Table 2.
List of annotated genes in the chloroplast genomes of the Ilex species
| Function of Genes | Group of Genes | Gene Name |
|---|---|---|
| Protein synthesis and DNA-replication | Transfer RNAs | trnC-GCA, trnD-GUC, trnE-UUC, trnF-GAA, trnfM-CAU, trnG-GCCa, trnG-UCC, trnH-GUG, trnK-UUUa,, trnL-UAAa,, trnM-CAU, trnQ-UUG, trnP-GGG, trnP-UGG, trnR-UCU, trnS-GCU, trnS-GGA, trnS-UGA, trnT-GGU (× 2), trnT-UGU, trnV-UACa,, trnW-CCA, trnY-GUA, trnA-UGCa, (× 2), trnI-CAU (× 2), trnI-GAUa, (× 2), trnL-CAA (× 2), trnL-UAG, trnN-GUU (× 2), trnR-ACG (× 2), trnV-GAC (× 2), trnM-CAU |
| Ribosomal RNAs | rrn4.5 (× 2), rrn5 (× 2), rrn16 (× 2), rrn23 (× 2) | |
| Ribosomal protein large subunit | rpl33, rpl20, rpl36, rpl14, rpl16, rpl22, rpl32, rpl2a, (× 2), rpl23 (× 2) | |
| Ribosomal protein small subunit | rps2, rps14, rps4, rps18, rps11, rps8, rps3, rps19, rps12a, (× 2), rps7 (× 2) | |
| Subunits of RNA polymerase | rpoA, rpoB, rpoC1a,, rpoC2 | |
| Photosynthesis | photosystem I | psaA, psaB, psaC, psaI, psaJ |
| Photosystem II | psbA, psbB, psbC, psbD, psbE, psbF, psbG, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, lhbA | |
| ATP synthase | atpA, atpB, atpE, atpFa,, atpH, atpI | |
| Large subunit Rubisco | rbcL | |
| Cythochrome b/f complex | petA, petBa,, petD, petG, petL, petN | |
| NADH-dehydrogenase | ndhAa,, ndhBa, (× 2), ndhC, ndhD, ndhE, ndhG, ndhH, ndhI, ndhJ, ndhK | |
| Other genes | Translation initiation factor | infA |
| Cytochrome c biogenesis | ccsA | |
| ATP-dependent protease | clpPb | |
| Maturase | matK | |
| Inner membrane protein | cemA | |
| Acetyl-CoA carboxylase | accD | |
| Genes of unknown function | Conserved hypothetical gene | orf42 (× 2), orf56 (× 2), orf188, ycf3b, ycf4, ycf1, ycf2 (× 2), ycf15 (× 2), ycf68 (× 2) |
Note: (× 2) indicates the number of repeat units is 2; aGene contains a single intron; bGene contains two introns