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, 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, psbN, 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, rps12_copy2, 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 None Conserved open reading frames ycf1, ycf2, ycf2_copy2, ycf4 Other genes None Possible missing protein coding genes: Group of genes Name of genes Subunits of ATP synthase None Subunits of NADH-dehydrogenase ndhF Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II psbL, 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 infA Conserved open reading frames ycf15 Other genes None 2. Multicopy genes with different lengths: Genes Length Location ycf2 4431 [93558:97989](+) ycf2_copy2 6870 [151555:158425](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13982:14141](-) [12826:13235](-) ndhA (2/2) [127640:128192](-) [125919:126457](-) ndhB (2/2) [100675:101449](-) [99232:99989](-) ndhB_copy2 (2/2) [148088:148862](+) [149548:150305](+) petB (2/2) [79601:79606](+) [80409:81050](+) petD (2/2) [81253:81261](+) [81996:82469](+) rpl16 (2/2) [87226:87235](-) [85737:86134](-) rpl2 (2/2) [90115:90505](-) [88996:89429](-) rpl2_copy2 (2/2) [159055:159445](+) [160131:160564](+) rpoC1 (2/2) [24775:25204](-) [22348:23978](-) rps12 (3/3) [74231:74344](-) [102848:103079](-) [102286:102311](-) rps12_copy2 (3/3) [74231:74344](-) [146458:146689](+) [147226:147251](+) rps16 (2/2) [6750:6791](-) [5624:5851](-) ### 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 ndhD CTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 125 genes (108 unique genes). Including: 80 protein-coding genes (74 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 80 protein-coding genes (74 are unique) Genes Length Location accD 1494 [61142:62635](+) atpA 1524 [11246:12769](-) atpB 1497 [56663:58159](-) atpE 402 [56265:56666](-) atpF 570 [13982:14141](-) [12826:13235](-) atpH 246 [14597:14842](-) atpI 744 [16094:16837](-) ccsA 972 [120434:121405](+) cemA 696 [65291:65986](+) matK 1518 [2240:3757](-) ndhA 1092 [127640:128192](-) [125919:126457](-) ndhB 1533 [100675:101449](-) [99232:99989](-) ndhB_copy2 1533 [148088:148862](+) [149548:150305](+) ndhC 363 [54276:54638](-) ndhD 1539 [121663:123201](-) ndhE 306 [123850:124155](-) ndhG 531 [124399:124929](-) ndhH 1182 [128194:129375](-) ndhI 501 [125335:125835](-) ndhJ 477 [52932:53408](-) ndhK 852 [53545:54396](-) petA 963 [66196:67158](+) petB 648 [79601:79606](+) [80409:81050](+) petD 483 [81253:81261](+) [81996:82469](+) petG 114 [70473:70586](+) petL 96 [70206:70301](+) petN 90 [30689:30778](+) psaA 2253 [42563:44815](-) psaB 2205 [40333:42537](-) psaC 246 [123304:123549](-) psaI 114 [63292:63405](+) psaJ 135 [71445:71579](+) psbA 1062 [600:1661](-) psbB 1527 [77141:78667](+) psbC 1422 [36503:37924](+) psbD 1062 [35494:36555](+) psbE 252 [68722:68973](-) psbF 120 [68593:68712](-) psbH 222 [79258:79479](+) psbI 111 [8854:8964](+) psbJ 123 [68194:68316](-) psbK 186 [8208:8393](+) psbM 105 [32093:32197](-) psbN 132 [79022:79153](-) psbT 108 [78847:78954](+) psbZ 189 [38562:38750](+) rbcL 1449 [58933:60381](+) rpl14 369 [85223:85591](-) rpl16 408 [87226:87235](-) [85737:86134](-) rpl2 825 [90115:90505](-) [88996:89429](-) rpl20 354 [73058:73411](-) rpl22 408 [88166:88573](-) rpl23 282 [90524:90805](-) rpl23_copy2 282 [158755:159036](+) rpl2_copy2 825 [159055:159445](+) [160131:160564](+) rpl32 