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, 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, 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, ycf2, ycf2_copy2, ycf4 Other genes None 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 psbN Large subunit of ribosome rpl22 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 None None None 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13933:14076](-) [12815:13225](-) clpP (3/3) [75817:75885](-) [74743:75033](-) [73867:74112](-) ndhA (2/2) [126639:127189](-) [125021:125561](-) ndhB (2/2) [100200:100976](-) [98744:99499](-) ndhB_copy2 (2/2) [147070:147846](+) [148547:149302](+) petB (2/2) [78772:78777](+) [79562:80203](+) petD (1/2) [81061:81585](+) rpl16 (1/2) [85049:85459](-) rpl2 (2/2) [89189:89575](-) [88099:88530](-) rpl2_copy2 (2/2) [158471:158857](+) [159516:159947](+) rpoC1 (2/2) [24426:24859](-) [22059:23703](-) rps12 (3/3) [73602:73715](-) [102392:102623](-) [101830:101855](-) rps16 (2/2) [6044:6087](-) [5004:5220](-) ycf3 (3/3) [46851:46976](-) [45884:46110](-) [45001:45154](-) ### 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 GTG psbL TTG rpl16 ATC rps19 GTG rpl2 ATA ndhD ATA rpl2_copy2 ATA 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 129 genes (112 unique genes). Including: 84 protein-coding genes (78 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 84 protein-coding genes (78 are unique) Genes Length Location accD 1431 [60658:62088](+) atpA 1524 [11222:12745](-) atpB 1497 [56312:57808](-) atpE 405 [55911:56315](-) atpF 555 [13933:14076](-) [12815:13225](-) atpH 246 [14549:14794](-) atpI 744 [15890:16633](-) ccsA 966 [119618:120583](+) cemA 690 [64813:65502](+) clpP 606 [75817:75885](-) [74743:75033](-) [73867:74112](-) infA 234 [83622:83855](-) matK 1524 [2099:3622](-) ndhA 1092 [126639:127189](-) [125021:125561](-) ndhB 1533 [100200:100976](-) [98744:99499](-) ndhB_copy2 1533 [147070:147846](+) [148547:149302](+) ndhC 363 [52639:53001](-) ndhD 1479 [120806:122284](-) ndhE 306 [122955:123260](-) ndhF 2226 [114680:116905](-) ndhG 531 [123521:124051](-) ndhH 1182 [127191:128372](-) ndhI 543 [124400:124942](-) ndhJ 477 [51326:51802](-) ndhK 678 [51902:52579](-) petA 963 [65706:66668](+) petB 648 [78772:78777](+) [79562:80203](+) petD 525 [81061:81585](+) petG 114 [70096:70209](+) petL 96 [69823:69918](+) petN 90 [30330:30419](+) psaA 2253 [42067:44319](-) psaB 2205 [39837:42041](-) psaC 246 [122431:122676](-) psaI 111 [62743:62853](+) psaJ 135 [70987:71121](+) psbA 1062 [471:1532](-) psbB 1527 [76317:77843](+) psbC 1422 [36353:37774](+) psbD 1062 [35344:36405](+) psbE 252 [68382:68633](-) psbF 120 [68253:68372](-) psbH 222 [78430:78651](+) psbI 111 [9020:9130](+) psbJ 123 [67863:67985](-) psbK 186 [8432:8617](+) psbL 81 [68111:68191](-) psbM 105 [31159:31263](-) psbT 108 [78024:78131](+) psbZ 189 [38440:38628](+) rbcL 1428 [58568:59995](+) rpl14 369 [84550:84918](-) rpl16 411 [85049:85459](-) rpl2 819 [89189:89575](-) [88099:88530](-) rpl20 354 [72464:72817](-) rpl23 285 [89600:89884](-) rpl23_copy2 285 [158162:158446](+) rpl2_copy2 819 [158471:158857](+) [159516:159947](+) rpl32 174 [118048:118221](+) rpl33 201 [71556:71756](+) rpl36 114 [83393:83506](-) rpoA 1014 [81776:82789](-) rpoB 3213 [24886:28098](-) rpoC1 2079 [24426:24859](-) [22059:23703](-) rpoC2 4149 [17761:21909](-) rps11 417 [82858:83274](-) rps12 372 [73602:73715](-) [102392:102623](-) [101830:101855](-) rps14 303 [39395:39697](-) rps15 273 [128477:128749](-) rps16 261 [6044:6087](-) [5004:5220](-) rps18 306 [71888:72193](+) rps19 279 [87759:88037](-) rps2 711 [16831:17541](-) rps3 660 [86563:87222](-) rps4 606 [47771:48376](-) rps7 468 [101304:101771](-) rps7_copy2 468 [146275:146742](+) rps8 399 [83973:84371](-) ycf1 5577 [129130:134706](-) ycf15 234 [97196:97429](+) ycf15_copy2 234 [150617:150850](-) ycf2 6897 [90184:97080](+) ycf2_copy2 6897 [150966:157862](-) ycf3 507 [46851:46976](-) [45884:46110](-) [45001:45154](-) ycf4 555 [63310:63864](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [12:86](-) trnK-UUU [4321:4357](-) [1795:1829](-) trnQ-UUG [8031:8103](-) trnS-GCU [9270:9357](-) trnG-UCC [10054:10077](+) [10844:10891](+) trnR-UCU [11039:11110](+) trnC-GCA [29197:29277](+) trnD-GUC [32429:32502](-) trnY-GUA [32900:32983](-) trnE-UUC [33043:33115](-) trnT-GGU [33853:33924](+) trnS-UGA [38010:38102](-) trnG-GCC [38920:38990](+) trnfM-CAU [39161:39234](-) trnS-GGA [47410:47496](+) trnT-UGU [48741:48813](-) trnL-UAA [49586:49620](+) [50112:50161](+) trnF-GAA [50519:50591](+) trnV-UAC [55405:55443](-) [54784:54820](-) trnM-CAU [55620:55691](+) trnW-CCA [70330:70403](-) trnP-UGG [70564:70637](-) trnI-CAU [90042:90115](-) trnL-CAA [98103:98183](-) trnV-GAC [104452:104523](+) trnI-GAU [106535:106576](+) [107513:107547](+) trnA-UGC [107612:107649](+) [108449:108483](+) trnR-ACG [112230:112303](+) trnN-GUU [112915:112986](-) trnL-UAG [119441:119520](+) trnN-GUU_copy2 [135060:135131](+) trnR-ACG_copy2 [135743:135816](-) trnA-UGC_copy2 [140397:140434](-) [139563:139597](-) trnI-GAU_copy2 [141470:141511](-) [140499:140533](-) trnV-GAC_copy2 [143523:143594](-) trnL-CAA_copy2 [149863:149943](+) trnI-CAU_copy2 [157931:158004](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [104751:106241](+) rrn23 [108643:111446](+) rrn4.5 [111545:111647](+) rrn5 [111866:111986](+) rrn5_copy2 [136060:136180](-) rrn4.5_copy2 [136399:136501](-) rrn23_copy2 [136607:139410](-) rrn16_copy2 [141805:143295](-) This genome has 20 genes with intron(s). Details are as follows: 17 gene(s) have 1 intron(s) Genes Exons rps16 [6044:6087](-) [5004:5220](-) atpF [13933:14076](-) [12815:13225](-) rpoC1 [24426:24859](-) [22059:23703](-) petB [78772:78777](+) [79562:80203](+) rpl2 [89189:89575](-) [88099:88530](-) ndhB [100200:100976](-) [98744:99499](-) ndhA [126639:127189](-) [125021:125561](-) ndhB_copy2 [147070:147846](+) [148547:149302](+) rpl2_copy2 [158471:158857](+) [159516:159947](+) trnK-UUU [4321:4357](-) [1795:1829](-) trnG-UCC [10054:10077](+) [10844:10891](+) trnL-UAA [49586:49620](+) [50112:50161](+) trnV-UAC [55405:55443](-) [54784:54820](-) trnI-GAU [106535:106576](+) [107513:107547](+) trnA-UGC [107612:107649](+) [108449:108483](+) trnA-UGC_copy2 [140397:140434](-) [139563:139597](-) trnI-GAU_copy2 [141470:141511](-) [140499:140533](-) 3 gene(s) have 2 intron(s) Genes Exons rps12 [73602:73715](-) [102392:102623](-) [101830:101855](-) ycf3 [46851:46976](-) [45884:46110](-) [45001:45154](-) clpP [75817:75885](-) [74743:75033](-) [73867:74112](-)