Table 2.
RNA editing site conditions in higher plant chloroplast genomes
| Moss Hornwort Fern | Gymnosperm | Angiosperm | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Pp | Af | Ac | Gb | Pt | Ct | Os | Zm | Ta | Pa | Cs | At | Gh | Ab | Sl | Nt | |
| Total editing sites | 2 | 942 | 349 | 255 | 26 | 36 | 21 | 26 | 26 | 44 | 32 | 34 | 54 | 35 | 36 | 37 |
| C to U | 2 | 509 | 314 | 255 | 26 | 36 | 21 | 26 | 26 | 44 | 32 | 34 | 54 | 35 | 36 | 37 |
| U to C | 0 | 433 | 35 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| 1st codon edits | 0 | 165 | 9 | 63 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| 2nd codon edits | 1 | 546 | 237 | 174 | 19 | 30 | 20 | 24 | 24 | 38 | 29 | 29 | 47 | 33 | 33 | 34 |
| 3rd codon edits | 0 | 28 | 21 | 14 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 1 | 1 | 1 | 1 |
| Silent edits | 0 | 28 | 21 | 16 | 0 | 0 | 0 | 1 | 0 | 2 | 0 | 0 | 1 | 0 | 0 | 0 |
| New starts | 1 | 5 | 21 | 2 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 2 | 2 | 2 |
| New stops | 0 | 3 | 3 | 7 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Untranslated region | 1 | 9 | ND | ND | ND | ND | 1 | 1 | ND | 2 | 0 | 2 | ND | 0 | 0 | 0 |
Taxa abbreviations shown above are: Pp: Physcomitrella patens, Af: Anthoceros formosae, Ac: Adiantum capillus-veneris, Gb: Ginkgo biloba, Pt: Pinus thungergii, Ct: Cycas taitungensis, Os: Oryza sativa, Zm: Zea mays, Ta: Triticum aestivum, Pa: Phalaenopsis aphrodite, Cs: Cucumis sativus, At: Arabidopsis thaliana, Gh: Gossypium hirsutum, Ab: Atropa belladonna, Sl: Solanum lycopersicum and Nt: Nicotiana tabacum; ND stand for No available data. If there are no special instructions, then these abbreviations apply to Additional file 1: Table S1 and Additional file 2: Table S2