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, 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 None None None 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [56260:56404](-) [55145:55554](-) ndhA (2/2) [119689:120241](-) [118036:118574](-) ndhB (2/2) [95034:95810](-) [93608:94363](-) ndhB_copy2 (2/2) [139330:140106](+) [140777:141532](+) petB (2/2) [9214:9219](-) [7796:8437](-) petD (2/2) [7594:7601](-) [6403:6877](-) rpl16 (2/2) [1532:1540](+) [2543:2941](+) rpl2 (2/2) [84703:85093](-) [83604:84037](-) rpl2_copy2 (2/2) [150047:150437](+) [151103:151536](+) rpoC1 (2/2) [66730:67161](-) [64356:65993](-) rps12 (3/3) [14326:14439](+) [137727:137958](+) [138494:138519](+) rps16 (2/2) [77068:77107](+) [77959:78185](+) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: rps19 2 [151591:151679](+) [1:190](+)] clpP1 3 [12129:12199](+) [13013:13304](+) [13928:14155](+)] pafI 3 [39232:39355](+) [40053:40282](+) [41029:41181](+)] 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 130 genes (113 unique genes). Including: 85 protein-coding genes (79 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 85 protein-coding genes (79 are unique) Genes Length Location accD 1452 [25307:26758](-) atpA 1527 [53541:55067](-) atpB 1497 [29508:31004](+) atpE 402 [31001:31402](+) atpF 555 [56260:56404](-) [55145:55554](-) atpH 246 [56774:57019](-) atpI 744 [58163:58906](-) ccsA 969 [112707:113675](+) cemA 690 [22208:22897](-) clpP1 591 [12129:12199](+) [13013:13304](+) [13928:14155](+) infA 234 [4144:4377](+) matK 1521 [79769:81289](+) ndhA 1092 [119689:120241](-) [118036:118574](-) ndhB 1533 [95034:95810](-) [93608:94363](-) ndhB_copy2 1533 [139330:140106](+) [140777:141532](+) ndhC 363 [33470:33832](+) ndhD 1383 [113916:115298](-) ndhE 306 [116023:116328](-) ndhF 2226 [108475:110700](-) ndhG 531 [116545:117075](-) ndhH 1182 [120243:121424](-) ndhI 501 [117454:117954](-) ndhJ 477 [34665:35141](+) ndhK 678 [33884:34561](+) pafI 507 [39232:39355](+) [40053:40282](+) [41029:41181](+) pafII 555 [23505:24059](-) pbf1 132 [9668:9799](+) petA 963 [21020:21982](-) petB 648 [9214:9219](-) [7796:8437](-) petD 483 [7594:7601](-) [6403:6877](-) petG 114 [17835:17948](-) petL 96 [18116:18211](-) petN 90 [73063:73152](-) psaA 2253 [41929:44181](+) psaB 2205 [44207:46411](+) psaC 246 [115533:115778](-) psaI 111 [24448:24558](-) psaJ 135 [16935:17069](-) psbA 1062 [81882:82943](+) psbB 1527 [10155:11681](-) psbC 1386 [48479:49864](-) psbD 1062 [49848:50909](-) psbE 252 [19462:19713](+) psbF 120 [19723:19842](+) psbH 222 [9344:9565](-) psbI 111 [74977:75087](-) psbJ 123 [20130:20252](+) psbK 180 [75492:75671](-) psbM 105 [72450:72554](+) psbT 102 [9875:9976](-) psbZ 189 [47646:47834](-) rbcL 1458 [27296:28753](-) rpl14 369 [3071:3439](+) rpl16 408 [1532:1540](+) [2543:2941](+) rpl2 825 [84703:85093](-) [83604:84037](-) rpl20 381 [15170:15550](+) rpl22 465 [268:732](+) rpl23 282 [85112:85393](-) rpl23_copy2 282 [149747:150028](+) rpl2_copy2 825 [150047:150437](+) [151103:151536](+) rpl32 165 [111624:111788](+) rpl33 201 [16319:16519](-) rpl36 114 [4485:4598](+) rpoA 1005 [5195:6199](+) rpoB 3183 [67188:70370](-) rpoC1 2070 [66730:67161](-) [64356:65993](-) rpoC2 4134 [60104:64237](-) rps11 