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, 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 None Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf1, 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 ycf15, ycf4 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) [13541:13685](-) [12380:12789](-) ndhA (2/2) [121956:122508](+) [123623:124161](+) ndhB (2/2) [101181:101957](-) [99725:100480](-) ndhB_copy2 (2/2) [148317:149093](+) [149794:150549](+) petB (2/2) [79262:79267](+) [80106:80747](+) petD (2/2) [80945:80952](+) [81703:82198](+) rpl16 (2/2) [87266:87274](-) [85762:86160](-) rpl2 (2/2) [90152:90542](-) [89056:89486](-) rpl2_copy2 (2/2) [159732:160122](+) [160788:161218](+) rpoC1 (2/2) [24291:24722](-) [21897:23516](-) rps12 (3/3) [73913:74026](-) [103367:103598](-) [102805:102830](-) rps12_copy2 (3/3) [73913:74026](-) [146676:146907](+) [147444:147469](+) rps16 (2/2) [6308:6347](-) [5251:5504](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: pafI 3 [46599:46722](-) [45545:45774](-) [44661:44813](-)] clpP1 3 [76245:76315](-) [75072:75363](-) [74188:74433](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbC GTG cemA GTG psbL ACG rpl2 ACG ndhD ACG rpl2_copy2 ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 126 genes (107 unique genes). Including: 85 protein-coding genes (79 are unique) 33 tRNA genes (24 are unique) 8 rRNA genes (4 are unique) Details are as follows: 85 protein-coding genes (79 are unique) Genes Length Location accD 1542 [60910:62451](+) atpA 1524 [10669:12192](-) atpB 1497 [56267:57763](-) atpE 402 [55869:56270](-) atpF 555 [13541:13685](-) [12380:12789](-) atpH 246 [14244:14489](-) atpI 744 [15664:16407](-) ccsA 966 [128710:129675](-) cemA 690 [65301:65990](+) clpP1 609 [76245:76315](-) [75072:75363](-) [74188:74433](-) infA 234 [84254:84487](-) matK 1545 [1990:3534](-) ndhA 1092 [121956:122508](+) [123623:124161](+) ndhB 1533 [101181:101957](-) [99725:100480](-) ndhB_copy2 1533 [148317:149093](+) [149794:150549](+) ndhC 363 [52901:53263](-) ndhD 1497 [126909:128405](+) ndhE 306 [125943:126248](+) ndhF 2226 [132078:134303](+) ndhG 531 [125154:125684](+) ndhH 1182 [120773:121954](+) ndhI 543 [124240:124782](+) ndhJ 477 [51568:52044](-) ndhK 762 [52149:52910](-) pafI 507 [46599:46722](-) [45545:45774](-) [44661:44813](-) pafII 555 [63680:64234](+) pbf1 132 [78652:78783](-) petA 963 [66224:67186](+) petB 648 [79262:79267](+) [80106:80747](+) petD 504 [80945:80952](+) [81703:82198](+) petG 114 [70320:70433](+) petL 96 [70026:70121](+) petN 90 [29743:29832](+) psaA 2253 [41763:44015](-) psaB 2205 [39533:41737](-) psaC 246 [126546:126791](+) psaI 111 [63097:63207](+) psaJ 135 [71308:71442](+) psbA 1062 [296:1357](-) psbB 1527 [76770:78296](+) psbC 1386 [36046:37431](+) psbD 1065 [34998:36062](+) psbE 252 [68560:68811](-) psbF 120 [68431:68550](-) psbH 222 [78896:79117](+) psbI 111 [8553:8663](+) psbJ 123 [68047:68169](-) psbK 180 [7969:8148](+) psbL 117 [68292:68408](-) psbM 105 [30795:30899](-) psbT 108 [78475:78582](+) psbZ 189 [38139:38327](+) rbcL 1428 [58564:59991](+) rpl14 369 [85253:85621](-) rpl16 408 [87266:87274](-) [85762:86160](-) rpl2 822 [90152:90542](-) [89056:89486](-) rpl20 387 [72754:73140](-) rpl22 432 [88159:88590](-) rpl23 