Table 4.
Cases of Intron Loss in Alismatales Supporting the RT-Mediated Model
| Intron | Group | ES lost/totala | ES 3b | ES 5c | Retroprocessing max size (nt)d | Retroprocessing min size (nt)e |
|---|---|---|---|---|---|---|
| ccmFci829 | Hydrocharis | 15/18 | 9 | 6 | 680 | 412 |
| cox2i691 | Alismataceae | 8/12 | 6 | 2 | 226 | 162 |
| cox2i691 | Lagarosiphon | 12/12 | 10 | 2 | 499 | 399 |
| cox2i691 | Hydrilla-Enhalus | 9/12 | 8 | 1 | 281 | 265 |
| nad1i477 | Hydrocleys-Limnocharis | 7/7 | 1 | 6 | 273 | 249 |
| nad1i477 | Hydrilla-Enhalus | 5/5 | 1 | 4 | 273 | 231 |
| nad1i477 | Caldesia | 3/5 | 1 | 2 | 183 | 63 |
| nad1i477 | Helanthium | 2/5 | 0 | 2 | 273 | 63 |
| nad2i1282 | Nechamandra-Vallisneria | 6/6 | 1 | 5 | 754 | 206 |
| nad2i1282 | Halophila-Enhalus | 6/6 | 1 | 5 | 754 | 206 |
| nad4i976 | Helanthium-Echinodorus | 28/30 | 12 | 18 | 910 | 788 |
| nad4i976 | Caldesia | 18/26 | 2 | 16 | 410 | 270 |
| nad4i976 | Hydrocleys | 21/30 | 10 | 11 | 574 | 532 |
| nad4i976 | Halophila-Enhalus | 5/5 | n.a | 5 | 936 | >421f |
| nad4i976 | Nechamandra-Vallisneria | 4/5 | n.a | 4 | 909 | >396f |
| nad4i976 | Hydrilla | 4/5 | n.a | 4 | 909 | >396f |
| nad5i1872 | Halophila-Enhalus | 13/13 | 7 | 6 | 541 | 467 |
| nad5i1872 | Vallisneria | 7/13 | 1 | 6 | 367 | 94 |
| nad7i140 | Lagarosiphon | 5/5 | 5 | n.a | 212 | >143f |
| nad7i140 | Hydrilla | 5/6 | 3 | 2 | 1143 | >207f |
| nad7i140 | Halophila-Enhalus | 6/6 | 4 | 2 | 210 | 171 |
| nad7i140 | Nechamandra-Vallisneria | 2/6 | 0 | 2 | 1098 | >75f |
| nad7i209 | Hydrilla | 2/2 | 2 | n.a | 1143 | >68f |
| nad7i209 | Nechamandra-Vallisneria | 2/2 | 2 | n.a | 1098 | >68f |
| nad7i676 | Alismataceae | 18/19 | 12 | 6 | 520 | 499 |
| nad7i917 | Hydrilla-Enhalus | 9/13 | 5 | 4 | 793 | 244 |
| nad7i917 | Echinodorus | 5/6 | 1 | 3 | 716 | 189 |
Edited sites lost in the area homologous to the two adjacent exons/Edited sites present in the intron-bearing MRCA of the group in question.
Edited sites lost in a continuous stretch downstream the area of intron loss.
Edited sites lost in a continuous stretch upstream the area of intron loss.
Calculated as the stretch between the last edited site present in the MRCA upstream of the region of possible retroprocessing and the first edited site downstream that region.
Calculated as the stretch between the most upstream and the most downstream edited site lost by retroprocessing event.
No edited sites are present in one of the exons in the intron-bearing MRCA, impeding estimate the minimum stretch of the retroprocessing in that exon. A minimum stretch was only calculated for one exon, indicated by the symbol >.