Table III.
Splice variants (SVs) of selected Arabidopsis (At), rice (Os), and maize (Zm) Atg genes
| Gene | At | SVs without the Essential Codona | Os | SVs without the Essential Codona | Zm | SVs without the Essential Codona |
|---|---|---|---|---|---|---|
| Atg3(a)b | 1 | – | 3 | SV2, SV3 | 2 | SV2 |
| Atg3bb | – | – | 2 | SV1, SV2 | – | – |
| Atg4a | 2 | None | 2 | SV2 | 2 | None |
| Atg4b | 3 | None | 1 | – | 6 | None |
| Atg5 | 1 | – | 2 | None | 2 | None |
| Atg7 | 1 | – | 5 | SV2, SV3, SV4, SV5 | 1 | – |
| Atg8a | 2 | None | 2 | SV2 | 2 | SV2 |
| Atg8b | 2 | None | 4 | SV4 | 4 | SV3, SV4 |
| Atg8c | 1 | – | 3 | SV2, SV3 | 3 | SV2, SV3 |
| Atg8d | 1 | – | 3 | SV2, SV3 | 4 | SV2?, SV3, SV4 |
| Atg8e | 2 | None | 1 | – | 3 | None |
| Atg8f | 2 | None | – | – | – | – |
| Atg8g | 1 | – | – | – | – | – |
| Atg8h | 1 | – | – | – | – | – |
| Atg8i | 1 | – | – | – | – | – |
| Atg10(a)b | 2 | None | 1 | – | 6 | SV3, SV4, SV5, SV6 |
| Atg10bb | – | – | 2 | SV1 | – | – |
| Atg12a | 1 | – | 2 | SV2 | 5 | SV2, SV3, SV4, SV5 |
| Atg12b | 1 | – | – | – | – | – |
a
Criteria for SVs without the essential codon solely depend on amino acid sequences deduced from SVs and vary for different Atg genes. For Atg3, Atg7, and Atg10, the essential codon means one that encodes a conserved active-site Cys in the corresponding protein. For Atg8 and Atg12, a codon for the C-terminal Gly residue is important, while the essential codon for Atg4 genes encodes an N-terminal active-site Cys. For Atg5, the codon for a Lys acceptor is essential. See Figure 1 for the positions of these codons within the predicted full-length gene.
b
These genes are single copy in Arabidopsis and maize but duplicated in rice.