1. Annotated protein coding genes: Group of genes Name of genes Subunits of ATP synthase atpA, 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, psbL_copy2, psbM, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps14, 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, ycf2, ycf2_copy2, ycf4 Other genes None Possible missing protein coding genes: Group of genes Name of genes Subunits of ATP synthase atpB 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 rpl22 Small subunit of ribosome rps15 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 ycf15 Other genes None 2. Multicopy genes with different lengths: Genes Length Location psbL 1497 [52505:54002](-) psbL_copy2 117 [63369:63486](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [12748:12892](-) [11550:11959](-) clpP (3/3) [71504:71574](-) [70370:70661](-) [69522:69749](-) ndhA (1/2) [119884:120450](-) ndhB (2/2) [94943:95719](-) [93513:94268](-) ndhB_copy2 (2/2) [139701:140477](+) [141152:141907](+) petB (2/2) [74505:74510](+) [75285:75926](+) petD (2/2) [76131:76138](+) [76921:77395](+) rpl16 (2/2) [82235:82243](-) [80850:81251](-) rpl2 (1/2) [84096:84920](-) rpl2_copy2 (1/2) [150500:151324](+) rpoC1 (2/2) [22803:23234](-) [20441:22042](-) rps12 (3/3) [69265:69378](-) [97094:97325](-) [96532:96557](-) rps16 (2/2) [6131:6171](-) [5019:5232](-) ycf3 (3/3) [44690:44815](-) [43680:43907](-) [42773:42925](-) ### 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 psbL_copy2 ACG rps19 GTG ndhD ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 127 genes (99 unique genes). Including: 82 protein-coding genes (76 are unique) 37 tRNA genes (19 are unique) 8 rRNA genes (4 are unique) Details are as follows: 82 protein-coding genes (76 are unique) Genes Length Location accD 1539 [56881:58419](+) atpA 1524 [9957:11480](-) atpE 405 [52105:52509](-) atpF 555 [12748:12892](-) [11550:11959](-) atpH 246 [13309:13554](-) atpI 744 [14230:14973](-) ccsA 972 [112984:113955](+) cemA 690 [60248:60937](+) clpP 591 [71504:71574](-) [70370:70661](-) [69522:69749](-) infA 177 [79399:79575](-) matK 1512 [2086:3597](-) ndhA 567 [119884:120450](-) ndhB 1533 [94943:95719](-) [93513:94268](-) ndhB_copy2 1533 [139701:140477](+) [141152:141907](+) ndhC 363 [50230:50592](-) ndhD 1503 [114147:115649](-) ndhE 306 [116400:116705](-) ndhF 2232 [109073:111304](-) ndhG 531 [116940:117470](-) ndhH 1182 [120452:121633](-) ndhI 513 [117792:118304](-) ndhJ 477 [48906:49382](-) ndhK 693 [49487:50179](-) petA 963 [61209:62171](+) petB 648 [74505:74510](+) [75285:75926](+) petD 483 [76131:76138](+) [76921:77395](+) petG 114 [65456:65569](+) petL 96 [65191:65286](+) petN 90 [27886:27975](+) psaA 2253 [39713:41965](-) psaB 2205 [37483:39687](-) psaC 246 [115793:116038](-) psaI 102 [58951:59052](+) psaJ 129 [66444:66572](+) psbA 1062 [531:1592](-) psbB 1527 [71999:73525](+) psbC 1422 [33855:35276](+) psbD 1062 [32846:33907](+) psbE 252 [63642:63893](-) psbF 120 [63514:63633](-) psbH 240 [74086:74325](+) psbI 111 [7786:7896](+) psbJ 123 [63102:63224](-) psbK 189 [7143:7331](+) psbL 1497 [52506:54002](-) psbL_copy2 117 [63370:63486](-) psbM 105 [29153:29257](-) psbN 132 [73870:74001](-) psbT 102 [73703:73804](+) psbZ 189 [35975:36163](+) rbcL 1428 [54772:56199](+) rpl14 366 [80342:80707](-) rpl16 411 [82235:82243](-) [80850:81251](-) rpl2 825 [84096:84920](-) rpl20 390 [68090:68479](-) rpl23 135 [84939:85073](-) rpl23_copy2 135 [150347:150481](+) rpl2_copy2 825 [150500:151324](+) rpl32 150 [112076:112225](+) rpl33 201 [67010:67210](+) rpl36 114 [79175:79288](-) rpoA 1011 [77492:78502](-) rpoB 3213 [23261:26473](-) rpoC1 2034 [22803:23234](-) [20441:22042](-) rpoC2 4110 [16141:20250](-) rps11 417 [78574:78990](-) rps12 372 [69265:69378](-) [97094:97325](-) [96532:96557](-) rps14 303 [37059:37361](-) rps16 255 [6131:6171](-) [5019:5232](-) rps18 306 [67527:67832](+) rps19 279 [83733:84011](-) rps2 711 [15195:15905](-) rps3 657 [82394:83050](-) rps4 606 [45524:46129](-) rps7 468 [96011:96478](-) rps7_copy2 468 [138942:139409](+) rps8 405 [79752:80156](-) ycf1 5487 [122304:127790](-) ycf2 6813 [85534:92346](+) ycf2_copy2 6813 [143074:149886](-) ycf3 507 [44690:44815](-) [43680:43907](-) [42773:42925](-) ycf4 555 [59388:59942](+) 37 tRNA genes (19 are unique) Genes Location trnH [14:87](-) trnK [4319:4355](-) [1806:1840](-) trnQ [6752:6823](+) trnS [7992:8079](+) trnR [9805:9876](+) trnC [27308:27378](+) trnD [30311:30384](+) trnY [30783:30866](-) trnE [30929:31001](-) trnT [31494:31565](+) trnM [31500:31558](+) trnS_copy2 [35527:35619](-) trnM_copy2 [36829:36903](-) trnS_copy3 [45090:45176](+) trnT_copy2 [46578:46650](-) trnL [47323:47357](+) [47744:47793](+) trnF [48122:48194](+) trnV [51032:51068](+) [51661:51698](+) trnM_copy3 [51864:51936](+) trnT_copy3 [51870:51928](+) trnW [65700:65773](-) trnP [65955:66028](-) trnI [85372:85445](-) trnL_copy2 [92866:92946](-) trnV_copy2 [98706:98777](+) trnI_copy2 [100788:100829](+) [101768:101802](+) trnA [101873:101910](+) [102729:102763](+) trnR_copy2 [106554:106627](+) trnN [107235:107306](-) trnL_copy3 [112831:112910](+) trnN_copy2 [128114:128185](+) trnR_copy3 [128793:128866](-) trnA_copy2 [133510:133547](-) [132657:132691](-) trnI_copy3 [134591:134632](-) [133618:133652](-) trnV_copy3 [136643:136714](-) trnL_copy4 [142474:142554](+) trnI_copy4 [149975:150048](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [99005:100495](+) rrn23 [102920:105733](+) rrn4.5 [105831:105933](+) rrn5 [106196:106316](+) rrn5_copy2 [129104:129224](-) rrn4.5_copy2 [129487:129589](-) rrn23_copy2 [129687:132500](-) rrn16_copy2 [134925:136415](-) This genome has 18 genes with intron(s). Details are as follows: 15 gene(s) have 1 intron(s) Genes Exons rps16 [6131:6171](-) [5019:5232](-) atpF [12748:12892](-) [11550:11959](-) rpoC1 [22803:23234](-) [20441:22042](-) petB [74505:74510](+) [75285:75926](+) petD [76131:76138](+) [76921:77395](+) rpl16 [82235:82243](-) [80850:81251](-) ndhB [94943:95719](-) [93513:94268](-) ndhB_copy2 [139701:140477](+) [141152:141907](+) trnK [4319:4355](-) [1806:1840](-) trnL [47323:47357](+) [47744:47793](+) trnV [51032:51068](+) [51661:51698](+) trnI_copy2 [100788:100829](+) [101768:101802](+) trnA [101873:101910](+) [102729:102763](+) trnA_copy2 [133510:133547](-) [132657:132691](-) trnI_copy3 [134591:134632](-) [133618:133652](-) 3 gene(s) have 2 intron(s) Genes Exons rps12 [69265:69378](-) [97094:97325](-) [96532:96557](-) ycf3 [44690:44815](-) [43680:43907](-) [42773:42925](-) clpP [71504:71574](-) [70370:70661](-) [69522:69749](-)