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, 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, rps14, rps15, rps16, rps18, rps19, rps19_copy2, 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, ycf15, ycf15_copy2, ycf1_copy2, ycf2, ycf2_copy2 Other genes clpP1, pafI, pafII, 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, 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 ycf4 Other genes None 2. Multicopy genes with different lengths: Genes Length Location ycf1 1125 [110601:111726](+) ycf1_copy2 5640 [125531:131171](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13137:13280](-) [12025:12435](-) ndhA (2/2) [123027:123577](-) [121332:121872](-) ndhB (2/2) [97912:98688](-) [96477:97232](-) ndhB_copy2 (2/2) [143085:143861](+) [144541:145296](+) petB (2/2) [76927:76932](+) [77679:78320](+) petD (2/2) [78511:78518](+) [79267:79741](+) rpl16 (2/2) [84570:84578](-) [83155:83550](-) rpl2 (2/2) [87327:87717](-) [86227:86660](-) rpl2_copy2 (2/2) [154056:154446](+) [155113:155546](+) rpoC1 (2/2) [23703:24153](-) [21356:22971](-) rps12 (2/3) [71698:71811](-) [100045:100287](-) rps16 (2/2) [6182:6221](-) [5093:5319](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: pafI 3 [45604:45728](-) [44636:44864](-) [43720:43878](-)] clpP1 3 [73903:73973](-) [72819:73109](-) [71950:72184](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbL ACG rps19 GTG ndhD ATT rps19_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 133 genes (112 unique genes). Including: 87 protein-coding genes (79 are unique) 38 tRNA genes (29 are unique) 8 rRNA genes (4 are unique) Details are as follows: 87 protein-coding genes (79 are unique) Genes Length Location accD 1506 [59070:60575](+) atpA 1524 [10447:11970](-) atpB 1497 [54547:56043](-) atpE 402 [54149:54550](-) atpF 555 [13137:13280](-) [12025:12435](-) atpH 246 [13683:13928](-) atpI 744 [15122:15865](-) ccsA 942 [115978:116919](+) cemA 690 [63003:63692](+) clpP1 597 [73903:73973](-) [72819:73109](-) [71950:72184](-) matK 1530 [2098:3627](-) ndhA 1092 [123027:123577](-) [121332:121872](-) ndhB 1533 [97912:98688](-) [96477:97232](-) ndhB_copy2 1533 [143085:143861](+) [144541:145296](+) ndhC 363 [51558:51920](-) ndhD 1476 [117156:118631](-) ndhE 306 [119282:119587](-) ndhF 2223 [111706:113928](-) ndhG 531 [119812:120342](-) ndhH 1182 [123579:124760](-) ndhI 504 [120744:121247](-) ndhJ 477 [50242:50718](-) ndhK 744 [50824:51567](-) pafI 513 [45604:45728](-) [44636:44864](-) [43720:43878](-) pafII 555 [61749:62303](+) pbf1 132 [76333:76464](-) petA 963 [63912:64874](+) petB 648 [76927:76932](+) [77679:78320](+) petD 483 [78511:78518](+) [79267:79741](+) petG 114 [68033:68146](+) petL 96 [67749:67844](+) petN 90 [29417:29506](+) psaA 2253 [40701:42953](-) psaB 2205 [38471:40675](-) psaC 246 [118777:119022](-) psaI 111 [61196:61306](+) psaJ 135 [69040:69174](+) psbA 1062 [522:1583](-) psbB 1527 [74419:75945](+) psbC 1422 [34961:36382](+) psbD 1062 [33952:35013](+) psbE 252 [66342:66593](-) psbF 120 [66213:66332](-) psbH 222 [76576:76797](+) psbI 111 [8373:8483](+) psbJ 123 [65827:65949](-) psbK 186 [7823:8008](+) psbL 117 [66074:66190](-) psbM 105 [30624:30728](-) psbT 105 [76155:76259](+) psbZ 189 [37070:37258](+) rbcL 1434 [56866:58299](+) rpl14 369 [82660:83028](-) rpl16 405 [84570:84578](-) [83155:83550](-) rpl2 825 [87327:87717](-) [86227:86660](-) rpl20 387 [70501:70887](-) rpl22 468 [85366:85833](-) rpl23 282 [87736:88017](-) rpl23_copy2 282 [153756:154037](+) rpl2_copy2 