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, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, rpl22_copy2, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps16, rps18, rps19, rps19_copy2, 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 lhbA 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 psbZ 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 ycf15 Other genes None 2. Multicopy genes with different lengths: Genes Length Location None None None 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [11851:11995](-) [10667:11076](-) clpP (3/3) [70409:70479](-) [69336:69626](-) [68420:68669](-) ndhA (2/2) [115280:115823](+) [116870:117399](+) ndhB (2/2) [95064:95838](-) [93606:94363](-) ndhB_copy2 (2/2) [140152:140926](+) [141627:142384](+) petB (2/2) [73325:73330](+) [74122:74763](+) petD (2/2) [74966:74971](+) [75741:76256](+) rpl16 (2/2) [81127:81135](-) [79705:80106](-) rpl2 (2/2) [84053:84461](-) [82965:83392](-) rpl2_copy2 (2/2) [151529:151937](+) [152598:153025](+) rpoC1 (2/2) [21796:22227](-) [19497:21104](-) rps12 (3/3) [68180:68293](-) [97252:97480](-) [96676:96701](-) rps12_copy2 (3/3) [68180:68293](-) [138510:138738](+) [139289:139314](+) rps16 (2/2) [5668:5707](-) [4601:4812](-) ycf3 (3/3) [42935:43065](-) [41982:42210](-) [41090:41248](-) ### 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 cemA TTG rpl2 ATA ndhD ATC rpl2_copy2 ATA 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 133 genes (113 unique genes). Including: 87 protein-coding genes (79 are unique) 38 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 87 protein-coding genes (79 are unique) Genes Length Location accD 1458 [55968:57425](+) atpA 1524 [9062:10585](-) atpB 1497 [51833:53329](-) atpE 405 [51432:51836](-) atpF 555 [11851:11995](-) [10667:11076](-) atpH 246 [12460:12705](-) atpI 744 [13276:14019](-) ccsA 972 [121840:122811](-) cemA 642 [60889:61530](-) clpP 612 [70409:70479](-) [69336:69626](-) [68420:68669](-) infA 234 [78293:78526](-) lhbA 189 [34567:34755](+) matK 1530 [1693:3222](-) ndhA 1074 [115280:115823](+) [116870:117399](+) ndhB 1533 [95064:95838](-) [93606:94363](-) ndhB_copy2 1533 [140152:140926](+) [141627:142384](+) ndhC 366 [48666:49031](-) ndhD 1506 [120112:121617](+) ndhE 306 [119088:119393](+) ndhF 2208 [124759:126966](+) ndhG 537 [118391:118927](+) ndhH 1182 [114097:115278](+) ndhI 534 [117500:118033](+) ndhJ 477 [47344:47820](-) ndhK 753 [47926:48678](-) petA 969 [59705:60673](-) petB 648 [73325:73330](+) [74122:74763](+) petD 522 [74966:74971](+) [75741:76256](+) petG 114 [64682:64795](+) petL 96 [64373:64468](+) petN 90 [27206:27295](+) psaA 2253 [38201:40453](-) psaB 2205 [35971:38175](-) psaC 246 [119748:119993](+) psaI 111 [58136:58246](+) psaJ 129 [65506:65634](+) psbA 1062 [105:1166](-) psbB 1527 [70882:72408](+) psbC 1422 [32583:34004](+) psbD 1062 [31574:32635](+) psbE 252 [62983:63234](-) psbF 120 [62853:62972](-) psbH 222 [72985:73206](+) psbI 111 [7114:7224](+) psbJ 123 [62466:62588](-) psbK 186 [6626:6811](+) psbL 117 [62714:62830](-) psbM 105 [28220:28324](-) psbN 132 [72742:72873](-) psbT 108 [72569:72676](+) rbcL 1443 [53943:55385](+) rpl14 369 [79212:79580](-) rpl16 411 [81127:81135](-) [79705:80106](-) rpl2 837 [84053:84461](-) [82965:83392](-) rpl20 366 [67068:67433](-) rpl22 309 [82017:82325](-) rpl22_copy2 309 [153665:153973](+) rpl23 282 [84468:84749](-) rpl23_copy2 282 [151241:151522](+) rpl2_copy2 837 [151529:151937](+) [152598:153025](+) rpl32 162 [123755:123916](-) rpl33 201 [66134:66334](+) rpl36 