1. Annotated protein coding genes: Group of genes Name of genes Subunits of ATP synthase atpA, atpE, atpF, atpH, atpI Subunits of NADH-dehydrogenase ndhA, ndhB, ndhB_copy2, ndhC, 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, ycf3 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, rps18, 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, ycf15_copy3, ycf15_copy4, ycf1_copy2, ycf2, ycf2_copy2, ycf4 Other genes None Possible missing protein coding genes: Group of genes Name of genes Subunits of ATP synthase atpB Subunits of NADH-dehydrogenase ndhD Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II psbL, psbN Large subunit of ribosome None Small subunit of ribosome rps16, rps19 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 None Other genes None 2. Multicopy genes with different lengths: Genes Length Location rpl2 864 join{[1145:1539](-), [49:519](-)} rpl2_copy2 861 join{[67060:67451](+), [68080:68550](+)} ycf2 6828 join{[2189:7179](+), [7209:9047](+)} ycf2_copy2 6831 join{[61417:66410](-), [59552:61390](-)} ycf15 102 [9043:9145](+) ycf15_copy2 192 [14876:15068](-) ycf15_copy3 192 [53531:53723](+) ycf15_copy4 102 [59454:59556](-) ycf1 495 [24547:25042](+) ycf1_copy2 4254 [39036:43290](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [95562:95705](+) [96414:96824](+) ndhA (2/2) [36527:37082](-) [34940:35478](-) ndhB (2/2) [11535:12311](-) [10110:10865](-) ndhB_copy2 (2/2) [56289:57065](+) [57735:58490](+) petB (2/2) [143590:143595](+) [144360:145001](+) petD (1/2) [145853:146377](+) rpl16 (2/2) [151331:151339](-) [149891:150289](-) rpl2 (2/2) [1146:1539](-) [50:519](-) rpl2_copy2 (2/2) [67061:67451](+) [68081:68550](+) rpoC1 (2/2) [84836:85265](+) [86003:87642](+) rps12 (2/3) [138348:138461](-) [13672:13914](-) ycf3 (3/3) [112642:112768](-) [111722:111951](-) [110827:110979](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: ycf2 2 [2190:7179](+) [7210:9047](+)] ycf2_copy2 2 [61418:66410](-) [59553:61390](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon None None 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 119 genes (100 unique genes). Including: 82 protein-coding genes (73 are unique) 29 tRNA genes (23 are unique) 8 rRNA genes (4 are unique) Details are as follows: 82 protein-coding genes (73 are unique) Genes Length Location accD 1419 [125875:127293](+) atpA 1527 [96888:98414](+) atpE 402 [121245:121646](-) atpF 555 [95562:95705](+) [96414:96824](+) atpH 246 [94946:95191](+) atpI 744 [93068:93811](+) ccsA 969 [29617:30585](+) cemA 690 [129877:130566](+) infA 234 [148419:148652](-) matK 1521 [70732:72252](-) ndhA 1095 [36527:37082](-) [34940:35478](-) ndhB 1533 [11535:12311](-) [10110:10865](-) ndhB_copy2 1533 [56289:57065](+) [57735:58490](+) ndhC 363 [118559:118921](-) ndhE 306 [32947:33252](-) ndhF 2226 [25024:27249](-) ndhG 531 [33471:34001](-) ndhH 1182 [37084:38265](-) ndhI 501 [34361:34861](-) ndhJ 477 [117246:117722](-) ndhK 678 [117830:118507](-) petA 963 [130793:131755](+) petB 648 [143590:143595](+) [144360:145001](+) petD 525 [145853:146377](+) petG 114 [134857:134970](+) petL 96 [134589:134684](+) petN 90 [78985:79074](+) psaA 2253 [107804:110056](-) psaB 2205 [105574:107778](-) psaC 246 [32465:32710](-) psaI 111 [128009:128119](+) psaJ 135 [135729:135863](+) psbA 1062 [69143:70204](-) psbB 1527 [141119:142645](+) psbC 1422 [102075:103496](+) psbD 1062 [101066:102127](+) psbE 252 [133063:133314](-) psbF 120 [132934:133053](-) psbH 240 [143226:143465](+) psbI 111 [76983:77093](+) psbJ 123 [132524:132646](-) psbK 180 [76400:76579](+) psbM 105 [79560:79664](-) psbT 102 [142833:142934](+) psbZ 189 [104161:104349](+) rbcL 1434 [123897:125330](+) rpl14 369 [149389:149757](-) rpl16 408 [151331:151339](-) [149891:150289](-) rpl2 864 [1146:1539](-) [50:519](-) rpl20 381 [137227:137607](-) rpl22 474 [152134:152607](-) rpl23 282 [1558:1839](-) rpl23_copy2 282 [66761:67042](+) rpl2_copy2 861 [67061:67451](+) [68081:68550](+) rpl32 165 [28364:28528](+) rpl33 207 [136289:136495](+) rpl36 114 [148182:148295](-) rpoA 1008 [146574:147581](-) rpoB 3183 [81627:84809](+) rpoC1 2070 [84836:85265](+) [86003:87642](+) rpoC2 4152 [87744:91895](+) rps11 411 [147662:148072](-) rps12 357 [138348:138461](-) [13672:13914](-) rps14 303 [105138:105440](-) rps15 279 [38356:38634](-) rps18 306 [136675:136980](+) rps2 711 [92135:92845](+) rps3 657 [151493:152149](-) rps4 606 [114076:114681](-) rps7 468 [12601:13068](-) rps7_copy2 468 [55532:55999](+) rps8 405 [148786:149190](-) ycf1 495 [24548:25042](+) ycf15 102 [9044:9145](+) ycf15_copy2 192 [14877:15068](-) ycf15_copy3 192 [53532:53723](+) ycf15_copy4 102 [59455:59556](-) ycf1_copy2 4254 [39037:43290](-) ycf2 6828 [2190:7179](+) [7210:9047](+) ycf2_copy2 6831 [61418:66410](-) [59553:61390](-) ycf3 510 [112642:112768](-) [111722:111951](-) [110827:110979](-) ycf4 555 [128525:129079](+) 29 tRNA genes (23 are unique) Genes Location trnI-CAT [2005:2078](-) trnL-CAA [9456:9536](-) trnV-GAC [15757:15828](+) trnR-ACG [23610:23683](+) trnN-GTT [24149:24220](-) trnL-TAG [29429:29508](+) trnN-GTT_copy2 [44380:44451](+) trnR-ACG_copy2 [44917:44990](-) trnV-GAC_copy2 [52772:52843](-) trnL-CAA_copy2 [59064:59144](+) trnI-CAT_copy2 [66522:66595](+) trnH-GTG [68681:68754](-) trnQ-TTG [75934:76005](-) trnS-GCT [77233:77320](-) trnC-GCA [78077:78147](+) trnD-GTC [80328:80401](-) trnY-GTA [80515:80598](-) trnE-TTC [80702:80773](-) trnR-TCT [98541:98612](-) trnT-GGT [99769:99840](+) trnS-TGA [103741:103823](-) trnG-GCC [104654:104724](+) trnM-CAT [104910:104983](-) trnS-GGA [113674:113760](+) trnT-TGT [115029:115101](-) trnF-GAA [116548:116620](+) trnM-CAT_copy2 [120957:121029](+) trnW-CCA [135088:135161](-) trnP-TGG [135343:135416](-) 8 rRNA genes (4 are unique) Genes Location rrn16S [16057:17546](-) rrn23S [19346:22777](-) rrn4.5S [22877:23145](-) rrn5S [23227:23348](+) rrn5S_copy2 [45252:45373](-) rrn4.5S_copy2 [45455:45723](+) rrn23S_copy2 [45823:49254](+) rrn16S_copy2 [51054:52543](+) This genome has 13 genes with intron(s). Details are as follows: 12 gene(s) have 1 intron(s) Genes Exons rpl2 [1146:1539](-) [50:519](-) ycf2 [2190:7179](+) [7210:9047](+) ndhB [11535:12311](-) [10110:10865](-) rps12 [138348:138461](-) [13672:13914](-) ndhA [36527:37082](-) [34940:35478](-) ndhB_copy2 [56289:57065](+) [57735:58490](+) ycf2_copy2 [61418:66410](-) [59553:61390](-) rpl2_copy2 [67061:67451](+) [68081:68550](+) rpoC1 [84836:85265](+) [86003:87642](+) atpF [95562:95705](+) [96414:96824](+) petB [143590:143595](+) [144360:145001](+) rpl16 [151331:151339](-) [149891:150289](-) 1 gene(s) have 2 intron(s) Genes Exons ycf3 [112642:112768](-) [111722:111951](-) [110827:110979](-)