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, psbM, psbT, psbZ Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, 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 None Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf1, ycf15, ycf15_copy2, ycf1_copy2, ycf2, ycf2_copy2 Other genes clpP1, pafI, pafII, pbf1 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 psbL, psbN, ycf3 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 ycf4 Other genes None 2. Multicopy genes with different lengths: Genes Length Location ycf1 603 [107408:108011](+) ycf1_copy2 3729 [121829:125558](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [56189:56333](-) [55080:55489](-) ndhA (2/2) [119318:119870](-) [117720:118258](-) ndhB (2/2) [94563:95339](-) [93137:93892](-) ndhB_copy2 (2/2) [138927:139703](+) [140374:141129](+) petB (2/2) [9235:9240](-) [7847:8488](-) petD (2/2) [7651:7658](-) [6496:6970](-) rpl16 (2/2) [1580:1588](+) [2615:3013](+) rpl2 (2/2) [84198:84588](-) [83099:83532](-) rpl2_copy2 (2/2) [149678:150068](+) [150734:151167](+) rpoC1 (2/2) [66608:67039](-) [64239:65876](-) rps12 (3/3) [14317:14430](+) [137318:137549](+) [138085:138110](+) rps16 (2/2) [76686:76725](+) [77589:77785](+) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: rps19 2 [151224:151283](+) [1:219](+)] clpP1 3 [12161:12231](+) [13029:13320](+) [13935:14162](+)] pafI 3 [39148:39271](+) [39975:40204](+) [40941:41093](+)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon rps19 GTG psbC GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 131 genes (113 unique genes). Including: 86 protein-coding genes (79 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 86 protein-coding genes (79 are unique) Genes Length Location accD 1452 [24645:26096](-) atpA 1527 [53482:55008](-) atpB 1479 [28868:30346](+) atpE 402 [30343:30744](+) atpF 555 [56189:56333](-) [55080:55489](-) atpH 246 [56692:56937](-) atpI 744 [58065:58808](-) ccsA 975 [112482:113456](+) cemA 690 [22158:22847](-) clpP1 591 [12161:12231](+) [13029:13320](+) [13935:14162](+) infA 234 [4213:4446](+) matK 1518 [79402:80919](+) ndhA 1092 [119318:119870](-) [117720:118258](-) ndhB 1533 [94563:95339](-) [93137:93892](-) ndhB_copy2 1533 [138927:139703](+) [140374:141129](+) ndhC 363 [33022:33384](+) ndhD 1383 [113658:115040](-) ndhE 306 [115756:116061](-) ndhF 2226 [108023:110248](-) ndhG 531 [116263:116793](-) ndhH 1182 [119872:121053](-) ndhI 501 [117143:117643](-) ndhJ 477 [34217:34693](+) ndhK 678 [33437:34114](+) pafI 507 [39148:39271](+) [39975:40204](+) [40941:41093](+) pafII 555 [23122:23676](-) pbf1 132 [9689:9820](+) petA 963 [20960:21922](-) petB 648 [9235:9240](-) [7847:8488](-) petD 483 [7651:7658](-) [6496:6970](-) petG 114 [17840:17953](-) petL 96 [18119:18214](-) petN 90 [72976:73065](-) psaA 2253 [41810:44062](+) psaB 2205 [44088:46292](+) psaC 246 [115277:115522](-) psaI 111 [24050:24160](-) psaJ 135 [16949:17083](-) psbA 1062 [81456:82517](+) psbB 1527 [10185:11711](-) psbC 1386 [48352:49737](-) psbD 1062 [49721:50782](-) psbE 252 [19421:19672](+) psbF 120 [19682:19801](+) psbH 222 [9365:9586](-) psbI 111 [74675:74785](-) psbJ 123 [20089:20211](+) psbK 189 [75179:75367](-) psbM 105 [72338:72442](+) psbT 102 [9897:9998](-) psbZ 189 [47525:47713](-) rbcL 1458 [26661:28118](-) rpl14 369 [3131:3499](+) rpl16 408 [1580:1588](+) [2615:3013](+) rpl2 825 [84198:84588](-) [83099:83532](-) rpl20 381 [15157:15537](+) rpl22 468 [312:779](+) rpl23 282 [84607:84888](-) rpl23_copy2 282 [149378:149659](+) rpl2_copy2 