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, 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 clpP Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf1, 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 None 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 None Conserved open reading frames None Other genes None 2. Multicopy genes with different lengths: Genes Length Location rps12 375 join{[73022:73136](-), [101833:102064](-), [101266:101296](-)} rps12_copy2 372 join{[73022:73136](-), [144863:145094](+), [145630:145657](+)} 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13893:14036](-) [12774:13184](-) clpP (3/3) [75238:75306](-) [74166:74456](-) [73293:73538](-) ndhA (2/2) [126085:126636](-) [124468:125007](-) ndhB (2/2) [99641:100417](-) [98185:98940](-) ndhB_copy2 (2/2) [146511:147287](+) [147988:148743](+) petB (2/2) [78192:78197](+) [78982:79623](+) petD (1/2) [80481:81005](+) rpl16 (1/2) [84470:84880](-) rpl2 (2/2) [88637:89023](-) [87546:87977](-) rpl2_copy2 (2/2) [157905:158291](+) [158951:159382](+) rpoC1 (2/2) [24365:24798](-) [22019:23642](-) rps12 (3/3) [73023:73136](-) [101834:102064](-) [101267:101296](-) rps12_copy2 (3/3) [73023:73136](-) [144864:145094](+) [145631:145657](+) rps16 (2/2) [6047:6088](-) [5004:5222](-) ycf3 (3/3) [46953:47078](-) [45983:46210](-) [45099:45251](-) ### 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 psbI ATC rpoB ATT petN ATT cemA GTG psbL TTG psbT ATC rpl16 ATC rps19 GTG rpl2 ATA ndhD ATA rpl2_copy2 ATA 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 131 genes (113 unique genes). Including: 86 protein-coding genes (79 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 86 protein-coding genes (79 are unique) Genes Length Location accD 1431 [60779:62209](+) atpA 1524 [11180:12703](-) atpB 1497 [56426:57922](-) atpE 405 [56025:56429](-) atpF 555 [13893:14036](-) [12774:13184](-) atpH 246 [14509:14754](-) atpI 744 [15839:16582](-) ccsA 966 [119072:120037](+) cemA 690 [64929:65618](+) clpP 606 [75238:75306](-) [74166:74456](-) [73293:73538](-) infA 234 [83043:83276](-) matK 1524 [2101:3624](-) ndhA 1092 [126085:126636](-) [124468:125007](-) ndhB 1533 [99641:100417](-) [98185:98940](-) ndhB_copy2 1533 [146511:147287](+) [147988:148743](+) ndhC 363 [52746:53108](-) ndhD 1479 [120254:121732](-) ndhE 306 [122402:122707](-) ndhF 2226 [114129:116354](-) ndhG 531 [122968:123498](-) ndhH 1182 [126638:127819](-) ndhI 543 [123847:124389](-) ndhJ 477 [51433:51909](-) ndhK 678 [52009:52686](-) petA 963 [65822:66784](+) petB 648 [78192:78197](+) [78982:79623](+) petD 525 [80481:81005](+) petG 114 [69532:69645](+) petL 96 [69259:69354](+) petN 96 [30399:30494](+) psaA 2253 [42165:44417](-) psaB 2205 [39935:42139](-) psaC 246 [121879:122124](-) psaI 111 [62857:62967](+) psaJ 135 [70421:70555](+) psbA 1062 [469:1530](-) psbB 1527 [75738:77264](+) psbC 1422 [36446:37867](+) psbD 1062 [35437:36498](+) psbE 252 [68472:68723](-) psbF 120 [68343:68462](-) psbH 222 [77850:78071](+) psbI 156 [8960:9115](+) psbJ 123 [67956:68078](-) psbK 186 [8417:8602](+) psbL 81 [68204:68284](-) psbM 105 [31239:31343](-) psbN 132 [77611:77742](-) psbT 117 [77435:77551](+) psbZ 189 [38533:38721](+) rbcL 729 [58681:59409](+) rpl14 369 [83970:84338](-) rpl16 411 [84470:84880](-) rpl2 819 [88637:89023](-) [87546:87977](-) rpl20 354 [71885:72238](-) rpl23 285 [89048:89332](-) rpl23_copy2 285 [157596:157880](+) rpl2_copy2 819 [157905:158291](+) [158951:159382](+) rpl32 189 [117499:117687](+) rpl33 