Table 2 Conserved nucleotides in gymnosperm chloroplast tRNAs. AC arm: acceptor arm; ANC arm: anticodon arm; ANC loop: anticodon loop; Ψ-arm: pseudouridine arm; Ψ-loop: pseudouridine loop
From: Evolution and structural variations in chloroplast tRNAs in gymnosperms
tRNA Isotype | Anticodon | AC arm | D-arm | D-loop | ANC arm | ANC loop | Variable region | Ψ-arm | Ψ-loop |
|---|---|---|---|---|---|---|---|---|---|
Ala | UGC | G-G-G-G-A-U-A | G-C-U-C | A-G-U-U-G-G-U-A | C-C-G-C-U | C-U-U-G-C-A-A | A-U-G-U-C | A-G-C-G-G | U-U-C-G-A-G-U |
Gly | GCC | G-C-G-G-G-U-A | G-U-X0–1 | G0–1-A-A-U-G-G-U-A-X0–1 | U-C-U-C-C/U | U-U-G-C-C-A-A/G | A-G-A-U | G-C-G-G-G | U-U-C-G-A-U-C/U |
UCC | G-C-G-G-G-U-A | G-U-U-U | A-G-U-G-G-U-A | U-A-G-C | C-U-U-C-C-A-A | A-C-G-A-U | G-C-G-G-G | U-U-C-G-A-U-U | |
Pro | GGG | C-G-G-A/G-G-U/C-A | A/G-C-G-C | A-G-C/U-U-U-G-G-U-A | C-C-A-U-C | U-U-G-G-G-G-U | A-A/G-G-U-C | G-C/U-G-G-G | U-U-C-A-A/G-A-U |
UGG | A-G-G-G-A-U-G | G-C-G-C | A-G-C-U-U-G-G-U-A | U-U-U-G-U | U-U-U-G-G-G-U | A-U-G-U-C | G-C-G/A-G-G | U-U-C-A-A-A-U | |
Thr | GGU | G0–1-C-C-C-U-U-U | A/G-C-U-C | A-G-X-G-G-G-U-A | A-X-G-C-C | A-U-G-G-U-A-A | A-G-G-U-C | A-U-C-G-G | U-U-C-A-A-A/G-U/C |
UGU | X0–1-G-C-C-U/C-G-C-U | G-C-U-C | A-G-A-G-G-U-U/G-A | U0–1-C-G-C-A | C-U-U-G-U-A-A | U/C-G-G-U-C | A-U-C-G-G | U-U-C-G-A-U-U/C | |
Ser | GCU | G-G-A-G-A-G-A | G-C-U | G-A-G-X-G-G-A-C/U-C/U-A-A | G-U/C-G-G-A | U-U-G-C-U-A-A | G-U-A-C-X2–3 | G-A-G-G-G | U-U-C-G-A-A-U |
GGA | G-G-A-A-A-G-A | G-C-C/U | G-A-G-C/U-G-G-U-U-C-A-A | U-A-G-C-A | U-U-G-G-A-A-C | G-U-A-G-X-C/U | G-A/G-G-G-G | U-U-C-G-A-A-U | |
UGA | G-G-A-G-A-G-A | G-C-C-G | A-G-U-G-G-U-U-X-A | C-C/U-G-G-U | C-U-U-G-A-A-A | A-U-A-G-X0–2 | G-A-G-G-G | U-U-C-A/G-A-A-U | |
Val | GAC | A-G-G-G-A-U-A | A-C-U-C | A-G-C/U-G-G-U/G-A | U-C-A-C-C/U | U-U-G-A-C-X-U | U/A-A-G-U-C | A-U-C-A/G-G | U-U-C-G/A-A-X2 |
UAC | A-G-G-G-C-U-A | G-C-U-C | A-G-C-X1–2-G-G-U-A | C-U-C-G | U-U-U-A-C-A-C-X0–2 | A-A-G-G-U-C | U-A-C-G-G | U-U-C-G-A-G-C/U | |
Arg | ACG | G-G-G-C-C-U-G | G-C-U-C | A-G-A-G-G-A-U-X-A | C-G-U-G-G | C/U-U-A-C-G-A-A | G-U-G-U-C | G-G-G-G-G | U-U-C-A/G-A-A-U |
CCG | G-G-G-U-U-A/G-G | G-C-U-C | A-G-U-G-G-A-U-C-A | C-A-U-G-G | U-U/C-C-C-G-G-A | G/A-G/A-G-U/C-C | A-A-G-G-G | U-U-C-A/G-A-A-U | |
UCU | G/A-C-G-U-C-C-A | G-U-C-U | A-A-U-G-G-A-U/A-A | G-A/G-G-G-U | C-U-U-C-U-A-A | X2-G-U | A-U-A-G-G | U-U-C-A/G-A-A-U | |
