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. Author manuscript; available in PMC: 2021 Apr 1.
Published in final edited form as: Mol Neurobiol. 2020 Jan 10;57(4):2048–2071. doi: 10.1007/s12035-019-01812-5

Table 3. Primer sequences used to confirm the methylation status of the DMRs of selected genes.

Ten genes were randomly selected from the list of genes in Fig. 5B to confirm array results. Methylation-specific primers were generated using MethPrimer (www.urogene.org/methprimer/index1.html) for DMR targets (between the gray lines in Figure 5C corresponding to the highly separated regions between the three F3 groups (DDI, folic acid, folic acid + TSA) shown in the methylation array plot. Primers were also synthesized for regions just upstream and downstream the DMR, thereby providing a non-DMR region as an experimental control (FA: folic acid at 80 μg/kg intraperitoneal, DMR: differentially methylated region, M: methylated, U: unmethylated).

GENE DMR CONTROL
Myl3 M primer (L)
TTAAGAAGGACGAT GTTAAAATCGT
(R)
ACTCTACTTCCTTAAAACGTTCGAA		 (L)
ATTTTGTACGGAGATAATTAGACGA
(R)
CCCTAATCAAAAACAAAAAACGTA
U Primer (L)
TTAAGAAGGATGATGTTAAAATTGT
(R)
ACTCTACTTCCTTAAAACATTCAAA		 (L)
ATTTTGTATGGAGATAATTAGATGA
(R)
CCCTAATCAAAAACAAAAAACATA
Olr1401 M primer (L)
ATTTTTTGATTTAGATAAGTTTCGT
(R)
CACAATAAAATAAAATACACACGTC		 No primers developed by MethPrimer
U Primer (L)
ATTTTTTGATTTAGATAAGTTTTGT
(R)
CACAATAAAATAAAATACACACATC
Charna3 M primer (L)
TTATTTTATTATAATTCGGGGGTTC
(R)
CGTCGCGATAATTATTAACCG		 No primers developed by MethPrimer
U Primer (L)
ATTTTATTATAATTTGGGGGTTTGA
(R)
TTCATCACAATAATTATTAACCACC
Epor M primer (L)
GGTTATATTTTAGGATTTTGTCGT
(R)
ATCTATACAATTATAAAACCCCGTA		 (L)
ATTGATATATTTTAATGGTTTTCGG
(R)
TTTCTCTATTTTCTATAAATTACCGTT
U Primer (L)
TTTGGGTTATATTTTAGGATTTTGTTG
(R)
TCTATACAATTATAAAACCCCATA		 (L)
ATTGATATATTTTAATGGTTTTTGG
(R)
TTATTTTTCTCTATTTTCTATAAATTACCA
Masp2 M primer (L)
TTTTAATTTGGAATTTTTTTATCGT
(R)
TATACTCTCCTACCCACACAACGTA		 (L)
TTTTTTATGTTTTTAATGTAGTCGT
(R)
AACCTAATAAACCAAAATCTCAACG
U Primer (L)
TTATTTATTTTAATTTGGAATTTTTTTATT
(R)
TATACTCTCCTACCCACACAACATA		 (L)
TTTTTATGTTTTTAATGTAGTTGT
(R)
AAAACCTAATAAACCAAAATCTCAACA
Fbxl M primer (L)
GGGTATTTTAGTAGGTGTGGTTTTC
(R)
CCACTATATAACATAAAACTAATCGCC		 (L)
ATTATTTGAAGTTACGATGGGTATC
(R)
AACAAAAAAAACTCTATACAACGAA
U Primer (L)
GGGTATTTTAGTAGGTGTGGTTTTT
(R)
ACCTCCACTATATAACATAAAACTAATCAC		 (L)
ATTTGAAGTTATGATGGGTATTGG
(R)
AAACAAAAAAAACTCTATACAACAAA
Mbp M primer (L)
TTAGGGAATCGTTTTTATTTGATTC
(R)
TAACCAAATACTTAAATCCGTATCG		 (L)
TATGTTTGGGGTTTTAGTTTATTTC
(R)
CGAACCATTATTTCACAACGAC
U Primer (L)
GGAATTGTTTTTATTTGATTTGT
(R)
CAAATACTTAAATCCATATCACT		 (L)
GTTTGGGGTTTTAGTTTATTTTGT
(R)
CCAAACCATTATTTCACAACAAC
Rxrb M primer (L)
TACGGAGATAGTTACGCGTACG
(R)
TCCGTATCCTACTCCAACGAA		 (L)
GAGGGTTTGGGATTTTGATTAC
(R)
GAAAATAAAAAAACAACTTTCCCG
U Primer (L)
GTATGGAGATAGTTATGTGTATGG
(R)
TTTTTCCATATCCTACTCCAACAA		 (L)
GGTTTGGGATTTTGATTATGA
(R)
CAAAAATAAAAAAACAACTTTCCCA

M - Methylated, U – Unmethylated, L – Left, R – Right