201 [70980:71180](+) rpl36 114 [82813:82926](-) rpoA 1014 [81196:82209](-) rpoB 3240 [24825:28064](-) rpoC1 2058 [24365:24798](-) [22019:23642](-) rpoC2 4149 [17721:21869](-) rps11 417 [82278:82694](-) rps12 375 [73023:73136](-) [101834:102064](-) [101267:101296](-) rps12_copy2 372 [73023:73136](-) [144864:145094](+) [145631:145657](+) rps14 303 [39493:39795](-) rps15 273 [127924:128196](-) rps16 261 [6047:6088](-) [5004:5222](-) rps18 306 [71312:71617](+) rps19 279 [87206:87484](-) rps2 711 [16793:17503](-) rps3 660 [85983:86642](-) rps4 606 [47872:48477](-) rps7 468 [100745:101212](-) rps7_copy2 468 [145716:146183](+) rps8 399 [83394:83792](-) ycf1 5577 [128571:134147](-) ycf15 234 [96644:96877](+) ycf15_copy2 234 [150051:150284](-) ycf2 6897 [89632:96528](+) ycf2_copy2 6897 [150400:157296](-) ycf3 507 [46953:47078](-) [45983:46210](-) [45099:45251](-) ycf4 555 [63422:63976](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [12:86](-) trnK-UUU [4322:4358](-) [1798:1832](-) trnQ-UUG [8016:8088](-) trnS-GCU [9255:9342](-) trnG-UCC [10013:10036](+) [10802:10849](+) trnR-UCU [10997:11068](+) trnC-GCA [29272:29352](+) trnD-GUC [32502:32575](-) trnY-GUA [32968:33051](-) trnE-UUC [33111:33183](-) trnT-GGU [33915:33986](+) trnS-UGA [38103:38195](-) trnG-GCC [39017:39087](+) trnfM-CAU [39259:39332](-) trnS-GGA [47511:47597](+) trnT-UGU [48841:48913](-) trnL-UAA [49692:49726](+) [50222:50271](+) trnF-GAA [50628:50700](+) trnV-UAC [55517:55555](-) [54896:54932](-) trnM-CAU [55732:55804](+) trnW-CCA [69764:69837](-) trnP-UGG [69998:70071](-) trnI-CAU [89490:89563](-) trnL-CAA [97544:97624](-) trnV-GAC [103899:103970](+) trnI-GAU [105977:106018](+) [106955:106989](+) trnA-UGC [107054:107091](+) [107891:107925](+) trnR-ACG [111669:111742](+) trnN-GUU [112356:112427](-) trnL-UAG [118896:118975](+) trnN-GUU_copy2 [134501:134572](+) trnR-ACG_copy2 [135186:135259](-) trnA-UGC_copy2 [139837:139874](-) [139003:139037](-) trnI-GAU_copy2 [140910:140951](-) [139939:139973](-) trnV-GAC_copy2 [142958:143029](-) trnL-CAA_copy2 [149304:149384](+) trnI-CAU_copy2 [157365:157438](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [104198:105688](+) rrn23 [108078:110881](+) rrn4.5 [110987:111089](+) rrn5 [111308:111428](+) rrn5_copy2 [135500:135620](-) rrn4.5_copy2 [135839:135941](-) rrn23_copy2 [136040:138843](-) rrn16_copy2 [141240:142730](-) This genome has 21 genes with intron(s). Details are as follows: 17 gene(s) have 1 intron(s) Genes Exons rps16 [6047:6088](-) [5004:5222](-) atpF [13893:14036](-) [12774:13184](-) rpoC1 [24365:24798](-) [22019:23642](-) petB [78192:78197](+) [78982:79623](+) rpl2 [88637:89023](-) [87546:87977](-) ndhB [99641:100417](-) [98185:98940](-) ndhA [126085:126636](-) [124468:125007](-) ndhB_copy2 [146511:147287](+) [147988:148743](+) rpl2_copy2 [157905:158291](+) [158951:159382](+) trnK-UUU [4322:4358](-) [1798:1832](-) trnG-UCC [10013:10036](+) [10802:10849](+) trnL-UAA [49692:49726](+) [50222:50271](+) trnV-UAC [55517:55555](-) [54896:54932](-) trnI-GAU [105977:106018](+) [106955:106989](+) trnA-UGC [107054:107091](+) [107891:107925](+) trnA-UGC_copy2 [139837:139874](-) [139003:139037](-) trnI-GAU_copy2 [140910:140951](-) [139939:139973](-) 4 gene(s) have 2 intron(s) Genes Exons rps12 [73023:73136](-) [101834:102064](-) [101267:101296](-) ycf3 [46953:47078](-) [45983:46210](-) [45099:45251](-) rps12_copy2 [73023:73136](-) [144864:145094](+) [145631:145657](+) clpP [75238:75306](-) [74166:74456](-) [73293:73538](-)