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, 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, 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 None Conserved open reading frames ycf4 Other genes None 2. Multicopy genes with different lengths: Genes Length Location ycf1 1149 [107791:108940](+) ycf1_copy2 5535 [122002:127537](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [12802:12946](-) [11697:12106](-) ndhA (2/2) [119495:120047](-) [117929:118467](-) ndhB (2/2) [94947:95723](-) [93516:94271](-) ndhB_copy2 (2/2) [139606:140382](+) [141058:141813](+) petB (2/2) [74196:74201](+) [74933:75574](+) petD (2/2) [75762:75769](+) [76478:76952](+) rpl16 (2/2) [81646:81654](-) [80381:80779](-) rpl2 (2/2) [84418:84808](-) [83319:83752](-) rpl2_copy2 (2/2) [150521:150911](+) [151577:152010](+) rpoC1 (2/2) [23119:23550](-) [20730:22340](-) rps12 (3/3) [69147:69260](-) [97081:97312](-) [96519:96544](-) rps16 (2/2) [5905:5944](-) [4847:5043](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: pafI 3 [43860:43983](-) [42932:43161](-) [42037:42189](-)] clpP1 3 [71224:71294](-) [70238:70529](-) [69385:69612](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbC GTG rps19 GTG ycf15 GTG ycf15_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 132 genes (114 unique genes). Including: 87 protein-coding genes (80 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 87 protein-coding genes (80 are unique) Genes Length Location accD 1482 [57055:58536](+) atpA 1524 [10078:11601](-) atpB 1497 [52643:54139](-) atpE 402 [52245:52646](-) atpF 555 [12802:12946](-) [11697:12106](-) atpH 246 [13228:13473](-) atpI 744 [14488:15231](-) ccsA 978 [112572:113549](+) cemA 690 [60775:61464](+) clpP1 591 [71224:71294](-) [70238:70529](-) [69385:69612](-) infA 234 [78943:79176](-) matK 1530 [2015:3544](-) ndhA 1092 [119495:120047](-) [117929:118467](-) ndhB 1533 [94947:95723](-) [93516:94271](-) ndhB_copy2 1533 [139606:140382](+) [141058:141813](+) ndhC 363 [49803:50165](-) ndhD 1164 [113784:114947](-) ndhE 306 [115922:116227](-) ndhF 2232 [108807:111038](-) ndhG 531 [116436:116966](-) ndhH 1182 [120049:121230](-) ndhI 507 [117342:117848](-) ndhJ 477 [48487:48963](-) ndhK 678 [49074:49751](-) pafI 507 [43860:43983](-) [42932:43161](-) [42037:42189](-) pafII 555 [59562:60116](+) pbf1 132 [73612:73743](-) petA 963 [61679:62641](+) petB 648 [74196:74201](+) [74933:75574](+) petD 483 [75762:75769](+) [76478:76952](+) petG 114 [65639:65752](+) petL 96 [65365:65460](+) petN 90 [28174:28263](+) psaA 2253 [38980:41232](-) psaB 2205 [36750:38954](-) psaC 246 [115426:115671](-) psaI 111 [59007:59117](+) psaJ 135 [66462:66596](+) psbA 1059 [404:1462](-) psbB 1527 [71743:73269](+) psbC 1386 [33342:34727](+) psbD 1062 [32297:33358](+) psbE 252 [64210:64461](-) psbF 120 [64076:64195](-) psbH 222 [73849:74070](+) psbI 111 [7906:8016](+) psbJ 123 [63679:63801](-) psbK 186 [7333:7518](+) psbL 117 [63936:64052](-) psbM 105 [29277:29381](-) psbT 108 [73444:73551](+) psbZ 189 [35400:35588](+) rbcL 1434 [54930:56363](+) rpl14 369 [79881:80249](-) rpl16 408 [81646:81654](-) [80381:80779](-) rpl2 825 [84418:84808](-) [83319:83752](-) rpl20 387 [67958:68344](-) rpl22 468 [82444:82911](-) rpl23 282 [84827:85108](-) rpl23_copy2 282 [150221:150502](+) rpl2_copy2 825 [150521:150911](+) [151577:152010](+) rpl32 171 [111492:111662](+) rpl33 