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, ycf15, ycf15_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 None None None 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [12604:12748](-) [11485:11888](-) ndhA (2/2) [120457:121018](-) [118789:119327](-) ndhB (2/2) [95311:96087](-) [93872:94627](-) ndhB_copy2 (2/2) [140441:141217](+) [141901:142656](+) petB (2/2) [74608:74613](+) [75327:75968](+) petD (2/2) [76197:76204](+) [76883:77357](+) rpl16 (2/2) [81913:81921](-) [80750:81148](-) rpl2 (2/2) [84676:85066](-) [83582:84015](-) rpl2_copy2 (2/2) [151462:151852](+) [152513:152946](+) rpoC1 (2/2) [22789:23220](-) [20427:22040](-) rps12 (3/3) [69333:69446](-) [97453:97684](-) [96892:96917](-) rps12_copy2 (3/3) [69333:69446](-) [138844:139075](+) [139611:139636](+) rps16 (2/2) [6059:6098](-) [5050:5153](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: pafI 3 [44692:44815](-) [43718:43947](-) [42795:42947](-)] clpP1 3 [71581:71651](-) [70507:70798](-) [69600:69827](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon rps19 GTG ycf15 GTG ndhD CTG ycf15_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 132 genes (105 unique genes). Including: 87 protein-coding genes (80 are unique) 37 tRNA genes (21 are unique) 8 rRNA genes (4 are unique) Details are as follows: 87 protein-coding genes (80 are unique) Genes Length Location accD 1485 [57609:59093](+) atpA 1524 [9892:11415](-) atpB 1503 [53219:54721](-) atpE 399 [52824:53222](-) atpF 549 [12604:12748](-) [11485:11888](-) atpH 246 [13071:13316](-) atpI 741 [14264:15004](-) ccsA 984 [113419:114402](+) cemA 690 [60957:61646](+) clpP1 591 [71581:71651](-) [70507:70798](-) [69600:69827](-) infA 216 [79361:79576](-) matK 1506 [1977:3482](-) ndhA 1101 [120457:121018](-) [118789:119327](-) ndhB 1533 [95311:96087](-) [93872:94627](-) ndhB_copy2 1533 [140441:141217](+) [141901:142656](+) ndhC 363 [50546:50908](-) ndhD 1542 [114619:116160](-) ndhE 303 [116777:117079](-) ndhF 2238 [109032:111269](-) ndhG 531 [117201:117731](-) ndhH 1182 [121020:122201](-) ndhI 537 [118171:118707](-) ndhJ 477 [49221:49697](-) ndhK 675 [49823:50497](-) pafI 507 [44692:44815](-) [43718:43947](-) [42795:42947](-) pafII 555 [59914:60468](+) pbf1 132 [74023:74154](-) petA 960 [61914:62873](+) petB 648 [74608:74613](+) [75327:75968](+) petD 483 [76197:76204](+) [76883:77357](+) petG 114 [65756:65869](+) petL 96 [65474:65569](+) petN 90 [28501:28590](+) psaA 2253 [39790:42042](-) psaB 2205 [37560:39764](-) psaC 246 [116251:116496](-) psaI 111 [59365:59475](+) psaJ 135 [66697:66831](+) psbA 1062 [380:1441](-) psbB 1527 [72137:73663](+) psbC 1422 [34082:35503](+) psbD 1062 [33073:34134](+) psbE 252 [64282:64533](-) psbF 120 [64153:64272](-) psbH 213 [74277:74489](+) psbI 111 [7891:8001](+) psbJ 123 [63753:63875](-) psbK 189 [7274:7462](+) psbL 117 [64013:64129](-) psbM 105 [29469:29573](-) psbT 108 [73855:73962](+) psbZ 189 [36158:36346](+) rbcL 1434 [55487:56920](+) rpl14 369 [80248:80616](-) rpl16 408 [81913:81921](-) [80750:81148](-) rpl2 825 [84676:85066](-) [83582:84015](-) rpl20 363 [68153:68515](-) rpl22 480 [82702:83181](-) rpl23 282 [85085:85366](-) rpl23_copy2 282 [151162:151443](+) rpl2_copy2 825 [151462:151852](+) [152513:152946](+) rpl32 168 [112056:112223](+) rpl33 201 [67248:67448](+) rpl36 114 [79127:79240](-) rpoA 1005 [77536:78540](-) rpoB 3213 [23247:26459](-) rpoC1 2046 [22789:23220](-) [20427:22040](-) rpoC2 4056 [16205:20260](-) rps11 417 [78610:79026](-) rps12 372 [69333:69446](-) [97453:97684](-) [96892:96917](-) rps12_copy2 372 [69333:69446](-) [138844:139075](+) [139611:139636](+) rps14 303 [37123:37425](-) rps15 219 [122372:122590](-) rps16 144 [6059:6098](-) [5050:5153](-) rps18 318 [67622:67939](+) rps19 279 [83240:83518](-) rps2 711 [15227:15937](-) rps3 660 [82058:82717](-) rps4 606 [45718:46323](-) rps7 468 [96371:96838](-) rps7_copy2 468 [139690:140157](+) rps8 405 [79709:80113](-) ycf1 5460 [122976:128435](-) ycf15 204 [92619:92822](+) ycf15_copy2 204 [143706:143909](-) ycf2 6840 [85700:92539](+) ycf2_copy2 6840 [143989:150828](-) 37 tRNA genes (21 are unique) Genes Location trnH [1:74](-) trnK [4178:4214](-) [1660:1694](-) trnQ [6875:6946](-) trnS [8102:8188](-) trnG [8742:8764](+) [9453:9500](+) trnR [9673:9744](+) trnC [27640:27710](+) trnD [30442:30515](-) trnY [30632:30715](-) trnE [30780:30852](-) trnT [31669:31740](+) trnS_copy2 [35728:35818](-) trnG_copy2 [36598:36668](+) trnfM [36900:36973](-) trnS_copy3 [45289:45375](+) trnT_copy2 [46693:46765](-) trnL [47741:48199](+) trnF [48548:48620](+) trnV [52279:52316](-) [51641:51677](-) trnM [52524:52596](+) trnW [66001:66074](-) trnP [66224:66297](-) trnI [85532:85605](-) trnL_copy2 [93229:93309](-) trnV_copy2 [99170:99241](+) trnI_copy2 [101272:101308](+) [102259:102293](+) trnA [102357:102394](+) [103219:103253](+) trnR_copy2 [107026:107099](+) trnN [107665:107736](-) trnL_copy3 [113243:113322](+) trnN_copy2 [128792:128863](+) trnR_copy3 [129429:129502](-) trnA_copy2 [134134:134171](-) [133275:133309](-) trnI_copy3 [135220:135256](-) [134235:134269](-) trnV_copy3 [137287:137358](-) trnL_copy4 [143219:143299](+) trnI_copy4 [150923:150996](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [99481:100972](+) rrn23 [103419:106236](+) rrn4.5 [106335:106437](+) rrn5 [106657:106777](+) rrn5_copy2 [129751:129871](-) rrn4.5_copy2 [130091:130193](-) rrn23_copy2 [130292:133109](-) rrn16_copy2 [135556:137047](-) This genome has 22 genes with intron(s). Details are as follows: 18 gene(s) have 1 intron(s) Genes Exons rps16 [6059:6098](-) [5050:5153](-) atpF [12604:12748](-) [11485:11888](-) rpoC1 [22789:23220](-) [20427:22040](-) petB [74608:74613](+) [75327:75968](+) petD [76197:76204](+) [76883:77357](+) rpl16 [81913:81921](-) [80750:81148](-) rpl2 [84676:85066](-) [83582:84015](-) ndhB [95311:96087](-) [93872:94627](-) ndhA [120457:121018](-) [118789:119327](-) ndhB_copy2 [140441:141217](+) [141901:142656](+) rpl2_copy2 [151462:151852](+) [152513:152946](+) trnK [4178:4214](-) [1660:1694](-) trnG [8742:8764](+) [9453:9500](+) trnV [52279:52316](-) [51641:51677](-) trnI_copy2 [101272:101308](+) [102259:102293](+) trnA [102357:102394](+) [103219:103253](+) trnA_copy2 [134134:134171](-) [133275:133309](-) trnI_copy3 [135220:135256](-) [134235:134269](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [69333:69446](-) [97453:97684](-) [96892:96917](-) pafI [44692:44815](-) [43718:43947](-) [42795:42947](-) rps12_copy2 [69333:69446](-) [138844:139075](+) [139611:139636](+) clpP1 [71581:71651](-) [70507:70798](-) [69600:69827](-)