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 None Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf1, ycf15, ycf15_copy2, ycf1_copy2, ycf2, ycf2_copy2, ycf4, ycf68, ycf68_copy2 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 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 clpP 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) [43300:43458](+) [44157:44633](+) ndhA (2/2) [130045:130596](-) [128322:128861](-) ndhB (2/2) [98768:99543](-) [97341:98097](-) ndhB_copy2 (2/2) [150815:151590](+) [152261:153017](+) petB (1/2) [78156:78806](+) petD (1/2) [79762:80286](+) rpl16 (2/2) [85123:85131](-) [83743:84135](-) rpl2 (2/2) [87953:88345](-) [86837:87268](-) rpl2_copy2 (2/2) [162013:162405](+) [163091:163522](+) rpoC1 (2/2) [32380:32835](+) [33599:35218](+) rps12 (2/3) [50380:50493](+) [149157:149411](+) rps12_copy2 (2/3) [50380:50493](+) [100947:101201](-) rps16 (2/2) [6034:6073](-) [4906:5117](-) ycf3 (3/3) [10485:10610](+) [11358:11585](+) [12377:12529](+) ### 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 psbI ATC rps18 CTG accD TTG psbT ATT rps19 GTG ndhD ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 135 genes (114 unique genes). Including: 89 protein-coding genes (80 are unique) 38 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 89 protein-coding genes (80 are unique) Genes Length Location accD 636 [61852:62487](-) atpA 1524 [44705:46228](+) atpB 1497 [65550:67046](-) atpE 402 [65152:65553](-) atpF 636 [43300:43458](+) [44157:44633](+) atpH 246 [42671:42916](+) atpI 744 [40520:41263](+) ccsA 957 [122832:123788](+) cemA 690 [59053:59742](-) infA 234 [82334:82567](-) matK 1530 [1866:3395](-) ndhA 1092 [130045:130596](-) [128322:128861](-) ndhB 1533 [98768:99543](-) [97341:98097](-) ndhB_copy2 1533 [150815:151590](+) [152261:153017](+) ndhC 363 [70498:70860](+) ndhD 1503 [124040:125542](-) ndhE 306 [126165:126470](-) ndhF 2238 [118166:120403](-) ndhG 531 [126703:127233](-) ndhH 1182 [130598:131779](-) ndhI 504 [127736:128239](-) ndhJ 477 [71704:72180](+) ndhK 855 [70740:71594](+) petA 963 [57963:58925](-) petB 651 [78156:78806](+) petD 525 [79762:80286](+) petG 114 [54354:54467](-) petL 96 [54637:54732](-) petN 90 [27603:27692](-) psaA 2253 [14031:16283](+) psaB 2205 [16309:18513](+) psaC 246 [125661:125906](-) psaI 111 [61369:61479](-) psaJ 129 [53412:53540](-) psbA 1062 [281:1342](-) psbB 1521 [74871:76391](+) psbC 1422 [20544:21965](-) psbD 1062 [21913:22974](-) psbE 252 [56021:56272](+) psbF 120 [56282:56401](+) psbH 222 [77020:77241](+) psbI 156 [48498:48653](-) psbJ 123 [56708:56830](+) psbK 192 [49019:49210](-) psbL 117 [56424:56540](+) psbM 105 [27126:27230](+) psbN 132 [76774:76905](-) psbT 117 [76597:76713](+) psbZ 189 [19690:19878](-) rbcL 1449 [67839:69287](+) rpl14 369 [83237:83605](-) rpl16 402 [85123:85131](-) [83743:84135](-) rpl2 825 [87953:88345](-) [86837:87268](-) rpl20 387 [51436:51822](+) rpl22 483 [85973:86455](-) rpl23 282 [88364:88645](-) rpl23_copy2 282 [161713:161994](+) rpl2_copy2 825 [162013:162405](+) [163091:163522](+) rpl32 138 [121415:121552](+) rpl33 201 [52726:52926](-) rpl36 114 [82099:82212](-) rpoA 984 [80524:81507](-) rpoB 3213 [29162:32374](+) rpoC1 2076 [32380:32835](+) [33599:35218](+) rpoC2 3999 [35380:39378](+) rps11 