159 [118302:118460](+) rpl33 201 [72068:72268](+) rpl36 114 [84233:84346](-) rpoA 972 [82643:83614](-) rpoB 3213 [25231:28443](-) rpoC1 2061 [24775:25204](-) [22348:23978](-) rpoC2 4176 [18007:22182](-) rps11 417 [83680:84096](-) rps12 372 [74231:74344](-) [102848:103079](-) [102286:102311](-) rps12_copy2 372 [74231:74344](-) [146458:146689](+) [147226:147251](+) rps14 303 [39893:40195](-) rps15 273 [129505:129777](-) rps16 270 [6750:6791](-) [5624:5851](-) rps18 306 [72455:72760](+) rps19 219 [88654:88872](-) rps2 711 [17058:17768](-) rps3 648 [87400:88047](-) rps4 606 [48876:49481](-) rps7 468 [101764:102231](-) rps7_copy2 468 [147306:147773](+) rps8 411 [84629:85039](-) ycf1 5748 [130119:135866](-) ycf2 4431 [93559:97989](+) ycf2_copy2 6870 [151556:158425](-) ycf4 555 [63829:64383](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [168:242](-) trnK-UUU [4559:4595](-) [1938:1972](-) trnQ-UUG [7755:7826](-) trnS-GCU [9146:9233](-) trnG-UCC [9951:9973](+) [10695:10742](+) trnR-UCU [11031:11102](+) trnC-GCA [29595:29675](+) trnD-GUC [32729:32802](-) trnY-GUA [33226:33309](-) trnE-UUC [33368:33440](-) trnT-GGU [34170:34241](+) trnS-UGA [38183:38275](-) trnG-GCC [39390:39460](+) trnfM-CAU [39654:39727](-) trnS-GGA [48510:48596](+) trnT-UGU [49935:50007](-) trnL-UAA [51211:51247](+) [51753:51802](+) trnF-GAA [52175:52247](+) trnV-UAC [55709:55747](-) [55061:55095](-) trnM-CAU [55922:55994](+) trnW-CCA [70712:70785](-) trnP-UGG [70931:71004](-) trnI-CAU [90967:91040](-) trnL-CAA [98568:98648](-) trnV-GAC [104803:104874](+) trnI-GAU [106889:106925](+) [107871:107905](+) trnA-UGC [107970:108007](+) [108810:108844](+) trnR-ACG [112615:112688](+) trnN-GUU [113280:113351](-) trnL-UAG [120243:120322](+) trnN-GUU_copy2 [136190:136261](+) trnR-ACG_copy2 [136853:136926](-) trnA-UGC_copy2 [141534:141571](-) [140697:140731](-) trnI-GAU_copy2 [142616:142652](-) [141636:141670](-) trnV-GAC_copy2 [144667:144738](-) trnL-CAA_copy2 [150897:150977](+) trnI-CAU_copy2 [158520:158593](+) 8 rRNA genes (4 are unique) Genes Location rrn16S [105102:106592](+) rrn23S [109004:111813](+) rrn4.5S [111912:112014](+) rrn5S [112239:112359](+) rrn5S_copy2 [137182:137302](-) rrn4.5S_copy2 [137527:137629](-) rrn23S_copy2 [137728:140537](-) rrn16S_copy2 [142949:144439](-) This genome has 21 genes with intron(s). Details are as follows: 19 gene(s) have 1 intron(s) Genes Exons rps16 [6750:6791](-) [5624:5851](-) atpF [13982:14141](-) [12826:13235](-) rpoC1 [24775:25204](-) [22348:23978](-) petB [79601:79606](+) [80409:81050](+) petD [81253:81261](+) [81996:82469](+) rpl16 [87226:87235](-) [85737:86134](-) rpl2 [90115:90505](-) [88996:89429](-) ndhB [100675:101449](-) [99232:99989](-) ndhA [127640:128192](-) [125919:126457](-) ndhB_copy2 [148088:148862](+) [149548:150305](+) rpl2_copy2 [159055:159445](+) [160131:160564](+) trnK-UUU [4559:4595](-) [1938:1972](-) trnG-UCC [9951:9973](+) [10695:10742](+) trnL-UAA [51211:51247](+) [51753:51802](+) trnV-UAC [55709:55747](-) [55061:55095](-) trnI-GAU [106889:106925](+) [107871:107905](+) trnA-UGC [107970:108007](+) [108810:108844](+) trnA-UGC_copy2 [141534:141571](-) [140697:140731](-) trnI-GAU_copy2 [142616:142652](-) [141636:141670](-) 2 gene(s) have 2 intron(s) Genes Exons rps12 [74231:74344](-) [102848:103079](-) [102286:102311](-) rps12_copy2 [74231:74344](-) [146458:146689](+) [147226:147251](+)