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 ycf15, ycf15_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 ycf1, ycf4 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) [97634:97777](+) [98474:98884](+) ndhA (2/2) [147903:148454](-) [146338:146877](-) ndhB (2/2) [13481:14257](+) [14937:15692](+) ndhB_copy2 (2/2) [122863:123639](-) [121428:122183](-) petB (1/2) [33695:34354](-) petD (1/2) [32279:32803](-) rpl16 (1/2) [28480:28839](+) rpl2 (2/2) [24384:24782](+) [25441:25875](+) rpl2_copy2 (2/2) [112338:112736](-) [111245:111679](-) rpoC1 (2/2) [86971:87402](+) [88162:89760](+) rps12 (3/3) [39701:39814](+) [11892:12123](+) [12660:12685](+) rps16 (2/2) [105011:105050](+) [105913:106139](+) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: pafI 3 [66022:66145](+) [66854:67081](+) [67815:67969](+)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon rps19 GTG petB ATT ndhD CTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 127 genes (108 unique genes). Including: 85 protein-coding genes (79 are unique) 34 tRNA genes (25 are unique) 8 rRNA genes (4 are unique) Details are as follows: 85 protein-coding genes (79 are unique) Genes Length Location accD 2253 [50606:52858](-) atpA 1524 [98940:100463](+) atpB 1497 [55495:56991](+) atpE 402 [56988:57389](+) atpF 555 [97634:97777](+) [98474:98884](+) atpH 246 [97000:97245](+) atpI 744 [95221:95964](+) ccsA 972 [141036:142007](+) cemA 690 [47377:48066](-) clpP1 72 [38069:38140](+) infA 234 [30035:30268](+) matK 1521 [107730:109250](+) ndhA 1092 [147903:148454](-) [146338:146877](-) ndhB 1533 [13481:14257](+) [14937:15692](+) ndhB_copy2 1533 [122863:123639](-) [121428:122183](-) ndhC 363 [59688:60050](+) ndhD 1539 [142239:143777](-) ndhE 306 [144360:144665](-) ndhF 2241 [137112:139352](-) ndhG 531 [144880:145410](-) ndhH 1182 [148456:149637](-) ndhI 507 [145752:146258](-) ndhJ 477 [60887:61363](+) ndhK 642 [60104:60745](+) pafI 507 [66022:66145](+) [66854:67081](+) [67815:67969](+) pafII 555 [48936:49490](-) pbf1 132 [35602:35733](+) petA 963 [46199:47161](-) petB 660 [33695:34354](-) petD 525 [32279:32803](-) petG 114 [43392:43505](-) petL 96 [43681:43776](-) petN 90 [81574:81663](-) psaA 2253 [68697:70949](+) psaB 2205 [70975:73179](+) psaC 246 [143869:144114](-) psaI 111 [49918:50028](-) psaJ 135 [42419:42553](-) psbA 1059 [109716:110774](+) psbB 1527 [36081:37607](-) psbC 1422 [75199:76620](-) psbD 1062 [76568:77629](-) psbE 252 [44707:44958](+) psbF 120 [44973:45092](+) psbH 222 [35275:35496](-) psbI 111 [102463:102573](-) psbJ 123 [45366:45488](+) psbK 180 [102979:103158](-) psbL 117 [45116:45232](+) psbM 114 [80643:80756](+) psbT 102 [35799:35900](-) psbZ 189 [74351:74539](-) rbcL 1455 [53283:54737](-) rpl14 369 [28966:29334](+) rpl16 360 [28480:28839](+) rpl2 834 [24384:24782](+) [25441:25875](+) rpl20 387 [40633:41019](+) rpl22 471 [26273:26743](+) rpl23 282 [24084:24365](+) rpl23_copy2 282 [112755:113036](-) rpl2_copy2 834 [112338:112736](-) [111245:111679](-) rpl32 177 [139848:140024](+) rpl33 201 [41735:41935](-) rpl36 114 [30364:30477](+) rpoA 990 [31081:32070](+) rpoB 3213 [83732:86944](+) rpoC1 2031 [86971:87402](+) [88162:89760](+) rpoC2 4146 [89936:94081](+) rps11 432 [30575:31006](+) rps12 372 [39701:39814](+) [11892:12123](+) [12660:12685](+) rps14 303 [73301:73603](+) rps15 273 [149734:150006](-) rps16 267 [105011:105050](+) [105913:106139](+) rps18 327 [41245:41571](-) rps19 279 [25936:26214](+) rps2 711 [94288:94998](+) rps3 663 [26728:27390](+) rps4 606 [64191:64796](+) rps7 468 [12739:13206](+) rps7_copy2 468 [123914:124381](-) rps8 405 [29511:29915](+) ycf15 198 [16663:16860](-) ycf15_copy2 198 [120260:120457](+) ycf2 6636 [16956:23591](-) ycf2_copy2 6636 [113529:120164](+) 34 tRNA genes (25 are unique) Genes Location trnN-GUU [1739:1810](+) trnR-ACG [2385:2458](-) trnA-UGC [7089:7126](-) [6244:6278](-) trnI-GAU [8169:8204](-) [8117:8152](-) trnV-GAC [10223:10294](-) trnL-CAA [16235:16315](+) trnM-CAU [23797:23870](+) trnP-UGG [42948:43021](+) trnW-CCA [43196:43269](+) trnM-CAU_copy2 [57605:57677](+) trnF-GAA [62056:62128](-) trnT-UGC [63756:63828](+) trnS-GGA [65044:65130](-) trnM-CAU_copy3 [73753:73826](+) trnG-GCC [73994:74064](-) trnS-UGA [74865:74957](+) trnT-GGU [78962:79033](-) trnE-UUC [79581:79653](+) trnY-GUA [79713:79796](+) trnD-GUC [79903:79976](+) trnC-GCA [82497:82567](-) trnR-UCU [100558:100629](-) trnS-GCU [102259:102346](+) trnQ-UUG [103500:103571](+) trnK-UUU [106991:107027](+) [109508:109542](+) trnH-GUG [111067:111140](+) trnM-CAU_copy4 [113250:113323](-) trnL-CAA_copy2 [120805:120885](-) trnV-GAC_copy2 [126826:126897](+) trnI-GAU_copy2 [128916:128951](+) [128968:129003](+) trnA-UGC_copy2 [129994:130031](+) [130842:130876](+) trnR-ACG_copy2 [134662:134735](+) trnN-GUU_copy2 [135310:135381](-) trnL-UAG [140868:140947](+) 8 rRNA genes (4 are unique) Genes Location rrn5 [2703:2823](-) rrn4.5 [3072:3174](-) rrn23 [3273:6083](-) rrn16 [8505:9995](-) rrn16_copy2 [127125:128615](+) rrn23_copy2 [131037:133847](+) rrn4.5_copy2 [133946:134048](+) rrn5_copy2 [134297:134417](+) This genome has 15 genes with intron(s). Details are as follows: 13 gene(s) have 1 intron(s) Genes Exons ndhB [13481:14257](+) [14937:15692](+) rpl2 [24384:24782](+) [25441:25875](+) rpoC1 [86971:87402](+) [88162:89760](+) atpF [97634:97777](+) [98474:98884](+) rps16 [105011:105050](+) [105913:106139](+) rpl2_copy2 [112338:112736](-) [111245:111679](-) ndhB_copy2 [122863:123639](-) [121428:122183](-) ndhA [147903:148454](-) [146338:146877](-) trnA-UGC [7089:7126](-) [6244:6278](-) trnI-GAU [8169:8204](-) [8117:8152](-) trnK-UUU [106991:107027](+) [109508:109542](+) trnI-GAU_copy2 [128916:128951](+) [128968:129003](+) trnA-UGC_copy2 [129994:130031](+) [130842:130876](+) 2 gene(s) have 2 intron(s) Genes Exons rps12 [39701:39814](+) [11892:12123](+) [12660:12685](+) pafI [66022:66145](+) [66854:67081](+) [67815:67969](+)