Fig. 3

Sequence conservation and secondary structure of the U2 snRNA. a Predicted secondary structure of the L. major U2 snRNA. Stem-loops I, II.1, II.2 and IV are indicated. Also, BPRR and Sm site are shown. Pseudouridine residues (red Ψ) identified in this study are denoted. Pseudouridines conserved between L. major and vertebrates (blue star), S. cerevisiae (red circle) and T. brucei (green triangle) are also indicated. b Consensus sequence of the U2 snRNA gene in trypanosomatids. The sequences of the U2 snRNA genes and 3'-flaking regions from 21 species of trypanosomatids (see Additional file 1: Figure S1) were aligned with the DNAMAN software. Using the WebLogo application, the generated pattern was represented as a sequence logo by residue probabilities. BPRR, Sm site and stop signal are shown. The positions of the pseudouridine residues (Ψ) mapped in L. major are indicated with arrows