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 Large subunit of ribosome rpl14, rpl16, rpl20, rpl22, rpl23, rpl23_copy2, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, 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 clpP Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames 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 ycf3 Large subunit of ribosome rpl2, rpl32 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 None Conserved open reading frames ycf1 Other genes None 2. Multicopy genes with different lengths: Genes Length Location rps12 372 join{[39493:39607](+), [11785:12017](+), [12553:12579](+)} rps12_copy2 384 join{[39493:39619](+), [124117:124349](-), [123555:123581](-)} 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [96562:96706](+) [97404:97813](+) clpP (2/3) [37902:37972](+) [38715:39363](+) ndhA (2/2) [146916:147468](-) [145334:145872](-) ndhB (2/2) [13377:14151](+) [14831:15588](+) ndhB_copy2 (2/2) [121984:122758](-) [120547:121304](-) petB (2/2) [34983:34988](-) [33486:34127](-) petD (1/2) [32093:32617](-) rpl16 (2/2) [27361:27369](+) [28252:28653](+) rpoC1 (2/2) [85899:86328](+) [87093:88717](+) rps12 (3/3) [39494:39607](+) [11786:12017](+) [12554:12579](+) rps12_copy2 (3/3) [39494:39619](+) [124118:124349](-) [123556:123581](-) rps16 (2/2) [104133:104172](+) [105034:105260](+) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: ycf2 4 [20601:21822](-) [20493:20567](-) [19220:20450](-) [16855:19186](-)] rps19 2 [24218:24608](+) [25275:25708](+)] accD 2 [50957:51265](-) [50027:50695](-)] rps19_copy2 2 [111527:111917](-) [110427:110860](-)] ycf2_copy2 4 [114313:115534](+) [115568:115642](+) [115685:116915](+) [116949:119280](+)] 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 127 genes (108 unique genes). Including: 83 protein-coding genes (76 are unique) 36 tRNA genes (28 are unique) 8 rRNA genes (4 are unique) Details are as follows: 83 protein-coding genes (76 are unique) Genes Length Location accD 978 [50957:51265](-) [50027:50695](-) atpA 1524 [97869:99392](+) atpB 1497 [54509:56005](+) atpE 402 [56002:56403](+) atpF 555 [96562:96706](+) [97404:97813](+) atpH 246 [95938:96183](+) atpI 744 [94185:94928](+) ccsA 972 [140040:141011](+) cemA 690 [47087:47776](-) clpP 720 [37902:37972](+) [38715:39363](+) infA 234 [29853:30086](+) matK 1527 [106851:108377](+) ndhA 1092 [146916:147468](-) [145334:145872](-) ndhB 1533 [13377:14151](+) [14831:15588](+) ndhB_copy2 1533 [121984:122758](-) [120547:121304](-) ndhC 363 [58668:59030](+) ndhD 1161 [141247:142407](-) ndhE 306 [143361:143666](-) ndhF 2223 [136172:138394](-) ndhG 531 [143893:144423](-) ndhH 1182 [147470:148651](-) ndhI 507 [144752:145258](-) ndhJ 477 [59847:60323](+) ndhK 636 [59084:59719](+) petA 963 [45917:46879](-) petB 648 [34983:34988](-) [33486:34127](-) petD 525 [32093:32617](-) petG 114 [43077:43190](-) petL 96 [43366:43461](-) petN 90 [80491:80580](-) psaA 2253 [67568:69820](+) psaB 2205 [69846:72050](+) psaC 246 [142876:143121](-) psaI 111 [49599:49709](-) psaJ 135 [42162:42296](-) psbA 1059 [108903:109961](+) psbB 1527 [35927:37453](-) psbC 1422 [74078:75499](-) psbD 1062 [75447:76508](-) psbE 252 [44399:44650](+) psbF 120 [44665:44784](+) psbH 222 [35118:35339](-) psbI 111 [101414:101524](-) psbJ 123 [45058:45180](+) psbK 180 [101926:102105](-) psbL 117 [44808:44924](+) psbM 105 [79418:79522](+) psbN 132 [35449:35580](+) psbT 102 [35646:35747](-) psbZ 189 [73219:73407](-) rbcL 1434 [52307:53740](-) rpl14 369 [28780:29148](+) rpl16 411 [27361:27369](+) [28252:28653](+) rpl20 387 [40378:40764](+) rpl22 471 [26101:26571](+) rpl23 282 [23918:24199](+) rpl23_copy2 282 [111936:112217](-) rpl33 201 [41495:41695](-) rpl36 114 [30182:30295](+) rpoA 996 [30895:31890](+) rpoB 3213 [82660:85872](+) rpoC1 2055 [85899:86328](+) [87093:88717](+) rpoC2 4164 [88881:93044](+) rps11 432 [30397:30828](+) rps12 372 [39494:39607](+) [11786:12017](+) [12554:12579](+) rps12_copy2 384 [39494:39619](+) [124118:124349](-) [123556:123581](-) rps14 303 [72172:72474](+) rps15 264 [148748:149011](-) rps16 267 [104133:104172](+) [105034:105260](+) rps18 327 [40998:41324](-) rps19 825 [24218:24608](+) [25275:25708](+) rps19_copy2 825 [111527:111917](-) [110427:110860](-) rps2 711 [93252:93962](+) rps3 663 [26556:27218](+) rps4 606 [63031:63636](+) rps7 468 [12633:13100](+) rps7_copy2 468 [123035:123502](-) rps8 405 [29329:29733](+) ycf15 198 [16576:16773](-) ycf15_copy2 198 [119362:119559](+) ycf2 4860 [20601:21822](-) [20493:20567](-) [19220:20450](-) [16855:19186](-) ycf2_copy2 4860 [114313:115534](+) [115568:115642](+) [115685:116915](+) [116949:119280](+) ycf4 555 [48619:49173](-) 36 tRNA genes (28 are unique) Genes Location trnN-GUU [1889:1960](+) trnR-ACG [2528:2601](-) trnA-UGC [7232:7268](-) [6385:6420](-) trnI-GAU [8192:8223](-) [7333:7372](-) trnV-GAC [10160:10231](-) trnL-CAA [16131:16211](+) trnI-CAU [23621:23694](+) trnP-UGG [42694:42767](+) trnW-CCA [42880:42953](+) trnM-CAU [56607:56679](-) trnV-UAC [56860:56889](+) [57489:57519](+) trnF-GAA [60992:61064](-) trnL-UAA [61917:61951](-) [61388:61437](-) trnT-UGU [62610:62682](+) trnS-GGA [63919:64005](-) trnM-CAU_copy2 [72624:72697](+) trnG-GCC [72864:72934](-) trnS-UGA [73736:73828](+) trnT-GGU [77847:77918](-) trnE-UUC [78333:78405](+) trnY-GUA [78465:78548](+) trnD-GUC [78648:78721](+) trnC-GCA [81424:81494](-) trnR-UCU [99487:99558](-) trnS-GCU [101211:101298](+) trnQ-UUG [102447:102518](+) trnK-UUU [106113:106149](+) [108636:108671](+) trnH-GUG [110237:110310](+) trnI-CAU_copy2 [112441:112514](-) trnL-CAA_copy2 [119924:120004](-) trnV-GAC_copy2 [125904:125975](+) trnI-GAU_copy2 [127912:127943](+) [128763:128802](+) trnA-UGC_copy2 [128867:128903](+) [129715:129750](+) trnR-ACG_copy2 [133534:133607](+) trnN-GUU_copy2 [134175:134246](-) trnL-UAG [139860:139939](+) 8 rRNA genes (4 are unique) Genes Location rrn5S [2835:2965](-) rrn4.5S [3052:3316](+) rrn23S [3415:6227](-) rrn16S [8442:9932](-) rrn16S_copy2 [126203:127693](+) rrn23S_copy2 [129908:132720](+) rrn4.5S_copy2 [132819:133083](-) rrn5S_copy2 [133170:133300](+) This genome has 23 genes with intron(s). Details are as follows: 19 gene(s) have 1 intron(s) Genes Exons ndhB [13377:14151](+) [14831:15588](+) rps19 [24218:24608](+) [25275:25708](+) rpl16 [27361:27369](+) [28252:28653](+) petB [34983:34988](-) [33486:34127](-) clpP [37902:37972](+) [38715:39363](+) accD [50957:51265](-) [50027:50695](-) rpoC1 [85899:86328](+) [87093:88717](+) atpF [96562:96706](+) [97404:97813](+) rps16 [104133:104172](+) [105034:105260](+) rps19_copy2 [111527:111917](-) [110427:110860](-) ndhB_copy2 [121984:122758](-) [120547:121304](-) ndhA [146916:147468](-) [145334:145872](-) trnA-UGC [7232:7268](-) [6385:6420](-) trnI-GAU [8192:8223](-) [7333:7372](-) trnV-UAC [56860:56889](+) [57489:57519](+) trnL-UAA [61917:61951](-) [61388:61437](-) trnK-UUU [106113:106149](+) [108636:108671](+) trnI-GAU_copy2 [127912:127943](+) [128763:128802](+) trnA-UGC_copy2 [128867:128903](+) [129715:129750](+) 2 gene(s) have 2 intron(s) Genes Exons rps12 [39494:39607](+) [11786:12017](+) [12554:12579](+) rps12_copy2 [39494:39619](+) [124118:124349](-) [123556:123581](-) 2 gene(s) have 3 intron(s) Genes Exons ycf2 [20601:21822](-) [20493:20567](-) [19220:20450](-) [16855:19186](-) ycf2_copy2 [114313:115534](+) [115568:115642](+) [115685:116915](+) [116949:119280](+)