gRNA alignments at editing blocks B1 and B2 with currently annotated edited mRNAs, and predicted alternative editing patterns. Base-paired gRNA sequences are in 3′→5′ orientation. Regions of interest are identified as follows: editing domain (bold), mature mRNA sequence (underlined), gRNA guide domain (gray box), length of the 3′ U tail (subscript), and stop codon (double line). Proposed alternative U-insertions and U-deletions (“t” and “⋆”, respectively, in a box) result in higher quality duplexes, i.e., longer guide domains and changes in encoded C-terminal amino acids (in ND7 3′ domain [B] and RPS12 [F]) or 3′ UTR (in CO3 [D], ND8 [E], and A6 [G]). No alternative editing is predicted for CyB (A) and ND7 5′ domain (C). Homology alignments of gRNAs are given in 5′-3′ orientation with identities (dotted boxes) and guide domains (gray boxes). Aligned gRNAs from the study in EATRO 164 cells by Koslowsky et al. (2013) are indicated. The gRNA numbering uses standard nomenclature indicating paired nucleotide positions in edited mRNAs. The arrow in ND8 indicates an extra guiding “A” in B1.alt. The arrow in RPS12 indicates a position in the guide domain of gRPS12(267–322) that forms an A·C mismatch with mRNA.
