no
152	19C3	Pik3ap1	phosphoinositide-3-kinase adaptor protein 1	yes
161	5B2	Man2b2	mannosidase 2, alpha B2	yes
166	5F	Cit	citron	no
167	4D3	LOC230868	predicted gene	no
173	11A4	Odz2	odd Oz/ten-m homolog 2	no
178	2H1	Bfzb-pending	basic FGF repressed, zinc binding protein	no
212	14D2	repeat (DNA element)	—	yes
225	11B1.3	A830006N08	predicted gene	yes
231	16C2	—	—	yes
234	11B5	—	—	no
235	8E2	—	—	no
236	10C1	Pcnt2	pericentrin 2	no

↵a Spot numbers indicate the position in RLGS profile shown in Fig. 1A.
↵b Symbols are shown if the Notl site of the fragment is located within 10 kb of the gene.

Preference of DNA Methyltransferases for CpG Islands in Mouse Embryonic Stem Cells