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, 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 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 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 None Other genes None 2. Multicopy genes with different lengths: Genes Length Location rps12 372 join{[71762:71876](-), [100780:101008](-), [100214:100244](-)} rps12_copy2 375 join{[71762:71876](-), [143348:143579](+), [144112:144142](+)} ycf15 126 [95760:95886](+) ycf15_copy2 129 [148565:148694](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13128:13271](-) [11972:12382](-) clpP (3/3) [74040:74109](-) [72944:73233](-) [72065:72292](-) ndhA (2/2) [124582:125132](-) [122900:123440](-) ndhB (2/2) [98597:99373](-) [97161:97916](-) ndhB_copy2 (2/2) [144984:145760](+) [146441:147196](+) petB (2/2) [77039:77043](+) [77797:78439](+) petD (2/2) [78627:78633](+) [79378:79853](+) rpl16 (2/2) [84762:84771](-) [83352:83749](-) rpl2 (2/2) [87663:88047](-) [86546:87015](-) rpl2_copy2 (2/2) [156310:156694](+) [157342:157811](+) rpoC1 (2/2) [23741:24176](-) [21371:22986](-) rps12 (3/3) [71763:71876](-) [100781:101008](-) [100215:100244](-) rps12_copy2 (3/3) [71763:71876](-) [143349:143579](+) [144113:144142](+) rps16 (1/2) [5259:5483](-) ycf3 (3/3) [46163:46288](-) [45222:45447](-) [44304:44458](-) ### 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 rps16 ATT psbL TTG rps19 GTG ycf15 ATT ycf15_copy2 CTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 130 genes (112 unique genes). Including: 86 protein-coding genes (79 are unique) 36 tRNA genes (29 are unique) 8 rRNA genes (4 are unique) Details are as follows: 86 protein-coding genes (79 are unique) Genes Length Location accD 1476 [59282:60757](+) atpA 1524 [10394:11917](-) atpB 1479 [55030:56508](-) atpE 402 [54606:55007](-) atpF 555 [13128:13271](-) [11972:12382](-) atpH 246 [13708:13953](-) atpI 744 [15147:15890](-) ccsA 963 [117452:118414](+) cemA 690 [63151:63840](+) clpP 588 [74040:74109](-) [72944:73233](-) [72065:72292](-) matK 1521 [2023:3543](-) ndhA 1092 [124582:125132](-) [122900:123440](-) ndhB 1533 [98597:99373](-) [97161:97916](-) ndhB_copy2 1533 [144984:145760](+) [146441:147196](+) ndhC 363 [52413:52775](-) ndhD 1503 [118707:120209](-) ndhE 306 [120836:121141](-) ndhF 2238 [112656:114893](-) ndhG 531 [121381:121911](-) ndhH 1182 [125134:126315](-) ndhI 516 [122312:122827](-) ndhJ 477 [51075:51551](-) ndhK 681 [51679:52359](-) petA 963 [64055:65017](+) petB 648 [77039:77043](+) [77797:78439](+) petD 483 [78627:78633](+) [79378:79853](+) petG 114 [68302:68415](+) petL 96 [68030:68125](+) petN 90 [29583:29672](+) psaA 2253 [41347:43599](-) psaB 2205 [39117:41321](-) psaC 246 [120331:120576](-) psaI 114 [61516:61629](+) psaJ 135 [69210:69344](+) psbA 1062 [392:1453](-) psbB 1527 [74561:76087](+) psbC 1422 [35658:37079](+) psbD 1062 [34649:35710](+) psbE 252 [66485:66736](-) psbF 120 [66356:66475](-) psbH 225 [76692:76916](+) psbI 111 [7923:8033](+) psbJ 123 [65974:66096](-) psbK 180 [7513:7692](+) psbL 81 [66217:66297](-) psbM 105 [30885:30989](-) psbN 132 [76442:76573](-) psbT 108 [76273:76380](+) psbZ 189 [37775:37963](+) rbcL 1428 [57237:58664](+) rpl14 369 [82847:83215](-) rpl16 408 [84762:84771](-) [83352:83749](-) rpl2 855 [87663:88047](-) [86546:87015](-) rpl20 354 [70624:70977](-) rpl22 426 [85705:86130](-) rpl23 282 [88066:88347](-) rpl23_copy2 282 [156010:156291](+) rpl2_copy2 855 [156310:156694](+) [157342:157811](+) rpl32 159 [115787:115945](+) rpl33 201 [69811:70011](+) rpl36 114 [81690:81803](-) rpoA 981 [80089:81069](-) rpoB 3213 [24208:27420](-) rpoC1 2052 [23741:24176](-) [21371:22986](-) rpoC2 4107 [17087:21193](-) rps11 417 [81134:81550](-) rps12 372 [71763:71876](-) [100781:101008](-) [100215:100244](-) rps12_copy2 375 [71763:71876](-) [143349:143579](+) [144113:144142](+) rps14 303 [38683:38985](-) rps15 273 [126419:126691](-) rps16 225 [5259:5483](-) rps18 303 [70184:70486](+) rps19 279 [86197:86475](-) rps2 711 [16111:16821](-) rps3 657 [84919:85575](-) rps4 606 [47291:47896](-) rps7 468 [99695:100162](-) rps7_copy2 468 [144195:144662](+) rps8 405 [82267:82671](-) ycf1 5637 [127097:132733](-) ycf15 126 [95761:95886](+) ycf15_copy2 129 [148566:148694](-) ycf2 6834 [88675:95508](+) ycf2_copy2 6834 [148849:155682](-) ycf3 507 [46163:46288](-) [45222:45447](-) [44304:44458](-) ycf4 555 [62035:62589](+) 36 tRNA genes (29 are unique) Genes Location trnH-GUG [51:125](-)