282 [90561:90842](-) rpl23_copy2 282 [159432:159713](+) rpl2_copy2 822 [159732:160122](+) [160788:161218](+) rpl32 165 [130737:130901](-) rpl33 207 [71850:72056](+) rpl36 114 [84025:84138](-) rpoA 1029 [82377:83405](-) rpoB 3213 [24749:27961](-) rpoC1 2052 [24291:24722](-) [21897:23516](-) rpoC2 4125 [17609:21733](-) rps11 417 [83473:83889](-) rps12 372 [73913:74026](-) [103367:103598](-) [102805:102830](-) rps12_copy2 372 [73913:74026](-) [146676:146907](+) [147444:147469](+) rps14 303 [39092:39394](-) rps15 273 [120387:120659](+) rps16 294 [6308:6347](-) [5251:5504](-) rps18 309 [72234:72542](+) rps19 279 [88639:88917](-) rps2 711 [16646:17356](-) rps3 663 [87408:88070](-) rps4 606 [47895:48500](-) rps7 468 [102279:102746](-) rps7_copy2 468 [147528:147995](+) rps8 405 [84609:85013](-) ycf1 5478 [114534:120011](+) ycf2 6933 [91143:98075](+) ycf2_copy2 6933 [152199:159131](-) 33 tRNA genes (24 are unique) Genes Location trnH-GUG [27:100](-) trnQ-UUG [7573:7644](-) trnS-GCU [8837:8924](-) trnR-UCU [10487:10558](+) trnC-GCA [29221:29292](+) trnD-GUC [31960:32033](-) trnY-GUA [32347:32430](-) trnE-UUC [32490:32561](-) trnT-GGU [33241:33312](+) trnS-UGA [37686:37778](-) trnG-GCC [38618:38688](+) trnM-CAU [38855:38928](-) trnS-GGA [47521:47607](+) trnT-UGU [48874:48946](-) trnF-GAA [50741:50813](+) trnM-CAU_copy2 [55573:55645](+) trnW-CCA [70556:70629](-) trnP-UGG [70814:70887](-) trnM-CAU_copy3 [91008:91081](-) trnL-CAA [99075:99155](-) trnV-GAC [105616:105687](+) trnI-GAU [107702:107737](+) [107754:107789](+) trnA-UGC [108783:108819](+) [108860:108887](+) trnR-ACG [113434:113507](+) trnN-GUU [114104:114175](-) trnL-UAG [129850:129929](-) trnN-GUU_copy2 [136099:136170](+) trnR-ACG_copy2 [136767:136840](-) trnA-UGC_copy2 [141455:141491](-) [141387:141414](-) trnI-GAU_copy2 [142537:142572](-) [142485:142520](-) trnV-GAC_copy2 [144587:144658](-) trnL-CAA_copy2 [151119:151199](+) trnM-CAU_copy4 [159193:159266](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [105915:107405](+) rrn23 [109815:112425](+) rrn4.5 [112726:112828](+) rrn5 [113058:113178](+) rrn5_copy2 [137096:137216](-) rrn4.5_copy2 [137446:137548](-) rrn23_copy2 [137849:140459](-) rrn16_copy2 [142869:144359](-) This genome has 19 genes with intron(s). Details are as follows: 15 gene(s) have 1 intron(s) Genes Exons rps16 [6308:6347](-) [5251:5504](-) atpF [13541:13685](-) [12380:12789](-) rpoC1 [24291:24722](-) [21897:23516](-) petB [79262:79267](+) [80106:80747](+) petD [80945:80952](+) [81703:82198](+) rpl16 [87266:87274](-) [85762:86160](-) rpl2 [90152:90542](-) [89056:89486](-) ndhB [101181:101957](-) [99725:100480](-) ndhA [121956:122508](+) [123623:124161](+) ndhB_copy2 [148317:149093](+) [149794:150549](+) rpl2_copy2 [159732:160122](+) [160788:161218](+) trnI-GAU [107702:107737](+) [107754:107789](+) trnA-UGC [108783:108819](+) [108860:108887](+) trnA-UGC_copy2 [141455:141491](-) [141387:141414](-) trnI-GAU_copy2 [142537:142572](-) [142485:142520](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [73913:74026](-) [103367:103598](-) [102805:102830](-) pafI [46599:46722](-) [45545:45774](-) [44661:44813](-) rps12_copy2 [73913:74026](-) [146676:146907](+) [147444:147469](+) clpP1 [76245:76315](-) [75072:75363](-) [74188:74433](-)