Leu | CAA | G-C-C-U-U-G-A | G-U-G | G/A-A-A-U-G-G-U-A-G-A | C-G-A-G/C-A0–1 | X1–2-U-C-A-A-A-A-X0–1 | G-C-U | G/A-G-A-G-G | U-U-C-G-A-A/G-U |
GAG | G-G-G-C-U-A-U | G-C-U-C | A-G-C-G-G-U-A | U-G-C-C-C | C-U-G-A-G-A-A | G-G-G-U-C | U-C-U-G-G | U-U-C-A-A-G-U | |
UAA | G-G-G-G-A-U-A | G-C-G | G-A-A-U-U/C-G-G-U-A-G/C-A | A-C-G-G-A | C-U-U-A-A-A-A | X2–15-U | G-A-G-G-G | U-U-C-A/G-A-A/G-U | |
UAG | G-C-C-G-C-C-A | G-U-G | A-A-A-U-U/A-G-G-U-A-G-A | C-C/U-G-C/U-U | C-U-U-A-G-G-X | X0–1-G-C-X8 | C-U-C-G-G | U-U-C-A/G-A-A-U | |
Lys | UUU | G-U-U-G-X | A-C-U-C | A-A-U-G-G-U/C-A | U-C-G-G | C-U-U-U-U-A-A | X2-A-G-C/U-U | C-C-G-G-G | U-U-C-A/G-A-A/G-U |
Phe | GAA | G-C-C-G-G-G-A | G-C-U-C | A-G-U-U-G-G-U-A | G-A-G-G-A | C-U-G-A-A-A-A | G-U-G-C/U-C | A-C-C-A-G | U-U-C-A-A-X-U |
Asn | GUU | U-C-C-U/C-C-A-A/G | G-C-U-C | A-G-X-G-G-U-A | G-U-C-G-G | C-U-G-U-U-A-A | U-A/G-G-U-C | G-U-A-G-G | U-U-C-A/G-A-A-U |
Asp | GUC | G-G-G-A-U-U-G | G-U-U-C | A-A-U-U-G-G-U-C/U-A | C-C-G-C/U-C | C-U-G-U-C-A-A | A-A-G-U-U | G/A-C-G-G-G | U-U-C-G-A-G-C/U |
Glu | UUC | G-C-C-C-C-U-A | G-U-C-U | A-G-U-G-G-X-C-C-A | U-C-U-C-U | C-U-U-U-C-A-A | C-A-A/G-C | G-G-G-G-A | U-U-C-G-A-X-U |
His | GUG | G-X-G-G-A-C-G | G-C-C | A-A-G-U-G-G-X2–4-A-A | G-U-G-G-A | U-U-G-U-G-A-A | C-A-C-G/A-C | G-C-G-G-G | U-U-C-A/G-A-U-C/U |
Gln | UUG | U-G-G-G-G-C/U-G | G-C-C | A-A-G-C/U-G-G-U-A-A | A/G-C-A/G-G-G | U-U-U-U-G-A/G-U | U-A-X2–3-C | G-A/G-A-G-G | U-U-C-G-A-A-U |
fMet | CAU | X0–1-G-C-G-G-A/G-G | G-A-G-C/U | A-G-U/C-U/C-U-G-G-U-A | C-A/G-A-G-G | C-U-C-A-U-A-A | A-A/G-G-X-C | A-C/U-G-G-G | U-U-C-A-A-A-U |
Met | CAU | A/G-C-C/A-C/U-A-C-U/A | X-C-U-C | A-A/G-U-G-G-U/G-U-A | U/C-C-X3 | C/U-U-C-A-U-A-A/C | G/A-A/G-G-U-C | X-U-U-G-G | U-U-C-A-A-X-U |
Ile | CAU | G-C/U-A-U-C-C/U-A | G-C-U | G-A-A-U/C-G-G-U-U/A-A-A | C-C-C-A-A | C-U-C-A-U-A-A | A-A-X-U-C | G-C-A/G-G-G | U-U-C-A-A-U-U |
GAU | G-G-G-C-U-X2 | G-C-U-C | A-G-C/U-G-G-U-A | C-G-C-C-C | C-U-X-A-U-A-A | A-G-G-U/A-C | X-C-X-G-G | U-U-C-A-A-X2 | |
Tyr | GUA | G-G-G-U-C-G-A | C-C-C-G | A-G-U-G-G-C/U-U-A/C-A | A-C-G-G-X | X-U-G-U-A-A-A | G-G-X1–14 | G-C-U/A-G/A-G/U | U-U-C-A-A-A-U |
Cys | GCA | G-G-X-G-A/G-C/U-A | G-C-C | A-A-G-U/C-G-G-U-A-A | G/C-A/G-A/G-G-A | C-U-G-C-A-A-A | X-A-U-C | C-C-C-A-G | U-U-C-A/G-A-A-U |
Trp | CCA | X2-G-C-U-C-U | G-U-U-X | A-G-X3-G-G-U-A | X2-G-G-U | C-U-C-C-A-A-A | A-U-G-U/C-C | G-U-A-G-G | U-U-C-A-A-A-U |