1. Annotated protein coding genes: Group of genes Name of genes Subunits of ATP synthase atpA, atpB, atpE, atpF, atpH, atpI Subunits of NADH-dehydrogenase ndhA, ndhB, ndhB_copy2, ndhC, ndhD, ndhE, ndhF, ndhG, ndhH, ndhI, ndhJ, ndhK Subunits of cytochrome b/f complex petA, petB, petD, petG, petL, petN Subunits of photosystem I psaA, psaB, psaC, psaI, psaJ Subunits of photosystem II psbA, psbB, psbC, psbD, psbE, psbF, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps16, rps18, rps19, rps2, rps3, rps4, rps7, rps7_copy2, rps8 DNA dependent RNA polymerase rpoA, rpoB, rpoC1, rpoC2 Subunit of rubisco rbcL c-type cytochrom synthesis gene ccsA Envelop membrane protein cemA Maturase matK Protease clpP Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf1, ycf15, ycf15_copy2, ycf1_copy2, ycf2, ycf2_copy2, ycf4 Other genes orf88 Possible missing protein coding genes: Group of genes Name of genes Subunits of ATP synthase None Subunits of NADH-dehydrogenase None Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II None Large subunit of ribosome None Small subunit of ribosome None DNA dependent RNA polymerase None Subunit of rubisco None c-type cytochrom synthesis gene None Envelop membrane protein None Maturase None Protease None Subunit of Acetyl-CoA-carboxylase None Translational initiation factor None Conserved open reading frames None Other genes None 2. Multicopy genes with different lengths: Genes Length Location rpl2 828 join{[83183:83576](-), [82080:82515](-)} rpl2_copy2 825 join{[148138:148529](+), [149200:149634](+)} ycf1 828 [106553:107381](+) ycf1_copy2 5256 [119905:125161](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [12173:12315](-) [11044:11515](-) clpP (3/3) [70018:70085](-) [68995:69287](-) [68164:68438](-) ndhA (2/2) [117415:117967](-) [115972:116510](-) ndhB (2/2) [93734:94510](-) [92294:93049](-) ndhB_copy2 (2/2) [137205:137981](+) [138666:139421](+) petB (2/2) [72933:72941](+) [73649:74302](+) petD (1/2) [75200:75724](+) rpl16 (2/2) [80438:80446](-) [79145:79546](-) rpl2 (2/2) [83184:83576](-) [82081:82515](-) rpl2_copy2 (2/2) [148139:148529](+) [149201:149634](+) rpoC1 (2/2) [22512:22945](-) [20100:21729](-) rps12 (3/3) [67936:68049](-) [95873:96104](-) [95311:95336](-) rps12_copy2 (3/3) [67936:68049](-) [135611:135842](+) [136379:136404](+) rps16 (2/2) [5628:5662](-) [4501:4726](-) ycf3 (3/3) [43308:43435](-) [42364:42592](-) [41496:41648](-) ### The exon column shows the number of (actual exons/expected exons). ### 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbC GTG ycf15 GTG ndhD GTG ycf15_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 134 genes (115 unique genes). Including: 89 protein-coding genes (81 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 89 protein-coding genes (81 are unique) Genes Length Location accD 1476 [56442:57917](+) atpA 1524 [9454:10977](-) atpB 1497 [51994:53490](-) atpE 402 [51596:51997](-) atpF 615 [12173:12315](-) [11044:11515](-) atpH 246 [12685:12930](-) atpI 735 [13894:14628](-) ccsA 975 [110673:111647](+) cemA 690 [59886:60575](+) clpP 636 [70018:70085](-) [68995:69287](-) [68164:68438](-) infA 234 [77707:77940](-) matK 1530 [1918:3447](-) ndhA 1092 [117415:117967](-) [115972:116510](-) ndhB 1533 [93734:94510](-) [92294:93049](-) ndhB_copy2 1533 [137205:137981](+) [138666:139421](+) ndhC 363 [49080:49442](-) ndhD 1521 [111894:113414](-) ndhE 306 [113998:114303](-) ndhF 2211 [107301:109511](-) ndhG 531 [114524:115054](-) ndhH 1182 [117969:119150](-) ndhI 507 [115381:115887](-) ndhJ 477 [47774:48250](-) ndhK 843 [48358:49200](-) orf88 567 [117401:117967](-) petA 963 [60792:61754](+) petB 663 [72933:72941](+) [73649:74302](+) petD 525 [75200:75724](+) petG 114 [64427:64540](+) petL 96 [64154:64249](+) petN 90 [27828:27917](+) psaA 2253 [38639:40891](-) psaB 2205 [36409:38613](-) psaC 246 [113498:113743](-) psaI 111 [58635:58745](+) psaJ 135 [65241:65375](+) psbA 1059 [379:1437](-) psbB 1527 [70464:71990](+)