201 [67046:67246](+) rpl36 114 [78734:78847](-) rpoA 1008 [77129:78136](-) rpoB 3213 [23577:26789](-) rpoC1 2043 [23119:23550](-) [20730:22340](-) rpoC2 4176 [16378:20553](-) rps11 417 [78208:78624](-) rps12 372 [69147:69260](-) [97081:97312](-) [96519:96544](-) rps14 303 [36325:36627](-) rps15 273 [121330:121602](-) rps16 237 [5905:5944](-) [4847:5043](-) rps18 306 [67417:67722](+) rps19 279 [82981:83259](-) rps2 711 [15456:16166](-) rps3 663 [81797:82459](-) rps4 606 [45179:45784](-) rps7 468 [95998:96465](-) rps7_copy2 468 [138864:139331](+) rps8 405 [79297:79701](-) ycf1 1149 [107792:108940](+) ycf15 249 [92366:92614](+) ycf15_copy2 249 [142715:142963](-) ycf1_copy2 5535 [122003:127537](-) ycf2 6840 [85436:92275](+) ycf2_copy2 6840 [143054:149893](-) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [17:91](-) trnK-UUU [4251:4287](-) [1695:1729](-) trnQ-UUG [6875:6946](-) trnS-GCU [8172:8259](-) trnG-UCC [8958:8980](+) [9666:9713](+) trnR-UCU [9900:9971](+) trnC-GCA [27940:28010](+) trnD-GUC [29900:29973](-) trnY-GUA [30084:30167](-) trnE-UUC [30239:30311](-) trnT-GGU [30875:30946](+) trnS-UGA [34972:35064](-) trnG-GCC [35866:35936](+) trnfM-CAU [36102:36175](-) trnS-GGA [44810:44896](+) trnT-UGU [46145:46217](-) trnL-UAA [46911:46945](+) [47424:47473](+) trnF-GAA [47763:47835](+) trnV-UAC [51744:51781](-) [51132:51166](-) trnM-CAU [51962:52034](+) trnW-CCA [65867:65940](-) trnP-UGG [66113:66186](-) trnI-CAU [85274:85347](-) trnL-CAA [92875:92955](-) trnV-GAC [98950:99021](+) trnI-GAU [101037:101073](+) [102021:102055](+) trnA-UGC [102120:102157](+) [102963:102997](+) trnR-ACG [106793:106866](+) trnN-GUU [107391:107462](-) trnL-UAG [112396:112475](+) trnN-GUU_copy2 [127867:127938](+) trnR-ACG_copy2 [128463:128536](-) trnA-UGC_copy2 [133172:133209](-) [132332:132366](-) trnI-GAU_copy2 [134256:134292](-) [133274:133308](-) trnV-GAC_copy2 [136308:136379](-) trnL-CAA_copy2 [142374:142454](+) trnI-CAU_copy2 [149982:150055](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [99248:100738](+) rrn23 [103157:105967](+) rrn4.5 [106066:106168](+) rrn5 [106429:106549](+) rrn5_copy2 [128780:128900](-) rrn4.5_copy2 [129161:129263](-) rrn23_copy2 [129362:132172](-) rrn16_copy2 [134591:136081](-) This genome has 22 genes with intron(s). Details are as follows: 19 gene(s) have 1 intron(s) Genes Exons rps16 [5905:5944](-) [4847:5043](-) atpF [12802:12946](-) [11697:12106](-) rpoC1 [23119:23550](-) [20730:22340](-) petB [74196:74201](+) [74933:75574](+) petD [75762:75769](+) [76478:76952](+) rpl16 [81646:81654](-) [80381:80779](-) rpl2 [84418:84808](-) [83319:83752](-) ndhB [94947:95723](-) [93516:94271](-) ndhA [119495:120047](-) [117929:118467](-) ndhB_copy2 [139606:140382](+) [141058:141813](+) rpl2_copy2 [150521:150911](+) [151577:152010](+) trnK-UUU [4251:4287](-) [1695:1729](-) trnG-UCC [8958:8980](+) [9666:9713](+) trnL-UAA [46911:46945](+) [47424:47473](+) trnV-UAC [51744:51781](-) [51132:51166](-) trnI-GAU [101037:101073](+) [102021:102055](+) trnA-UGC [102120:102157](+) [102963:102997](+) trnA-UGC_copy2 [133172:133209](-) [132332:132366](-) trnI-GAU_copy2 [134256:134292](-) [133274:133308](-) 3 gene(s) have 2 intron(s) Genes Exons rps12 [69147:69260](-) [97081:97312](-) [96519:96544](-) pafI [43860:43983](-) [42932:43161](-) [42037:42189](-) clpP1 [71224:71294](-) [70238:70529](-) [69385:69612](-)