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, rpl22, rpl22_copy2, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps16, rps18, rps19, rps19_copy2, 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 None Conserved open reading frames ycf1, ycf15, ycf15_copy2, ycf2, ycf2_copy2, ycf4 Other genes 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 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 None Subunit of Acetyl-CoA-carboxylase None Translational initiation factor infA 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) [14037:14181](-) [12846:13255](-) clpP (3/3) [75195:75254](-) [74035:74333](-) [73140:73368](-) ndhA (2/2) [126136:126687](-) [124457:124996](-) ndhB (2/2) [99817:100593](-) [98380:99135](-) ndhB_copy2 (2/2) [146755:147531](+) [148213:148968](+) petB (2/2) [78165:78170](+) [79000:79641](+) petD (1/2) [80573:81097](+) rpl16 (2/2) [86051:86059](-) [84611:85009](-) rpl2 (2/2) [88828:89220](-) [87732:88166](-) rpl2_copy2 (2/2) [158128:158520](+) [159182:159616](+) rpoC1 (2/2) [24469:24902](-) [22085:23705](-) rps12 (3/3) [72875:72988](-) [101999:102230](-) [101437:101462](-) rps12_copy2 (3/3) [72875:72988](-) [145118:145349](+) [145886:145911](+) rps16 (2/2) [6214:6251](-) [5127:5334](-) ycf3 (3/3) [46908:47035](-) [45951:46177](-) [45001:45155](-) ### 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 rps19 GTG ndhD ACG rps19_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 133 genes (113 unique genes). Including: 88 protein-coding genes (79 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 88 protein-coding genes (79 are unique) Genes Length Location accD 1476 [59774:61249](+) atpA 1524 [11263:12786](-) atpB 1497 [55461:56957](-) atpE 402 [55063:55464](-) atpF 555 [14037:14181](-) [12846:13255](-) atpH 246 [14336:14581](-) atpI 744 [15820:16563](-) ccsA 960 [118969:119928](+) cemA 699 [63739:64437](+) clpP 588 [75195:75254](-) [74035:74333](-) [73140:73368](-) matK 1518 [2210:3727](-) ndhA 1092 [126136:126687](-) [124457:124996](-) ndhB 1533 [99817:100593](-) [98380:99135](-) ndhB_copy2 1533 [146755:147531](+) [148213:148968](+) ndhC 363 [52682:53044](-) ndhD 1500 [120261:121760](-) ndhE 306 [122414:122719](-) ndhF 2223 [114685:116907](-) ndhG 537 [122960:123496](-) ndhH 1182 [126689:127870](-) ndhI 513 [123863:124375](-) ndhJ 477 [51350:51826](-) ndhK 684 [51940:52623](-) pbf1 132 [77581:77712](-) petA 963 [64641:65603](+) petB 648 [78165:78170](+) [79000:79641](+) petD 525 [80573:81097](+) petG 114 [69232:69345](+) petL 96 [68950:69045](+) petN 90 [30174:30263](+) psaA 2253 [42034:44286](-) psaB 2205 [39804:42008](-) psaC 246 [121931:122176](-) psaI 114 [61989:62102](+) psaJ 129 [70170:70298](+) psbA 1062 [541:1602](-) psbB 1527 [75699:77225](+) psbC 1422 [36044:37465](+) psbD 1062 [35035:36096](+) psbE 252 [67304:67555](-) psbF 120 [67175:67294](-) psbH 222 [77817:78038](+) psbI 111 [8798:8908](+) psbJ 123 [66758:66880](-) psbK 186 [8228:8413](+) psbL 117 [67036:67152](-) psbM 105 [31387:31491](-) psbT 108 [77413:77520](+) psbZ 189 [38139:38327](+) rbcL 1428 [57727:59154](+) rpl14 369 [84106:84474](-) rpl16 408 [86051:86059](-) [84611:85009](-) rpl2 828 [88828:89220](-) [87732:88166](-) rpl20 354 [71738:72091](-) rpl22 486 [86861:87346](-) rpl22_copy2 486 [160002:160487](+) rpl23 282 [89239:89520](-) rpl23_copy2 282 [157828:158109](+) rpl2_copy2 828 [158128:158520](+) [159182:159616](+) rpl32 183 [117981:118163](+) rpl33 201 [70748:70948](+) rpl36 114 [82943:83056](-) rpoA 984 [81355:82338](-) rpoB 3213 [24929:28141](-) rpoC1 2055 [24469:24902](-) [22085:23705](-) rpoC2 4134 [17773:21906](-) rps11 417 [82403:82819](-) rps12 372 [72875:72988](-) [101999:102230](-) [101437:101462](-) rps12_copy2 372 [72875:72988](-) [145118:145349](+) [145886:145911](+) rps14 303 [39362:39664](-) rps15 273 [127965:128237](-) rps16 246 [6214:6251](-) [5127:5334](-) rps18 306 [71166:71471](+) rps19 279 [87385:87663](-) rps19_copy2 279 [159685:159963](+) rps2 711 [16788:17498](-) rps3 660 [86217:86876](-) rps4 606 [47685:48290](-) rps7 468 [100916:101383](-) rps7_copy2 468 [145965:146432](+) rps8 405 [83539:83943](-) ycf1 5664 [128608:134271](-) ycf15 138 [96876:97013](+) ycf15_copy2 138 [150335:150472](-) ycf2 6882 [89848:96729](+) ycf2_copy2 6882 [150619:157500](-) ycf3 510 [46908:47035](-) [45951:46177](-) [45001:45155](-) ycf4 555 [62536:63090](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [6:79](-) trnK-UUU [4453:4489](-) [1879:1913](-) trnQ-UUG [7792:7863](-) trnS-GCU [9040:9127](-) trnG-UCC [10079:10101](+) [10825:10872](+) trnR-UCU [11033:11104](+) trnC-GCA [29365:29435](+) trnD-GUC [32048:32121](-) trnY-GUA [32572:32655](-) trnE-UUC [32715:32787](-) trnT-GGU [33645:33716](+) trnS-UGA [37695:37787](-) trnG-GCC [38896:38966](+) trnfM-CAU [39141:39214](-) trnS-GGA [47292:47378](+) trnT-UGU [48655:48727](-) trnL-UAA [49721:49757](+) [50284:50333](+) trnF-GAA [50728:50800](+) trnV-UAC [54623:54661](-) [53980:54016](-) trnM-CAU [54836:54908](+) trnW-CCA [69496:69569](-) trnP-UGG [69743:69816](-) trnI-CAU [89686:89759](-) trnL-CAA [97687:97767](-) trnV-GAC [104067:104138](+) trnI-GAU [106163:106204](+) [107159:107193](+) trnA-UGC [107264:107301](+) [108142:108176](+) trnR-ACG [111986:112059](+) trnN-GUU [112670:112741](-) trnL-UAG [118784:118863](+) trnN-GUU_copy2 [134607:134678](+) trnR-ACG_copy2 [135289:135362](-) trnA-UGC_copy2 [140047:140084](-) [139172:139206](-) trnI-GAU_copy2 [141144:141185](-) [140155:140189](-) trnV-GAC_copy2 [143210:143281](-) trnL-CAA_copy2 [149581:149661](+) trnI-CAU_copy2 [157589:157662](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [104379:105869](+) rrn23 [108341:111150](+) rrn4.5 [111249:111351](+) rrn5 [111615:111735](+) rrn5_copy2 [135613:135733](-) rrn4.5_copy2 [135997:136099](-) rrn23_copy2 [136199:139008](-) rrn16_copy2 [141479:142969](-) This genome has 22 genes with intron(s). Details are as follows: 18 gene(s) have 1 intron(s) Genes Exons rps16 [6214:6251](-) [5127:5334](-) atpF [14037:14181](-) [12846:13255](-) rpoC1 [24469:24902](-) [22085:23705](-) petB [78165:78170](+) [79000:79641](+) rpl16 [86051:86059](-) [84611:85009](-) rpl2 [88828:89220](-) [87732:88166](-) ndhB [99817:100593](-) [98380:99135](-) ndhA [126136:126687](-) [124457:124996](-) ndhB_copy2 [146755:147531](+) [148213:148968](+) rpl2_copy2 [158128:158520](+) [159182:159616](+) trnK-UUU [4453:4489](-) [1879:1913](-) trnG-UCC [10079:10101](+) [10825:10872](+) trnL-UAA [49721:49757](+) [50284:50333](+) trnV-UAC [54623:54661](-) [53980:54016](-) trnI-GAU [106163:106204](+) [107159:107193](+) trnA-UGC [107264:107301](+) [108142:108176](+) trnA-UGC_copy2 [140047:140084](-) [139172:139206](-) trnI-GAU_copy2 [141144:141185](-) [140155:140189](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [72875:72988](-) [101999:102230](-) [101437:101462](-) ycf3 [46908:47035](-) [45951:46177](-) [45001:45155](-) rps12_copy2 [72875:72988](-) [145118:145349](+) [145886:145911](+) clpP [75195:75254](-) [74035:74333](-) [73140:73368](-)