114 [78053:78166](-) rpoA 1026 [76410:77435](-) rpoB 3204 [22254:25457](-) rpoC1 2040 [21796:22227](-) [19497:21104](-) rpoC2 4038 [15292:19329](-) rps11 417 [77504:77920](-) rps12 369 [68180:68293](-) [97252:97480](-) [96676:96701](-) rps12_copy2 369 [68180:68293](-) [138510:138738](+) [139289:139314](+) rps14 303 [35531:35833](-) rps15 273 [113730:114002](+) rps16 252 [5668:5707](-) [4601:4812](-) rps18 306 [66501:66806](+) rps19 210 [82436:82645](-) rps19_copy2 210 [153345:153554](+) rps2 714 [14267:14980](-) rps3 654 [81292:81945](-) rps4 606 [44073:44678](-) rps7 468 [96150:96617](-) rps7_copy2 468 [139373:139840](+) rps8 399 [78643:79041](-) ycf1 5589 [107836:113424](+) ycf2 6897 [85057:91953](+) ycf2_copy2 6897 [144037:150933](-) ycf3 519 [42935:43065](-) [41982:42210](-) [41090:41248](-) ycf4 561 [58587:59147](+) 38 tRNA genes (30 are unique) Genes Location trnK-UUU [4008:4044](-) [1399:1433](-) trnQ-UUG [6229:6300](-) trnS-GCU [7371:7458](-) trnG-UCC [7978:8000](+) [8731:8778](+) trnR-UCU [8863:8934](+) trnC-GCA [26676:26746](+) trnD-GUC [29289:29362](-) trnY-GUA [29727:29810](-) trnE-UUC [29870:29942](-) trnT-GGU [30536:30607](+) trnS-UGA [34139:34231](-) trnG-GCC [35074:35144](+) trnfM-CAU [35298:35371](-) trnS-GGA [43689:43775](+) trnT-UGU [45007:45079](-) trnL-UAA [45932:45966](+) [46475:46524](+) trnF-GAA [46904:46976](+) trnV-UAC [50998:51036](-) [50378:50414](-) trnM-CAU [51202:51273](+) trnW-CCA [64908:64981](-) trnP-UGG [65145:65218](-) trnH-GUG [82847:82921](+) trnI-CAU [84915:84988](-) trnL-CAA [92966:93046](-) trnV-GAC [99294:99365](+) trnI-GAU [101386:101427](+) [102368:102402](+) trnA-UGC [102458:102495](+) [103298:103332](+) trnR-ACG [107086:107159](+) trnN [107440:107511](-) trnL-UAG [122892:122971](-) trnN_copy2 [128479:128550](+) trnR-ACG_copy2 [128831:128904](-) trnA-UGC_copy2 [133495:133532](-) [132658:132692](-) trnI-GAU_copy2 [134563:134604](-) [133588:133622](-) trnV-GAC_copy2 [136625:136696](-) trnL-CAA_copy2 [142944:143024](+) trnI-CAU_copy2 [151002:151075](+) trnH-GUG_copy2 [153069:153143](-) 8 rRNA genes (4 are unique) Genes Location rrn16S [99593:101083](+) rrn23S [103483:106297](+) rrn4.5S [106396:106498](+) rrn5S [106709:106829](+) rrn5S_copy2 [129161:129281](-) rrn4.5S_copy2 [129492:129594](-) rrn23S_copy2 [129693:132507](-) rrn16S_copy2 [134907:136397](-) This genome has 23 genes with intron(s). Details are as follows: 19 gene(s) have 1 intron(s) Genes Exons rps16 [5668:5707](-) [4601:4812](-) atpF [11851:11995](-) [10667:11076](-) rpoC1 [21796:22227](-) [19497:21104](-) petB [73325:73330](+) [74122:74763](+) petD [74966:74971](+) [75741:76256](+) rpl16 [81127:81135](-) [79705:80106](-) rpl2 [84053:84461](-) [82965:83392](-) ndhB [95064:95838](-) [93606:94363](-) ndhA [115280:115823](+) [116870:117399](+) ndhB_copy2 [140152:140926](+) [141627:142384](+) rpl2_copy2 [151529:151937](+) [152598:153025](+) trnK-UUU [4008:4044](-) [1399:1433](-) trnG-UCC [7978:8000](+) [8731:8778](+) trnL-UAA [45932:45966](+) [46475:46524](+) trnV-UAC [50998:51036](-) [50378:50414](-) trnI-GAU [101386:101427](+) [102368:102402](+) trnA-UGC [102458:102495](+) [103298:103332](+) trnA-UGC_copy2 [133495:133532](-) [132658:132692](-) trnI-GAU_copy2 [134563:134604](-) [133588:133622](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [68180:68293](-) [97252:97480](-) [96676:96701](-) ycf3 [42935:43065](-) [41982:42210](-) [41090:41248](-) rps12_copy2 [68180:68293](-) [138510:138738](+) [139289:139314](+) clpP [70409:70479](-) [69336:69626](-) [68420:68669](-)