Table 3 Primers for PCR analyses
From: Epigenetic predisposition to expression of TIMP1 from the human inactive X chromosome
Primer pair | Sequence | Use |
|---|---|---|
TIMP1 5' (promoter) [14] | 5'A: CCCTTGGGTTCTGCACTGA* 5'B: CCAAGCTGAGTAGACAGGC | Methylation ChIP DNase sensitivity |
TIMP1 CA (gene body) [12] | CA1: GGGTTCCAAGCCTTAGGGGA CA2: AGGCTGTTCCAGGGAGCCGC | DNase sensitivity |
TIMP1 S (bisulfite) | 5S: GttttTTGGtTTtTGtAtTGATGGT 3S: CCAAaCTaAaTAaACAaaCATCTAaC** | Bisulfite sequencing |
ARAF1 M1:M4 (promoter) [14] | M1: TGCCAAAGCCCTAAGGTCA M4: CGCTGTCGACGATGGTCT M3: GTGAGGAAACAAGAAGAGAG | Methylation ChIP DNase sensitivity |
XIST 3':5' (gene body) [39] | 3':GAAGTCTCAAGGCTTGAGTTAGAAG 5': TTGGGTCCTCTATCCATCTAGGTAG | Methylation DNase sensitivity |
XIST A5:29r (promoter) [37] | A5: TTTCTTACTCTCTCGGGGCT 29r: ATCAGCAGGTATCCGATACC | ChIP |
ELK1 5' (promoter) [14] | A: GCACAGCTCTGTAGGGAA B: AGCTCACCTGTGTGTAGCG | Methylation ChIP |
STA A:B (intergenic) | A: CACCTGTGTGTCATGTATAC B: CCAGTATTGGTCTTCCAGTT | DNase sensitivity |
8037 A:B (intergenic) | A: GAGGCAAGACATCCATTCC B: TGACTTTGAGCGAGCAGGT | Reference region |