411 [4704:5114](+) rps12 372 [14326:14439](+) [137727:137958](+) [138494:138519](+) rps14 303 [46545:46847](+) rps15 279 [121516:121794](-) rps16 267 [77068:77107](+) [77959:78185](+) rps18 306 [15831:16136](-) rps19 279 [151591:151679](+) [1:190](+) rps2 711 [59122:59832](-) rps3 657 [717:1373](+) rps4 606 [37334:37939](+) rps7 468 [96100:96567](-) rps7_copy2 468 [138573:139040](+) rps8 405 [3618:4022](+) ycf1 5082 [122196:127277](-) ycf15 102 [92541:92642](+) ycf15_copy2 102 [142498:142599](-) ycf2 6801 [85744:92544](+) ycf2_copy2 6801 [142596:149396](-) 37 tRNA genes (30 are unique) Genes Location trnP-UGG [17396:17469](+) trnW-CCA [17638:17711](+) trnM-CAU [31611:31683](-) trnV-UAC [31859:31896](+) [32473:32507](+) trnF-GAA [35401:35473](-) trnL-UAA [36301:36335](-) [35820:35869](-) trnT-UGU [36919:36991](+) trnS-GGA [38255:38341](-) trnfM-CAU [47002:47075](+) trnG-GCC [47265:47335](-) trnS-UGA [48167:48249](+) trnT-GGU [52116:52187](-) trnG-UCC [52324:52346](+) [53073:53120](+) trnR-UCU [53352:53423](+) trnE-UUC [71265:71335](+) trnY-GUA [71516:71599](+) trnD-GUC [71729:71802](+) trnC-GCA [73951:74021](-) trnS-GCU [74752:74839](+) trnQ-UUG [76029:76100](+) trnK-UUU [78999:79035](+) [81568:81602](+) trnH-GUG [83383:83457](+) trnI-CAU [85559:85632](-) trnL-CAA [92960:93040](-) trnV-GAC [99250:99321](+) trnI-GAU [101341:101377](+) [102150:102184](+) trnA-UGC [102249:102286](+) [103108:103142](+) trnR-ACG [106924:106997](+) trnN-GUU [107464:107535](-) trnL-UAG [112513:112592](+) trnN-GUU_copy2 [127605:127676](+) trnR-ACG_copy2 [128143:128216](-) trnA-UGC_copy2 [132854:132891](-) [131998:132032](-) trnI-GAU_copy2 [133763:133799](-) [132956:132990](-) trnV-GAC_copy2 [135819:135890](-) trnL-CAA_copy2 [142100:142180](+) trnI-CAU_copy2 [149508:149581](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [99557:101047](+) rrn23 [103295:106104](+) rrn4.5 [106203:106305](+) rrn5 [106541:106661](+) rrn5_copy2 [128479:128599](-) rrn4.5_copy2 [128835:128937](-) rrn23_copy2 [129036:131845](-) rrn16_copy2 [134093:135583](-) This genome has 23 genes with intron(s). Details are as follows: 20 gene(s) have 1 intron(s) Genes Exons rps19 [151591:151679](+) [1:190](+) rpl16 [1532:1540](+) [2543:2941](+) petD [7594:7601](-) [6403:6877](-) petB [9214:9219](-) [7796:8437](-) atpF [56260:56404](-) [55145:55554](-) rpoC1 [66730:67161](-) [64356:65993](-) rps16 [77068:77107](+) [77959:78185](+) rpl2 [84703:85093](-) [83604:84037](-) ndhB [95034:95810](-) [93608:94363](-) ndhA [119689:120241](-) [118036:118574](-) ndhB_copy2 [139330:140106](+) [140777:141532](+) rpl2_copy2 [150047:150437](+) [151103:151536](+) trnV-UAC [31859:31896](+) [32473:32507](+) trnL-UAA [36301:36335](-) [35820:35869](-) trnG-UCC [52324:52346](+) [53073:53120](+) trnK-UUU [78999:79035](+) [81568:81602](+) trnI-GAU [101341:101377](+) [102150:102184](+) trnA-UGC [102249:102286](+) [103108:103142](+) trnA-UGC_copy2 [132854:132891](-) [131998:132032](-) trnI-GAU_copy2 [133763:133799](-) [132956:132990](-) 3 gene(s) have 2 intron(s) Genes Exons clpP1 [12129:12199](+) [13013:13304](+) [13928:14155](+) rps12 [14326:14439](+) [137727:137958](+) [138494:138519](+) pafI [39232:39355](+) [40053:40282](+) [41029:41181](+)