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 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 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 1140 [110426:111566](+) ycf1_copy2 5637 [125715:131352](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [12777:12921](-) [11609:12018](-) ndhA (2/2) [123241:123793](-) [121569:122107](-) ndhB (2/2) [97867:98643](-) [96430:97185](-) ndhB_copy2 (2/2) [143136:143912](+) [144594:145349](+) petB (2/2) [76280:76285](+) [77096:77737](+) petD (2/2) [77933:77940](+) [78678:79152](+) rpl16 (2/2) [84036:84044](-) [82587:82985](-) rpl2 (2/2) [86839:87229](-) [85741:86174](-) rpl2_copy2 (2/2) [154550:154940](+) [155605:156038](+) rpoC1 (2/2) [23200:23631](-) [20865:22475](-) rps12 (3/3) [71044:71157](-) [100055:100286](-) [99488:99513](-) rps16 (2/2) [5989:6028](-) [4938:5164](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: pafI 3 [45416:45539](-) [44455:44684](-) [43558:43710](-)] clpP1 3 [73282:73352](-) [72139:72430](-) [71301:71528](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbC GTG infA ATT 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 132 genes (114 unique genes). Including: 87 protein-coding genes (80 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 87 protein-coding genes (80 are unique) Genes Length Location accD 1479 [58630:60108](+) atpA 1524 [10023:11546](-) atpB 1497 [54317:55813](-) atpE 402 [53919:54320](-) atpF 555 [12777:12921](-) [11609:12018](-) atpH 246 [13284:13529](-) atpI 744 [14632:15375](-) ccsA 966 [116229:117194](+) cemA 699 [62319:63017](+) clpP1 591 [73282:73352](-) [72139:72430](-) [71301:71528](-) infA 117 [81185:81301](-) matK 1560 [2093:3652](-) ndhA 1092 [123241:123793](-) [121569:122107](-) ndhB 1533 [97867:98643](-) [96430:97185](-) ndhB_copy2 1533 [143136:143912](+) [144594:145349](+) ndhC 363 [51430:51792](-) ndhD 1164 [117383:118546](-) ndhE 306 [119535:119840](-) ndhF 2220 [111555:113774](-) ndhG 537 [120083:120619](-) ndhH 1182 [123795:124976](-) ndhI 504 [120990:121493](-) ndhJ 477 [50088:50564](-) ndhK 684 [50686:51369](-) pafI 507 [45416:45539](-) [44455:44684](-) [43558:43710](-) pafII 555 [61341:61895](+) pbf1 132 [75694:75825](-) petA 963 [63231:64193](+) petB 648 [76280:76285](+) [77096:77737](+) petD 483 [77933:77940](+) [78678:79152](+) petG 114 [67409:67522](+) petL 96 [67130:67225](+) petN 90 [28694:28783](+) psaA 2253 [40579:42831](-) psaB 2205 [38349:40553](-) psaC 246 [119050:119295](-) psaI 114 [60808:60921](+) psaJ 135 [68368:68502](+) psbA 1062 [516:1577](-) psbB 1527 [73815:75341](+) psbC 1386 [34654:36039](+) psbD 1062 [33609:34670](+) psbE 252 [65516:65767](-) psbF 120 [65387:65506](-) psbH 222 [75930:76151](+) psbI 117 [7565:7681](+) psbJ 123 [64977:65099](-) psbK 186 [7007:7192](+) psbL 117 [65248:65364](-) psbM 105 [29395:29499](-) psbT 102 [75527:75628](+) psbZ 189 [36711:36899](+) rbcL 1428 [56635:58062](+) rpl14 369 [82091:82459](-) rpl16 408 [84036:84044](-) [82587:82985](-) rpl2 825 [86839:87229](-) [85741:86174](-) rpl20 354 [69942:70295](-) rpl22 330 [84894:85223](-) rpl23 282 [87248:87529](-) rpl23_copy2 282 [154250:154531](+) rpl2_copy2 825 [154550:154940](+) [155605:156038](+) rpl32 150 [114800:114949](+) rpl33 201 [68971:69171](+) rpl36 114 [80916:81029](-) rpoA 990 [79322:80311](-) rpoB 