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, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, rpl23, 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 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 None Translational initiation factor infA 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 None Large subunit of ribosome None Small subunit of ribosome None DNA dependent RNA polymerase rpoA Subunit of rubisco None c-type cytochrom synthesis gene None Envelop membrane protein None Maturase None Protease None Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor None Conserved open reading frames ycf15 Other genes None 2. Multicopy genes with different lengths: Genes Length Location rps12 372 join{[73625:73739](-), [100946:101178](-), [100384:100410](-)} rps12_copy2 378 join{[73625:73739](-), [142405:142637](+), [143173:143205](+)} 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13722:13865](-) [12570:12980](-) clpP (1/3) [73896:74486](-) ndhA (2/2) [122964:123516](-) [121332:121870](-) ndhB (2/2) [98743:99519](-) [97308:98063](-) ndhB_copy2 (2/2) [144071:144847](+) [145527:146282](+) petB (1/2) [78174:78824](+) petD (1/2) [79762:80286](+) rpl16 (1/2) [83823:84233](-) rpl2 (2/2) [88138:88518](-) [87031:87465](-) rpoC1 (2/2) [24248:24677](-) [21855:23464](-) rps12 (3/3) [73626:73739](-) [100947:101178](-) [100385:100410](-) rps12_copy2 (3/3) [73626:73739](-) [142406:142637](+) [143174:143205](+) rps16 (2/2) [5990:6029](-) [4897:5126](-) ycf3 (3/3) [46241:46366](-) [45282:45507](-) [44361:44515](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: rps18 3 [71556:71594](+) [71658:71859](+) [72168:72214](+)] ycf2 2 [89211:95315](+) [95565:96062](+)] ycf2_copy2 2 [148275:154379](-) [147528:148025](-)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbL ACG rpl16 ATC rps19 GTG 6. Genes with nonstandard stop codon: Genes Stop codon clpP AAG 7. Conclusion This genome has 128 genes (110 unique genes). Including: 81 protein-coding genes (77 are unique) 39 tRNA genes (29 are unique) 8 rRNA genes (4 are unique) Details are as follows: 81 protein-coding genes (77 are unique) Genes Length Location atpA 1524 [10982:12505](-) atpB 1497 [54920:56416](-) atpE 402 [54522:54923](-) atpF 555 [13722:13865](-) [12570:12980](-) atpH 246 [14240:14485](-) atpI 744 [15649:16392](-) ccsA 960 [115959:116918](+) cemA 690 [64294:64983](+) clpP 591 [73896:74486](-) infA 240 [82336:82575](-) matK 1515 [2033:3547](-) ndhA 1092 [122964:123516](-) [121332:121870](-) ndhB 1533 [98743:99519](-) [97308:98063](-) ndhB_copy2 1533 [144071:144847](+) [145527:146282](+) ndhC 363 [52005:52367](-) ndhD 1521 [117173:118693](-) ndhE 306 [119319:119624](-) ndhF 2205 [112520:114724](+) ndhG 531 [119843:120373](-) ndhH 1182 [123518:124699](-) ndhI 498 [120748:121245](-) ndhJ 477 [50695:51171](-) ndhK 678 [51271:51948](-) petA 963 [65202:66164](+) petB 651 [78174:78824](+) petD 525 [79762:80286](+) petG 114 [69531:69644](+) petL 96 [69258:69353](+) petN 90 [29945:30034](+) psaA 2253 [41309:43561](-) psaB 2205 [39079:41283](-) psaC 246 [118809:119054](-) psaI 111 [62237:62347](+) psaJ 135 [70575:70709](+) psbA 1062 [414:1475](-) psbB 1527 [74922:76448](+) psbC 1422 [35585:37006](+) psbD 1062 [34576:35637](+) psbE 252 [67729:67980](-) psbF 120 [67600:67719](-) psbH 222 [77044:77265](+) psbI 111 [8777:8887](+) psbJ 123 [67176:67298](-) psbK 186 [8152:8337](+) psbL 117 [67461:67577](-) psbM 105 [31212:31316](-) psbN 132 [76808:76939](-) psbT 102 [76642:76743](+) psbZ 189 [37687:37875](+) rbcL 1428 [57183:58610](+) rpl14 369 [83287:83655](-) rpl16 411 [83823:84233](-) rpl2 816 [88138:88518](-) [87031:87465](-) rpl20 