Fig. 3

The targets analysis for miR164 and snp-miR164 in domestic cucumber. a. predicted targets for miR164 and snp-miR164. The short vertical bars represent match base pair and two vertical dots representing a G-U pair. b. a schematic figure represents the interaction between snp-miRNA164a and it’s predicted target CsNAM55. Thick black line represents mRNA of CsNAM55. Number on the black line represents cleavage site within mRNA, which also was represented by the red arrow. The snp-miRNA164 and the target mRNA are showed in the expanded regions. The number in the parentheses represents the number of sequenced 5’ RACE clones corresponding to each site. c. Target plots of snp-miRNA164 target CsNAM55 confirmed by degradome sequencing. The black dots represent degrade tags from degradome sequencing. The red dot represents the most abundant cleavage tag derived from miRNA cleavage site. d. The expression of CsNAM55 revealed by real-time PCR. β-actin was used as an internal control to normalize the data. For compare analysis, we set expression of CsNAM55 in line 9930 root as control. e. Target plots of snp-miRNA164 target CsNAM55 confirmed by degradome sequencing. The black dots represent degrade tags from degradome sequencing. The red dot represents the most abundant cleavage tag derived from miRNA cleavage site. f. The expression of evm.TU.Chr5.2870, which is an orthologous gene of CsNAM55 in line hardwickii, compared with expression of CsNAM55 in line 9930 roots