825 [149678:150068](+) [150734:151167](+) rpl32 165 [111252:111416](+) rpl33 201 [16291:16491](-) rpl36 114 [4553:4666](+) rpoA 1008 [5279:6286](+) rpoB 3183 [67066:70248](-) rpoC1 2070 [66608:67039](-) [64239:65876](-) rpoC2 4140 [59980:64119](-) rps11 411 [4789:5199](+) rps12 372 [14317:14430](+) [137318:137549](+) [138085:138110](+) rps14 303 [46426:46728](+) rps15 279 [121145:121423](-) rps16 237 [76686:76725](+) [77589:77785](+) rps18 306 [15810:16115](-) rps19 279 [151224:151283](+) [1:219](+) rps2 711 [59024:59734](-) rps3 657 [764:1420](+) rps4 606 [37288:37893](+) rps7 468 [95635:96102](-) rps7_copy2 468 [138164:138631](+) rps8 405 [3687:4091](+) ycf1 603 [107409:108011](+) ycf15 192 [97929:98120](-) ycf15_copy2 192 [136146:136337](+) ycf1_copy2 3729 [121830:125558](-) ycf2 6849 [85239:92087](+) ycf2_copy2 6849 [142179:149027](-) 37 tRNA genes (30 are unique) Genes Location trnP-UGG [17392:17465](+) trnW-CCA [17649:17722](+) trnM-CAU [30943:31015](-) trnV-UAC [31191:31228](+) [31804:31838](+) trnF-GAA [35392:35464](-) trnL-UAA [36301:36335](-) [35825:35874](-) trnT-UGU [36857:36929](+) trnS-GGA [38221:38307](-) trnfM-CAU [46883:46956](+) trnG-GCC [47140:47210](-) trnS-UGA [48060:48142](+) trnT-GGU [51969:52040](-) trnG-UCC [52203:52225](+) [52971:53018](+) trnR-UCU [53284:53355](+) trnE-UUC [71119:71190](+) trnY-GUA [71390:71473](+) trnD-GUC [71594:71667](+) trnC-GCA [73643:73713](-) trnS-GCU [74456:74543](+) trnQ-UUG [75714:75785](+) trnK-UUU [78635:78671](+) [81221:81255](+) trnH-GUG [82900:82974](+) trnI-CAU [85054:85127](-) trnL-CAA [92494:92574](-) trnV-GAC [98805:98876](+) trnI-GAU [100887:100924](+) [101704:101738](+) trnA-UGC [101803:101840](+) [102654:102688](+) trnR-ACG [106463:106536](+) trnN-GUU [107010:107081](-) trnL-UAG [112296:112375](+) trnN-GUU_copy2 [127185:127256](+) trnR-ACG_copy2 [127730:127803](-) trnA-UGC_copy2 [132426:132463](-) [131578:131612](-) trnI-GAU_copy2 [133342:133379](-) [132528:132562](-) trnV-GAC_copy2 [135390:135461](-) trnL-CAA_copy2 [141692:141772](+) trnI-CAU_copy2 [149139:149212](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [99103:100593](+) rrn23 [102841:105650](+) rrn4.5 [105749:105851](+) rrn5 [106097:106217](+) rrn5_copy2 [128049:128169](-) rrn4.5_copy2 [128415:128517](-) rrn23_copy2 [128616:131425](-) rrn16_copy2 [133673:135163](-) This genome has 23 genes with intron(s). Details are as follows: 20 gene(s) have 1 intron(s) Genes Exons rps19 [151224:151283](+) [1:219](+) rpl16 [1580:1588](+) [2615:3013](+) petD [7651:7658](-) [6496:6970](-) petB [9235:9240](-) [7847:8488](-) atpF [56189:56333](-) [55080:55489](-) rpoC1 [66608:67039](-) [64239:65876](-) rps16 [76686:76725](+) [77589:77785](+) rpl2 [84198:84588](-) [83099:83532](-) ndhB [94563:95339](-) [93137:93892](-) ndhA [119318:119870](-) [117720:118258](-) ndhB_copy2 [138927:139703](+) [140374:141129](+) rpl2_copy2 [149678:150068](+) [150734:151167](+) trnV-UAC [31191:31228](+) [31804:31838](+) trnL-UAA [36301:36335](-) [35825:35874](-) trnG-UCC [52203:52225](+) [52971:53018](+) trnK-UUU [78635:78671](+) [81221:81255](+) trnI-GAU [100887:100924](+) [101704:101738](+) trnA-UGC [101803:101840](+) [102654:102688](+) trnA-UGC_copy2 [132426:132463](-) [131578:131612](-) trnI-GAU_copy2 [133342:133379](-) [132528:132562](-) 3 gene(s) have 2 intron(s) Genes Exons clpP1 [12161:12231](+) [13029:13320](+) [13935:14162](+) rps12 [14317:14430](+) [137318:137549](+) [138085:138110](+) pafI [39148:39271](+) [39975:40204](+) [40941:41093](+)