Table 2 Overabundance of methylated repeats upstream of the transcription starting site of differentially and non-differentially methylated genes compared to non-methylated genes in Chrysemys picta hatchlings
Number (#) and percentage (%) of methylated repeats | Number of gene bodies with methylated repeats at three distances of start codon | ||
|---|---|---|---|
1Â kb | 5Â kb | 10Â kb | |
Among all 17,646 methylated genes | 16,791 (95.1%) | 17,030 (96.5%) | 17,202 (97.5%) |
Among all 433 non-methylated genes | 29 (6.7%) | 90 (20.8%) | 161 (37%) |
Among the 2086 male-hypermethylated genes | 1650 (79%) | 1656 (79.3%) | 1662 (79.7%) |
Among the 2414 female-hypermethylated genes | 1949 (80.7%) | 1959 (81.1%) | 1961 (81.2%) |
Among the 840 methylated genes of interest (Additional file 1: Table S1, Additional file 1: Table S2, Additional file 1: Table S3, Additional file 1: Table S4, Additional file 1: Table S5, Additional file 1: Table S6, Additional file 1: Table S7, Additional file 1: Table S8) | 822 (97.8%) | 828 (98.6%) | 831 (98.9%) |
Male-hypermethylated repeat windows located near male-hypermethylated genes | 681/946 (72%) | 706/973 (72.6%) | 718/989 (72.6%) |
Female-hypermethylated repeat windows located near female-hypermethylated genes | 801/1032 (77.6%) | 816/1050 (77.7%) | 825/1064 (77.5%) |