402 [81588:81989](-) rps12 369 [50380:50493](+) [149157:149411](+) rps12_copy2 369 [50380:50493](+) [100947:101201](-) rps14 303 [18634:18936](+) rps15 273 [131874:132146](-) rps16 252 [6034:6073](-) [4906:5117](-) rps18 354 [52021:52374](-) rps19 279 [86501:86779](-) rps2 711 [39595:40305](+) rps3 654 [85335:85988](-) rps4 606 [8761:9366](+) rps7 468 [99873:100340](-) rps7_copy2 468 [150018:150485](+) rps8 399 [82604:83002](-) ycf1 5871 [111932:117802](+) ycf15 210 [96118:96327](+) ycf15_copy2 210 [154031:154240](-) ycf1_copy2 5871 [132556:138426](-) ycf2 6777 [89283:96059](+) ycf2_copy2 6777 [154299:161075](-) ycf3 507 [10485:10610](+) [11358:11585](+) [12377:12529](+) ycf4 546 [60383:60928](-) ycf68 417 [105109:105525](+) ycf68_copy2 417 [144833:145249](-) 38 tRNA genes (30 are unique) Genes Location trnH-GUG [4:78](-) trnK-UUU [4124:4160](-) [1571:1605](-) trnT-UGU [8206:8278](+) trnS-GGA [9689:9775](-) trnfM-CAU [19084:19156](+) trnG-UCC [19345:19415](-) trnS-UGA [20229:20320](+) trnT-GGU [24528:24599](-) trnM-CAU [24535:24593](-) trnE-UUC [25556:25628](+) trnY-GUA [25688:25771](+) trnD-GUC [25880:25953](+) trnC-GCA [28425:28503](-) trnR-UCU [46386:46457](-) trnS-GCU [48272:48359](+) trnQ-UUG [49551:49620](+) trnP-UGG [53947:54020](+) trnP-GGG [53948:54018](+) trnM-CAU_copy2 [64811:64882](+) trnI-GGU [64816:64874](+) trnV-UAC [69608:69645](+) [70236:70270](+) trnF-GAA [72933:73005](-) trnL-UAA [73938:73974](-) [73377:73426](-) trnI-CAU [88843:88916](+) trnL-CAA [96688:96768](-) trnV-GAC [102865:102936](+) trnI-GAU [104968:105009](+) [105957:105991](+) trnA-UGC [106056:106093](+) [106902:106936](+) trnR-ACG [110761:110834](+) trnN-GUU [111410:111481](-) trnL-UAG [122649:122728](+) trnN-GUU_copy2 [138877:138948](+) trnR-ACG_copy2 [139524:139597](-) trnA-UGC_copy2 [144265:144303](-) [143422:143456](-) trnI-GAU_copy2 [145349:145390](-) [144367:144401](-) trnV-GAC_copy2 [147422:147493](-) trnL-CAA_copy2 [153590:153670](+) trnI-CAU_copy2 [161442:161515](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [103171:104661](+) rrn23 [107134:109947](+) rrn4.5 [110046:110148](+) rrn5 [110373:110493](+) rrn5_copy2 [139865:139985](-) rrn4.5_copy2 [140210:140312](-) rrn23_copy2 [140411:143224](-) rrn16_copy2 [145697:147187](-) This genome has 19 genes with intron(s). Details are as follows: 18 gene(s) have 1 intron(s) Genes Exons rps16 [6034:6073](-) [4906:5117](-) rpoC1 [32380:32835](+) [33599:35218](+) atpF [43300:43458](+) [44157:44633](+) rps12 [50380:50493](+) [149157:149411](+) rps12_copy2 [50380:50493](+) [100947:101201](-) rpl16 [85123:85131](-) [83743:84135](-) rpl2 [87953:88345](-) [86837:87268](-) ndhB [98768:99543](-) [97341:98097](-) ndhA [130045:130596](-) [128322:128861](-) ndhB_copy2 [150815:151590](+) [152261:153017](+) rpl2_copy2 [162013:162405](+) [163091:163522](+) trnK-UUU [4124:4160](-) [1571:1605](-) trnV-UAC [69608:69645](+) [70236:70270](+) trnL-UAA [73938:73974](-) [73377:73426](-) trnI-GAU [104968:105009](+) [105957:105991](+) trnA-UGC [106056:106093](+) [106902:106936](+) trnA-UGC_copy2 [144265:144303](-) [143422:143456](-) trnI-GAU_copy2 [145349:145390](-) [144367:144401](-) 1 gene(s) have 2 intron(s) Genes Exons ycf3 [10485:10610](+) [11358:11585](+) [12377:12529](+)