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, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl14, rpl14_copy2, rpl16, rpl16_copy2, rpl2, rpl20, rpl22, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36, rpl36_copy2 Small subunit of ribosome rps11, rps11_copy2, rps12, rps12_copy2, rps14, rps15, rps16, rps18, rps19, rps19_copy2, rps2, rps3, rps3_copy2, rps4, rps7, rps7_copy2, rps8, rps8_copy2 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, 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 None Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II None 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 ycf15 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) [40170:40314](-) [38966:39456](-) clpP (3/3) [71612:71682](-) [70605:70896](-) [69588:69821](-) ndhA (2/2) [119390:119941](-) [117575:118114](-) ndhB (2/2) [95357:96079](-) [93916:94671](-) ndhB_copy2 (2/2) [139505:140227](+) [140913:141668](+) petB (2/2) [74698:74703](+) [75508:76149](+) petD (2/2) [76345:76352](+) [77075:77549](+) rpl16 (2/2) [81510:81518](-) [79953:80351](-) rpl16_copy2 (2/2) [154066:154074](+) [155233:155631](+) rpl2 (2/2) [84699:85089](-) [83585:84018](-) rpl2_copy2 (2/2) [150495:150885](+) [151566:151999](+) rpoC1 (2/2) [50362:50793](-) [47967:49589](-) rps12 (3/3) [69191:69304](-) [97537:97768](-) [96958:96995](-) rps12_copy2 (3/3) [69191:69304](-) [137816:138047](+) [138589:138626](+) rps16 (2/2) [56540:56579](+) [57406:57608](+) ycf3 (3/3) [18018:18143](+) [18846:19073](+) [19807:19959](+) ### 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 psbL TTG ndhD ATT 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 136 genes (112 unique genes). Including: 91 protein-coding genes (78 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 91 protein-coding genes (78 are unique) Genes Length Location accD 1575 [57761:59335](+) atpA 1533 [37319:38851](-) atpB 1476 [8570:10045](+) atpE 402 [10068:10469](+) atpF 636 [40170:40314](-) [38966:39456](-) atpH 246 [40780:41025](-) atpI 744 [41701:42444](-) ccsA 942 [112065:113006](+) cemA 690 [61120:61809](+) clpP 597 [71612:71682](-) [70605:70896](-) [69588:69821](-) matK 1524 [3128:4651](-) ndhA 1092 [119390:119941](-) [117575:118114](-) ndhB 1479 [95357:96079](-) [93916:94671](-) ndhB_copy2 1479 [139505:140227](+) [140913:141668](+) ndhC 363 [11888:12250](+) ndhD 1506 [113435:114940](-) ndhE 306 [115600:115905](-) ndhF 2247 [108252:110498](-) ndhG 531 [116174:116704](-) ndhH 1182 [119943:121124](-) ndhI 501 [117002:117502](-) ndhJ 477 [13107:13583](+) ndhK 669 [12302:12970](+) petA 963 [62038:63000](+) petB 648 [74698:74703](+) [75508:76149](+) petD 483 [76345:76352](+) [77075:77549](+) petG 114 [65453:65566](+) petL 96 [65183:65278](+) petN 90 [56094:56183](+) psaA 2253 [20686:22938](+) psaB 2205 [22964:25168](+) psaC 246 [115054:115299](-) psaI 105 [59779:59883](+) psaJ 135 [66493:66627](+) psbA 1062 [1408:2469](-) psbB 1527 [72195:73721](+) psbC 1422 [27578:28999](-) psbD 1062 [28947:30008](-) psbE 252 [63974:64225](-) psbF 120 [63845:63964](-) psbH 222 [74344:74565](+) psbI 111 [35188:35298](+) psbJ 123 [63420:63542](-) psbK 186 [34525:34710](+) psbL 201 [63706:63906](-) psbM 105 [32850:32954](+) psbN 132 [74096:74227](-) psbT 108 [73931:74038](+) psbZ 189 [26677:26865](-) rbcL 1428 [6397:7824](-) rpl14 369 [79458:79826](-) rpl14_copy2 369 [155758:156126](+) rpl16 408 [81510:81518](-) [79953:80351](-) rpl16_copy2 408 [154066:154074](+) [155233:155631](+) rpl2 825 [84699:85089](-) [83585:84018](-) rpl20 393 [68047:68439](-) rpl22 102 [43420:43521](-) rpl23 282 [85108:85389](-) rpl23_copy2 282 [150195:150476](+) rpl2_copy2 825 [150495:150885](+) [151566:151999](+) rpl32 162 [111255:111416](+) rpl33 201 [67121:67321](+) rpl36 114 [78507:78620](-) rpl36_copy2 114 [156964:157077](+) rpoA 1002 [49:1050](+) rpoB 3261 [50824:54084](-) rpoC1 2055 [50362:50793](-) [47967:49589](-) rpoC2 4209 [43577:47785](-) rps11 450 [77687:78136](-) rps11_copy2 450 [157448:157897](+) rps12 384 [69191:69304](-) [97537:97768](-) [96958:96995](-) rps12_copy2 384 [69191:69304](-) [137816:138047](+) [138589:138626](+) rps14 303 [25310:25612](+) rps15 276 [121227:121502](-) rps16 243 [56540:56579](+) [57406:57608](+) rps18 429 [67533:67961](+) rps19 279 [82857:83135](-) rps19_copy2 279 [152449:152727](+) rps2 711 [42681:43391](-) rps3 657 [81673:82329](-) rps3_copy2 657 [153255:153911](+) rps4 597 [16855:17451](+) rps7 468 [96440:96907](-) rps7_copy2 468 [138677:139144](+) rps8 405 [78803:79207](-) rps8_copy2 405 [156377:156781](+) ycf1 5268 [121902:127169](-) ycf2 6717 [85951:92667](+) ycf2_copy2 6717 [142917:149633](-) ycf3 507 [18018:18143](+) [18846:19073](+) [19807:19959](+) ycf4 585 [60092:60676](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [1053:1126](-) trnK-UUU [5361:5397](-) [2746:2780](-) trnM-CAU [10574:10646](-) trnV-UAC [10833:10871](+) [11454:11488](+) trnF-GAA [13911:13983](-) trnL-UAA [14884:14918](-) [14308:14357](-) trnT-UGU [16492:16564](+) trnS-GGA [17681:17768](-) trnfM-CAU [25796:25869](+) trnG-GCC [25992:26062](-) trnS-UGA [27256:27348](+) trnT-GGU [31193:31264](-) trnE-UUC [31675:31747](+) trnY-GUA [31818:31901](+) trnD-GUC [32349:32422](+) trnQ-UUG [33932:34003](-) trnS-GCU [35324:35410](-) trnG-UCC [36400:36437](+) [36495:36532](+) trnR-UCU [36802:36873](+) trnC-GCA [55191:55262](+) trnW-CCA [65739:65812](-) trnP-UGG [65975:66048](-) trnI-CAU [85788:85861](-) trnL-CAA [93251:93331](-) trnV-GAC [99582:99653](+) trnI-GAU [101662:101698](+) [102636:102670](+) trnA-UGC [102735:102772](+) [103584:103618](+) trnR-ACG [107410:107483](+) trnN-GUU [108106:108177](-) trnL-UAG [111881:111960](+) trnN-GUU_copy2 [127407:127478](+) trnR-ACG_copy2 [128101:128174](-) trnA-UGC_copy2 [132812:132849](-) [131966:132000](-) trnI-GAU_copy2 [133886:133922](-) [132914:132948](-) trnV-GAC_copy2 [135931:136002](-) trnL-CAA_copy2 [142253:142333](+) trnI-CAU_copy2 [149723:149796](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [99877:101367](+) rrn23 [103776:106589](+) rrn4.5 [106690:106793](+) rrn5 [107015:107135](+) rrn5_copy2 [128449:128569](-) rrn4.5_copy2 [128791:128894](-) rrn23_copy2 [128995:131808](-) rrn16_copy2 [134217:135707](-) This genome has 24 genes with intron(s). Details are as follows: 20 gene(s) have 1 intron(s) Genes Exons atpF [40170:40314](-) [38966:39456](-) rpoC1 [50362:50793](-) [47967:49589](-) rps16 [56540:56579](+) [57406:57608](+) petB [74698:74703](+) [75508:76149](+) petD [76345:76352](+) [77075:77549](+) rpl16 [81510:81518](-) [79953:80351](-) rpl2 [84699:85089](-) [83585:84018](-) ndhB [95357:96079](-) [93916:94671](-) ndhA [119390:119941](-) [117575:118114](-) ndhB_copy2 [139505:140227](+) [140913:141668](+) rpl2_copy2 [150495:150885](+) [151566:151999](+) rpl16_copy2 [154066:154074](+) [155233:155631](+) trnK-UUU [5361:5397](-) [2746:2780](-) trnV-UAC [10833:10871](+) [11454:11488](+) trnL-UAA [14884:14918](-) [14308:14357](-) trnG-UCC [36400:36437](+) [36495:36532](+) trnI-GAU [101662:101698](+) [102636:102670](+) trnA-UGC [102735:102772](+) [103584:103618](+) trnA-UGC_copy2 [132812:132849](-) [131966:132000](-) trnI-GAU_copy2 [133886:133922](-) [132914:132948](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [69191:69304](-) [97537:97768](-) [96958:96995](-) ycf3 [18018:18143](+) [18846:19073](+) [19807:19959](+) rps12_copy2 [69191:69304](-) [137816:138047](+) [138589:138626](+) clpP [71612:71682](-) [70605:70896](-) [69588:69821](-)