Table 3 Gene composition in Aquilaria khasiana Chloroplast genome. ‘*’ duplicated genes.

Self-replication

Small subunit of ribosome

rps7^*, rps11, rps15^*, rps14, rps19, rps18, rps4, rps3, rps2, rps8, rps12^*, and rps16

Large subunit of ribosome

rpl23^*, rpl20, rpl22, rpl2, rpl36, rpl32^*, rpl33, rpl14, and rpl16

DNA-dependent RNA polymerase

rpoB, rpoA, rpoC2, rpoC1

Ribosomal RNA genes

rrn16S^*, rrn5S^*, rrn23S^*, and rrn4.5 S^*

Transfer RNA genes

trnL-UAG^*, trnN-GUU^*, trnR-ACG^*, trnA-UGC^*, trnE-UUC^*, trnV-GAC^*, trnL-CAA^*, trnM-CAU^*, trnH-GUG, trnK-UUU, trnQ-UUG, trnS-GCU, trnS-CGA, trnR-UCU, trnC-GCA, trnD-GUC, trnY-GUA, trnT-GGU, trnS-UGA, trnG-GCC, trnS-GGA, trnT-UGU, trnL-UAA, trnF-GAA, trnP-UGG, and trnW-CCA

Genes for photosynthesis

Subunits of NADH dehydrogenase

ndhB^*, ndhC, ndhA^*, ndhF, ndhG^*, ndhD^*, ndhE^*, ndhJ, ndhK, ndhH^*, and ndhI^*

Large subunit of Rubisco

rbcL

Subunits of photosystem I

psaI, psaJ, psaB, psaC^*, ycf4, ycf3, and psaA

Subunits of photosystem II

psbE, psbD, psbF, psbA, psbC, psbB, psbM, psbL, psbN, psbI, psbH, psbK, psbJ, psbT, and psbZ

Subunits of ATP synthase

atpI, atpH, atpB, atpA, atpF, and atpE

Subunits of cytochrome

petD, petG, petA, petB, petL, and petN

Other genes

Envelope membrane protein

cemA

C-type cytochrome synthesis gene

ccsA^*

Maturase

matK

Component of TIC complex

ycf1

Genes of unknown function

Conserved open reading frames

ycf2

Pseudo genes

ycf1