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, psbC, psbD, psbE, psbF, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl23, rpl23_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 clpP Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor None Conserved open reading frames ycf1, 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 psbB, psbZ Large subunit of ribosome rpl22 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 infA Conserved open reading frames ycf15 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) [13145:13288](-) [11915:12325](-) clpP (3/3) [76923:76993](-) [75749:76040](-) [74872:75099](-) ndhA (2/2) [126907:127458](-) [125230:125769](-) ndhB (2/2) [101557:102333](-) [100118:100873](-) ndhB_copy2 (2/2) [147620:148396](+) [149080:149835](+) petB (2/2) [79904:79909](+) [80722:81363](+) petD (2/2) [81572:81579](+) [82340:82814](+) rpl16 (2/2) [87709:87717](-) [86209:86607](-) rpl2 (2/2) [90551:90943](-) [89425:89859](-) rpoC1 (2/2) [23995:24426](-) [21580:23196](-) rps12 (3/3) [74579:74692](-) [103740:103971](-) [103178:103203](-) rps12_copy2 (3/3) [74579:74692](-) [145982:146213](+) [146750:146775](+) rps16 (2/2) [6409:6448](-) [5308:5534](-) ycf3 (3/3) [46912:47037](-) [45940:46167](-) [45034:45186](-) ### The exon column shows the number of (actual exons/expected exons). ### 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon ndhD ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 126 genes (110 unique genes). Including: 81 protein-coding genes (76 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 81 protein-coding genes (76 are unique) Genes Length Location accD 1479 [61573:63051](+) atpA 1521 [10322:11842](-) atpB 1497 [56955:58451](-) atpE 402 [56557:56958](-) atpF 555 [13145:13288](-) [11915:12325](-) atpH 246 [13885:14130](-) atpI 744 [15323:16066](-) ccsA 966 [119694:120659](+) cemA 690 [65850:66539](+) clpP 591 [76923:76993](-) [75749:76040](-) [74872:75099](-) matK 1509 [2213:3721](-) ndhA 1092 [126907:127458](-) [125230:125769](-) ndhB 1533 [101557:102333](-) [100118:100873](-) ndhB_copy2 1533 [147620:148396](+) [149080:149835](+) ndhC 363 [53783:54145](-) ndhD 1503 [120978:122480](-) ndhE 306 [123113:123418](-) ndhF 2232 [114874:117105](-) ndhG 531 [123657:124187](-) ndhH 1182 [127460:128641](-) ndhI 504 [124636:125139](-) ndhJ 477 [52428:52904](-) ndhK 678 [53045:53722](-) petA 963 [66771:67733](+) petB 648 [79904:79909](+) [80722:81363](+) petD 483 [81572:81579](+) [82340:82814](+) petG 114 [70781:70894](+) petL 96 [70508:70603](+) petN 90 [29723:29812](+) psaA 2253 [41869:44121](-) psaB 2205 [39639:41843](-) psaC 246 [122621:122866](-) psaI 114 [63807:63920](+) psaJ 129 [71713:71841](+) psbA 1062 [551:1612](-) psbC 1422 [35717:37138](+) psbD 1062 [34708:35769](+) psbE 252 [69381:69632](-) psbF 120 [69252:69371](-) psbH 222 [79554:79775](+) psbI 111 [7991:8101](+) psbJ 123 [68840:68962](-) psbK 186 [7397:7582](+) psbL 117 [69109:69225](-) psbM 105 [30969:31073](-) psbN 132 [79317:79448](-) psbT 108 [79149:79256](+) psi_psbT 1527 [77440:78966](+) rbcL 1455 [59398:60852](+) rpl14 369 [85713:86081](-) rpl16 408 [87709:87717](-) [86209:86607](-) rpl2 828 [90551:90943](-) [89425:89859](-) rpl20 354 [73458:73811](-) rpl23 282 [90962:91243](-) rpl23_copy2 282 [158710:158991](+) rpl32 165 [118168:118332](+) rpl33 201 [72305:72505](+) rpl36 114 [84647:84760](-) rpoA 984 [83034:84017](-) rpoB 3213 [24453:27665](-) rpoC1 2049 [23995:24426](-) [21580:23196](-) rpoC2 4176 [17237:21412](-) rps11 417 [84088:84504](-) rps12 372 [74579:74692](-) [103740:103971](-) [103178:103203](-) rps12_copy2 372 [74579:74692](-) [145982:146213](+) [146750:146775](+) rps14 303 [39208:39510](-) rps15 273 [128741:129013](-) rps16 267 [6409:6448](-) [5308:5534](-) rps18 306 [72854:73159](+) rps19 279 [89061:89339](-) rps2 711 [16291:17001](-) rps3 657 [87874:88530](-) rps4 606 [48344:48949](-) rps7 468 [102657:103124](-) rps7_copy2 468 [146829:147296](+) rps8 405 [85160:85564](-) ycf1 5670 [129392:135061](-) ycf2 6897 [91571:98467](+) ycf2_copy2 6897 [151486:158382](-) ycf3 507 [46912:47037](-) [45940:46167](-) [45034:45186](-) ycf4 555 [64342:64896](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [3:77](-) trnK-UUU [4455:4491](-) [1906:1940](-) trnQ-UUG [6982:7053](-) trnS-GCU [8176:8263](-) trnR-UCU [10104:10175](+) trnC-GCA [28928:29008](+) trnD-GUC [31573:31646](-) trnY-GUA [32146:32229](-) trnE-UUC [32289:32361](-) trnT-GGU [33183:33254](+) trnS-UGA [37380:37472](-) trnG-UCC [38761:38831](+) trnfM-CAU [38967:39040](-) trnS-GGA [47965:48051](+) trnT-UGU [49355:49427](-) trnL-UAA [50611:50647](+) [51196:51245](+) trnF-GAA [51639:51711](+) trnV-UAC [56009:56047](-) [55385:55421](-) trnM-CAU [56243:56314](+) trnW-CCA [71019:71091](-) trnP-UGG [71271:71344](-) trnP-GGG [71273:71343](-) trnI-CAU [91409:91482](-) trnL-CAA [99408:99488](-) trnV-GAC [105900:105971](+) trnI-GAU [107983:108024](+) [108978:109012](+) trnA-UGC [109076:109113](+) [109916:109950](+) trnR-ACG [113812:113885](+) trnN-GUU [114497:114568](-) trnL-UAG [119503:119582](+) trnN-GUU_copy2 [135385:135456](+) trnR-ACG_copy2 [136068:136141](-) trnA-UGC_copy2 [140840:140877](-) [140003:140037](-) trnI-GAU_copy2 [141929:141970](-) [140941:140975](-) trnV-GAC_copy2 [143982:144053](-) trnL-CAA_copy2 [150465:150545](+) trnI-CAU_copy2 [158471:158544](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [106199:107689](+) rrn23 [110163:112972](+) rrn4.5 [113071:113173](+) rrn5 [113436:113556](+) rrn5_copy2 [136397:136517](-) rrn4.5_copy2 [136780:136882](-) rrn23_copy2 [136981:139790](-) rrn16_copy2 [142264:143754](-) This genome has 21 genes with intron(s). Details are as follows: 17 gene(s) have 1 intron(s) Genes Exons rps16 [6409:6448](-) [5308:5534](-) atpF [13145:13288](-) [11915:12325](-) rpoC1 [23995:24426](-) [21580:23196](-) petB [79904:79909](+) [80722:81363](+) petD [81572:81579](+) [82340:82814](+) rpl16 [87709:87717](-) [86209:86607](-) rpl2 [90551:90943](-) [89425:89859](-) ndhB [101557:102333](-) [100118:100873](-) ndhA [126907:127458](-) [125230:125769](-) ndhB_copy2 [147620:148396](+) [149080:149835](+) trnK-UUU [4455:4491](-) [1906:1940](-) trnL-UAA [50611:50647](+) [51196:51245](+) trnV-UAC [56009:56047](-) [55385:55421](-) trnI-GAU [107983:108024](+) [108978:109012](+) trnA-UGC [109076:109113](+) [109916:109950](+) trnA-UGC_copy2 [140840:140877](-) [140003:140037](-) trnI-GAU_copy2 [141929:141970](-) [140941:140975](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [74579:74692](-) [103740:103971](-) [103178:103203](-) ycf3 [46912:47037](-) [45940:46167](-) [45034:45186](-) rps12_copy2 [74579:74692](-) [145982:146213](+) [146750:146775](+) clpP [76923:76993](-) [75749:76040](-) [74872:75099](-)