Table 2.
Percent methylation of individual cytosines in SAT5 repeat monomer containing the CRP4 gene
| Col-0 | methylated CG | unmethylated CG | methylated CHG | unmethylated CHG | methylated CHH | unmethylated CHH |
|---|---|---|---|---|---|---|
| upstream |
3/3 (100 %) |
0/3 |
6/6 (100 %) |
0/6 |
22/51 (43 %) |
29/51 (57 %) |
| CRP4 cds |
11/11 (100 %) |
0/11 |
20/20 (100 %) |
0/20 |
44/52 (85 %) |
8/52 (15 %) |
| downstream | 2/2 (100 %) | 0/2 | 0/1 | 1/1 (100 %) | 19/28 (68 %) | 9/28 (32 %) |
The total number of cytosines and those that are methylated or unmethylated in each sequence context (CH, CHG, CHH) are shown for each region of the SAT5 repeat monomer containing the CRP4 gene [upstream, CRP4 coding sequence (cds), downstream]. The percentage of methylated or unmethylated cytosines is shown in parentheses except where the value is 0 %. Percentages for methylated cytosines in a CHH context (indicative of RNA-directed DNA methylation) are shown in red. The difference for the upstream region vs. CRP4 cds is significant (p = 0.000013; two-tailed Fisher’s exact test [http://www.graphpad.com/quickcalcs/index.cfm]). For the downstream region, the difference is not significant (p = 0.093) but this may reflect the lower number of cytosines in the downstream region.