3219 [23658:26876](-) rpoC1 2043 [23200:23631](-) [20865:22475](-) rpoC2 4101 [16586:20686](-) rps11 243 [80556:80798](-) rps12 372 [71044:71157](-) [100055:100286](-) [99488:99513](-) rps14 303 [37908:38210](-) rps15 273 [125083:125355](-) rps16 267 [5989:6028](-) [4938:5164](-) rps18 324 [69371:69694](+) rps19 297 [85381:85677](-) rps2 258 [16049:16306](-) rps3 663 [84210:84872](-) rps4 606 [46488:47093](-) rps7 468 [98967:99434](-) rps7_copy2 468 [142345:142812](+) rps8 405 [81515:81919](-) ycf1 1140 [110427:111566](+) ycf15 192 [100984:101175](-) ycf15_copy2 192 [140604:140795](+) ycf1_copy2 5637 [125716:131352](-) ycf2 6879 [87857:94735](+) ycf2_copy2 6879 [147044:153922](-) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [67:141](-) trnK-UUU [4407:4443](-) [1842:1876](-) trnQ-UUG [6576:6647](-) trnS-GCU [7827:7914](-) trnG-UCC [8704:8726](+) [9477:9524](+) trnR-UCU [9702:9773](+) trnC-GCA [28007:28077](+) trnD-GUC [30680:30753](-) trnY-GUA [31058:31141](-) trnE-UUC [31201:31273](-) trnT-GGU [32116:32187](+) trnS-UGA [36277:36369](-) trnG-GCC [37437:37507](+) trnfM-CAU [37672:37745](-) trnS-GGA [46151:46237](+) trnT-UGU [47458:47530](-) trnL-UAA [48309:48343](+) [48894:48943](+) trnF-GAA [49307:49379](+) trnV-UAC [53350:53388](-) [52723:52757](-) trnM-CAU [53590:53662](+) trnW-CCA [67662:67735](-) trnP-UGG [67954:68027](-) trnI-CAU [87695:87768](-) trnL-CAA [95754:95834](-) trnV-GAC [101567:101638](+) trnI-GAU [103658:103694](+) [104654:104688](+) trnA-UGC [104753:104790](+) [105631:105665](+) trnR-ACG [109436:109509](+) trnN-GUU [110020:110091](-) trnL-UAG [116038:116117](+) trnN-GUU_copy2 [131688:131759](+) trnR-ACG_copy2 [132270:132343](-) trnA-UGC_copy2 [136989:137026](-) [136114:136148](-) trnI-GAU_copy2 [138085:138121](-) [137091:137125](-) trnV-GAC_copy2 [140141:140212](-) trnL-CAA_copy2 [145945:146025](+) trnI-CAU_copy2 [154011:154084](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [101873:103363](+) rrn23 [105829:108639](+) rrn4.5 [108738:108840](+) rrn5 [109065:109185](+) rrn5_copy2 [132594:132714](-) rrn4.5_copy2 [132939:133041](-) rrn23_copy2 [133140:135950](-) rrn16_copy2 [138416:139906](-) This genome has 22 genes with intron(s). Details are as follows: 19 gene(s) have 1 intron(s) Genes Exons rps16 [5989:6028](-) [4938:5164](-) atpF [12777:12921](-) [11609:12018](-) rpoC1 [23200:23631](-) [20865:22475](-) petB [76280:76285](+) [77096:77737](+) petD [77933:77940](+) [78678:79152](+) rpl16 [84036:84044](-) [82587:82985](-) rpl2 [86839:87229](-) [85741:86174](-) ndhB [97867:98643](-) [96430:97185](-) ndhA [123241:123793](-) [121569:122107](-) ndhB_copy2 [143136:143912](+) [144594:145349](+) rpl2_copy2 [154550:154940](+) [155605:156038](+) trnK-UUU [4407:4443](-) [1842:1876](-) trnG-UCC [8704:8726](+) [9477:9524](+) trnL-UAA [48309:48343](+) [48894:48943](+) trnV-UAC [53350:53388](-) [52723:52757](-) trnI-GAU [103658:103694](+) [104654:104688](+) trnA-UGC [104753:104790](+) [105631:105665](+) trnA-UGC_copy2 [136989:137026](-) [136114:136148](-) trnI-GAU_copy2 [138085:138121](-) [137091:137125](-) 3 gene(s) have 2 intron(s) Genes Exons rps12 [71044:71157](-) [100055:100286](-) [99488:99513](-) pafI [45416:45539](-) [44455:44684](-) [43558:43710](-) clpP1 [73282:73352](-) [72139:72430](-) [71301:71528](-)