825 [154056:154446](+) [155113:155546](+) rpl32 168 [114712:114879](+) rpl33 201 [69594:69794](+) rpl36 114 [81518:81631](-) rpoA 1014 [79921:80934](-) rpoB 3213 [24159:27371](-) rpoC1 2067 [23703:24153](-) [21356:22971](-) rpoC2 4167 [17032:21198](-) rps11 417 [81000:81416](-) rps12 357 [71698:71811](-) [100045:100287](-) rps14 303 [38051:38353](-) rps15 264 [124872:125135](-) rps16 267 [6182:6221](-) [5093:5319](-) rps18 306 [69981:70286](+) rps19 279 [85886:86164](-) rps19_copy2 279 [155609:155887](+) rps2 711 [16098:16808](-) rps3 657 [84725:85381](-) rps4 606 [46694:47299](-) rps7 468 [98973:99440](-) rps7_copy2 468 [142333:142800](+) rps8 405 [82078:82482](-) ycf1 1125 [110602:111726](+) ycf15 213 [95296:95508](+) ycf15_copy2 213 [146265:146477](-) ycf1_copy2 5640 [125532:131171](-) ycf2 6810 [88345:95154](+) ycf2_copy2 6810 [146619:153428](-) 38 tRNA genes (29 are unique) Genes Location trnH-GUG [5:79](-) trnK-UUU [4349:4385](-) [1798:1832](-) trnQ-UUG [7399:7470](-) trnS-GCU [8604:8691](-) trnG-UCC [9325:9347](+) [10043:10090](+) trnR-UCU [10255:10326](+) trnC-GCA [28671:28742](+) trnD-GUC [31415:31488](-) trnY-GUA [31597:31680](-) trnE-UUC [31740:31812](-) trnT-GGU [32683:32754](+) trnS-UGA [36620:36711](-) trnG-UCC_copy2 [37534:37604](+) trnfM-CAU [37828:37901](-) trnS-GGA [46268:46354](+) trnT-UGU [47686:47758](-) trnL-UAA [48467:48503](+) [48999:49048](+) trnF-GAA [49476:49548](+) trnV-UAC [53628:53665](-) [53022:53058](-) trnM-CAU [53855:53927](+) trnT-GGU_copy2 [53861:53919](+) trnW-CCA [68284:68357](-) trnP-UGG [68522:68595](-) trnI-CAU [88183:88256](-) trnL-CAA [95857:95937](-) trnV-GAC [101896:101967](+) trnI-GAU [103995:104036](+) [104754:104788](+) trnA-UGC [104853:104890](+) [105702:105736](+) trnR-ACG [109538:109611](+) trnN-GUU [110202:110273](-) trnL-UAG [115795:115874](+) trnN-GUU_copy2 [131500:131572](+) trnR-ACG_copy2 [132162:132235](-) trnA-UGC_copy2 [136883:136920](-) [136037:136071](-) trnI-GAU_copy2 [137742:137778](-) [136985:137019](-) trnV-GAC_copy2 [139806:139877](-) trnL-CAA_copy2 [145836:145916](+) trnI-CAU_copy2 [153517:153590](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [102205:103694](+) rrn23 [105885:108694](+) rrn4.5 [108796:108898](+) rrn5 [109155:109275](+) rrn5_copy2 [132498:132618](-) rrn4.5_copy2 [132875:132977](-) rrn23_copy2 [133079:135888](-) rrn16_copy2 [138079:139578](-) This genome has 22 genes with intron(s). Details are as follows: 20 gene(s) have 1 intron(s) Genes Exons rps12 [71698:71811](-) [100045:100287](-) rps16 [6182:6221](-) [5093:5319](-) atpF [13137:13280](-) [12025:12435](-) rpoC1 [23703:24153](-) [21356:22971](-) petB [76927:76932](+) [77679:78320](+) petD [78511:78518](+) [79267:79741](+) rpl16 [84570:84578](-) [83155:83550](-) rpl2 [87327:87717](-) [86227:86660](-) ndhB [97912:98688](-) [96477:97232](-) ndhA [123027:123577](-) [121332:121872](-) ndhB_copy2 [143085:143861](+) [144541:145296](+) rpl2_copy2 [154056:154446](+) [155113:155546](+) trnK-UUU [4349:4385](-) [1798:1832](-) trnG-UCC [9325:9347](+) [10043:10090](+) trnL-UAA [48467:48503](+) [48999:49048](+) trnV-UAC [53628:53665](-) [53022:53058](-) trnI-GAU [103995:104036](+) [104754:104788](+) trnA-UGC [104853:104890](+) [105702:105736](+) trnA-UGC_copy2 [136883:136920](-) [136037:136071](-) trnI-GAU_copy2 [137742:137778](-) [136985:137019](-) 2 gene(s) have 2 intron(s) Genes Exons pafI [45604:45728](-) [44636:44864](-) [43720:43878](-) clpP1 [73903:73973](-) [72819:73109](-) [71950:72184](-)