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, ndhA_copy2, ndhB, ndhB_copy2, ndhC, ndhD, ndhD_copy2, ndhE, ndhE_copy2, ndhF, ndhG, ndhG_copy2, ndhH, ndhH_copy2, ndhI, ndhI_copy2, ndhJ, ndhK Subunits of cytochrome b/f complex petA, petB, petD, petG, petL, petN Subunits of photosystem I psaA, psaB, psaC, psaC_copy2, 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, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps15_copy2, 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, ycf1_copy2, ycf2, ycf2_copy2, ycf4 Other genes clpP1, 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 rpl22 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 ycf15 Other genes None 2. Multicopy genes with different lengths: Genes Length Location ndhB 1533 join{[103444:104221](-), [102003:102759](-)} ndhB_copy2 1479 join{[163074:163797](+), [164482:165238](+)} 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [14718:14861](-) [13582:13989](-) ndhA (2/2) [124040:124591](+) [126105:126644](+) ndhA_copy2 (2/2) [142651:143202](-) [140598:141137](-) ndhB (2/2) [103445:104221](-) [102004:102759](-) ndhB_copy2 (2/2) [163075:163797](+) [164483:165238](+) petB (2/2) [81703:81708](+) [82514:83155](+) petD (2/2) [83371:83378](+) [84120:84594](+) rpl16 (2/2) [89896:89904](-) [88333:88731](-) rpl2 (2/2) [92587:92977](-) [91497:91930](-) rpl2_copy2 (2/2) [174265:174655](+) [175312:175745](+) rpoC1 (2/2) [25571:26002](-) [23142:24758](-) rps12 (3/3) [76340:76453](-) [105629:105860](-) [105067:105092](-) rps12_copy2 (3/3) [76340:76453](-) [161382:161613](+) [162150:162175](+) rps16 (2/2) [6901:6940](-) [5768:6006](-) ycf3 (3/3) [49353:49476](-) [48399:48626](-) [47482:47636](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: clpP1 3 [78672:78742](-) [77548:77842](-) [76746:76973](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon rps19 GTG ndhD ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 127 genes (112 unique genes). Including: 93 protein-coding genes (78 are unique) 30 tRNA genes (30 are unique) 4 rRNA genes (4 are unique) Details are as follows: 93 protein-coding genes (78 are unique) Genes Length Location accD 1740 [62916:64655](+) atpA 1533 [11978:13510](-) atpB 1497 [58175:59671](-) atpE 402 [57777:58178](-) atpF 552 [14718:14861](-) [13582:13989](-) atpH 246 [15607:15852](-) atpI 744 [16886:17629](-) ccsA 978 [135029:136006](+) cemA 690 [66516:67205](+) clpP1 594 [78672:78742](-) [77548:77842](-) [76746:76973](-) infA 93 [86789:86881](-) matK 1500 [2145:3644](-) ndhA 1092 [124040:124591](+) [126105:126644](+) ndhA_copy2 1092 [142651:143202](-) [140598:141137](-) ndhB 1533 [103445:104221](-) [102004:102759](-) ndhB_copy2 1479 [163075:163797](+) [164483:165238](+) ndhC 363 [55193:55555](-) ndhD 1497 [129153:130649](+) ndhD_copy2 1497 [136593:138089](-) ndhE 306 [128215:128520](+) ndhE_copy2 306 [138722:139027](-) ndhF 2235 [131002:133236](-) ndhG 531 [127445:127975](+) ndhG_copy2 531 [139267:139797](-) ndhH 1182 [122857:124038](+) ndhH_copy2 1182 [143204:144385](-) ndhI 486 [126724:127209](+) ndhI_copy2 486 [140033:140518](-) ndhJ 477 [53850:54326](-) ndhK 678 [54474:55151](-) pbf1 132 [81113:81244](-) petA 963 [67434:68396](+) petB 648 [81703:81708](+) [82514:83155](+) petD 483 [83371:83378](+) [84120:84594](+) petG 114 [72331:72444](+) petL 96 [72050:72145](+) petN 90 [32061:32150](+) psaA 2253 [44491:46743](-) psaB 2205 [42261:44465](-) psaC 246 [128781:129026](+) psaC_copy2 246 [138216:138461](-) psaI 114 [65218:65331](+) psaJ 135 [73362:73496](+) psbA 1062 [451:1512](-) psbB 1527 [79239:80765](+) psbC 1422 [38198:39619](+) psbD 1062 [37189:38250](+) psbE 252 [70498:70749](-) psbF 120 [70369:70488](-) psbH 222 [81349:81570](+) psbI 111 [8671:8781](+) psbJ 123 [69982:70104](-) psbK 186 [8299:8484](+) psbL 117 [70230:70346](-) psbM 105 [33381:33485](-) psbT 108 [80945:81052](+) psbZ 189 [40307:40495](+) rbcL 1428 [60456:61883](+) rpl14 369 [87803:88171](-) rpl16 408 [89896:89904](-) [88333:88731](-) rpl2 825 [92587:92977](-) [91497:91930](-) rpl20 414 [75091:75504](-) rpl23 282 [92996:93277](-) rpl23_copy2 282 [173965:174246](+) rpl2_copy2 825 [174265:174655](+) [175312:175745](+) rpl32 150 [134215:134364](+) rpl33 201 [74030:74230](+) rpl36 114 [86449:86562](-) rpoA 996 [84800:85795](-) rpoB 3213 [26029:29241](-) rpoC1 2049 [25571:26002](-) [23142:24758](-) rpoC2 4167 [18793:22959](-) rps11 417 [85873:86289](-) rps12 372 [76340:76453](-) [105629:105860](-) [105067:105092](-) rps12_copy2 372 [76340:76453](-) [161382:161613](+) [162150:162175](+) rps14 303 [41844:42146](-) rps15 273 [122481:122753](+) rps15_copy2 273 [144489:144761](-) rps16 279 [6901:6940](-) [5768:6006](-) rps18 309 [74591:74899](+) rps19 279 [91150:91428](-) rps2 711 [17849:18559](-) rps3 657 [90042:90698](-) rps4 609 [50098:50706](-) rps7 468 [104541:105008](-) rps7_copy2 468 [162234:162701](+) rps8 405 [87070:87474](-) ycf1 5343 [116752:122094](+) ycf1_copy2 5343 [145148:150490](-) ycf2 6828 [93562:100389](+) ycf2_copy2 6828 [166853:173680](-) ycf3 507 [49353:49476](-) [48399:48626](-) [47482:47636](-) ycf4 570 [65528:66097](+) 30 tRNA genes (30 are unique) Genes Location trnH-GUG [6:79](-) trnK-UUU [4380:4416](-) [1790:1824](-) trnQ-UUG [7555:7626](-) trnS-GCU [9176:9263](-) trnG-UCC [10258:10280](+) [11003:11050](+) trnR-UCU [11424:11495](+) trnC-GCA [30473:30543](+) trnD-GUC [34165:34238](-) trnY-GUA [34680:34763](-) trnE-UUC [34830:34902](-) trnT-GGU [35753:35824](+) trnS-UGA [39865:39957](-) trnG-GCC [41287:41357](+) trnfM-CAU [41608:41681](-) trnS-GGA [49719:49806](+) trnT-UGU [51019:51091](-) trnL-UAA [51985:52019](+) [52572:52621](+) trnF-GAA [53043:53115](+) trnV-UAC [57223:57261](-) [56571:56607](-) trnM-CAU [57428:57500](+) trnW-CCA [72573:72646](-) trnP-UGG [72851:72924](-) trnI-CAU [93400:93473](-) trnL-CAA [101342:101422](-) trnV-GAC [107734:107805](+) trnI-GAU [109827:109863](+) [110817:110851](+) trnA-UGC [110916:110953](+) [111756:111790](+) trnR-ACG [115558:115631](+) trnN-GUU [116249:116320](-) trnL-UAG [134857:134936](+) 4 rRNA genes (4 are unique) Genes Location rrn16 [108040:109530](+) rrn23 [111948:114757](+) rrn4.5 [114856:114959](+) rrn5 [115184:115304](+) This genome has 22 genes with intron(s). Details are as follows: 18 gene(s) have 1 intron(s) Genes Exons rps16 [6901:6940](-) [5768:6006](-) atpF [14718:14861](-) [13582:13989](-) rpoC1 [25571:26002](-) [23142:24758](-) petB [81703:81708](+) [82514:83155](+) petD [83371:83378](+) [84120:84594](+) rpl16 [89896:89904](-) [88333:88731](-) rpl2 [92587:92977](-) [91497:91930](-) ndhB [103445:104221](-) [102004:102759](-) ndhA [124040:124591](+) [126105:126644](+) ndhA_copy2 [142651:143202](-) [140598:141137](-) ndhB_copy2 [163075:163797](+) [164483:165238](+) rpl2_copy2 [174265:174655](+) [175312:175745](+) trnK-UUU [4380:4416](-) [1790:1824](-) trnG-UCC [10258:10280](+) [11003:11050](+) trnL-UAA [51985:52019](+) [52572:52621](+) trnV-UAC [57223:57261](-) [56571:56607](-) trnI-GAU [109827:109863](+) [110817:110851](+) trnA-UGC [110916:110953](+) [111756:111790](+) 4 gene(s) have 2 intron(s) Genes Exons rps12 [76340:76453](-) [105629:105860](-) [105067:105092](-) ycf3 [49353:49476](-) [48399:48626](-) [47482:47636](-) rps12_copy2 [76340:76453](-) [161382:161613](+) [162150:162175](+) clpP1 [78672:78742](-) [77548:77842](-) [76746:76973](-)