387 [72465:72851](-) rpl22 483 [86123:86605](-) rpl23 291 [88523:88813](-) rpl32 165 [114838:115002](+) rpl33 207 [71169:71375](+) rpl36 114 [82103:82216](-) rpoB 3204 [24710:27913](-) rpoC1 2040 [24248:24677](-) [21855:23464](-) rpoC2 4161 [17513:21673](-) rps11 417 [81580:81996](-) rps12 372 [73626:73739](-) [100947:101178](-) [100385:100410](-) rps12_copy2 378 [73626:73739](-) [142406:142637](+) [143174:143205](+) rps14 303 [38648:38950](-) rps15 225 [124847:125071](-) rps16 270 [5990:6029](-) [4897:5126](-) rps18 288 [71556:71594](+) [71658:71859](+) [72168:72214](+) rps19 279 [86693:86971](-) rps2 711 [16593:17303](-) rps3 681 [85458:86138](-) rps4 594 [47163:47756](-) rps7 468 [99864:100331](-) rps7_copy2 468 [143259:143726](+) rps8 411 [82693:83103](-) ycf1 5394 [125518:130911](-) ycf2 6603 [89211:95315](+) [95565:96062](+) ycf2_copy2 6603 [148275:154379](-) [147528:148025](-) ycf3 507 [46241:46366](-) [45282:45507](-) [44361:44515](-) ycf4 555 [62783:63337](+) 39 tRNA genes (29 are unique) Genes Location trnH-GUG [1:68](-) trnK-UUU [4277:4313](-) [1705:1739](-) trnQ-UUG [7731:7802](-) trnS-GCU [9008:9095](-) trnG-GCC [9840:9862](+) [10580:10626](+) trnR-UCU [10802:10873](+) trnC-GCA [29006:29070](+) trnD-GUC [32456:32529](-) trnY-GUA [32639:32722](-) trnE-UUC [32782:32854](-) trnT-GGU [33657:33717](+) trnS-UGA [37233:37325](-) trnG-UCC [38186:38256](+) trnfM-CAU [38437:38510](-) trnS-GGA [46770:46857](+) trnT-UGU [48133:48205](-) trnL-UAA [48956:48991](+) [49505:49553](+) trnF-GAA [49926:49998](+) trnV-UAC [54000:54039](-) [53399:53434](-) trnM-CAU [54230:54301](+) trnW-CCA [69767:69840](-) trnP-UGG [70012:70085](-) trnH-GUG_copy2 [88979:89052](-) trnL-CAA [96657:96737](-) trnV-GAC [103056:103126](+) trnI-GAU [105159:105195](+) [106143:106177](+) trnA-UGC [106242:106279](+) [107089:107123](+) trnR-ACG [110890:110963](+) trnG-UCC_copy2 [111003:111065](-) trnN-GUU [111396:111467](-) trnL-UAG [115780:115859](+) trnN-GUU_copy2 [132123:132194](+) trnG-UCC_copy3 [132525:132587](+) trnR-ACG_copy2 [132627:132700](-) trnA-UGC_copy2 [137311:137348](-) [136467:136501](-) trnI-GAU_copy2 [138395:138431](-) [137413:137447](-) trnV-GAC_copy2 [140464:140534](-) trnL-CAA_copy2 [146853:146933](+) trnH-GUG_copy3 [154538:154611](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [103376:104866](+) rrn23 [107280:110093](+) rrn4.5 [110192:110294](+) rrn5 [110520:110639](+) rrn5_copy2 [132951:133070](-) rrn4.5_copy2 [133296:133398](-) rrn23_copy2 [133497:136310](-) rrn16_copy2 [138724:140214](-) This genome has 21 genes with intron(s). Details are as follows: 17 gene(s) have 1 intron(s) Genes Exons rps16 [5990:6029](-) [4897:5126](-) atpF [13722:13865](-) [12570:12980](-) rpoC1 [24248:24677](-) [21855:23464](-) rpl2 [88138:88518](-) [87031:87465](-) ycf2 [89211:95315](+) [95565:96062](+) ndhB [98743:99519](-) [97308:98063](-) ndhA [122964:123516](-) [121332:121870](-) ndhB_copy2 [144071:144847](+) [145527:146282](+) ycf2_copy2 [148275:154379](-) [147528:148025](-) trnK-UUU [4277:4313](-) [1705:1739](-) trnG-GCC [9840:9862](+) [10580:10626](+) trnL-UAA [48956:48991](+) [49505:49553](+) trnV-UAC [54000:54039](-) [53399:53434](-) trnI-GAU [105159:105195](+) [106143:106177](+) trnA-UGC [106242:106279](+) [107089:107123](+) trnA-UGC_copy2 [137311:137348](-) [136467:136501](-) trnI-GAU_copy2 [138395:138431](-) [137413:137447](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [73626:73739](-) [100947:101178](-) [100385:100410](-) ycf3 [46241:46366](-) [45282:45507](-) [44361:44515](-) rps18 [71556:71594](+) [71658:71859](+) [72168:72214](+) rps12_copy2 [73626:73739](-) [142406:142637](+) [143174:143205](+)