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 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, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps15_copy2, 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 None Translational initiation factor infA Conserved open reading frames ycf4 Other genes orf134, orf134_copy2, orf137, orf137_copy2, orf147, orf173, orf173_copy2, orf179, orf179_copy2, orf25, orf251, orf251_copy2, orf25_copy2, orf34, orf34_copy2, orf38, orf38_copy2, orf43, orf46, orf46_copy2, orf49, orf49_copy2, orf58, orf58_copy2, orf63, orf63_copy2, orf69, orf69_copy2, orf74, orf74_copy2, orf81, orf85, orf85_copy2, orf99, orf99_copy2 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 psbA 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 None Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor None Conserved open reading frames ycf1, ycf15, ycf2 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) [35604:35748](+) [36581:36987](+) clpP (1/3) [70176:70826](-) ndhA (2/2) [116656:117205](-) [115094:115632](-) ndhB (2/2) [91394:92170](-) [89935:90690](-) ndhB_copy2 (2/2) [132061:132837](+) [133541:134296](+) petB (2/2) [73796:73801](+) [74559:75200](+) petD (2/2) [75383:75390](+) [76131:76605](+) rpl16 (2/2) [81658:81666](-) [80177:80578](-) rpl2 (2/2) [84720:85110](-) [83626:84056](-) rpl2_copy2 (2/2) [139121:139511](+) [140175:140605](+) rpoC1 (1/2) [25185:27236](+) rps12 (3/3) [69929:70042](-) [93569:93800](-) [93000:93028](-) rps12_copy2 (3/3) [69929:70042](-) [130431:130662](+) [131203:131231](+) rps16 (2/2) [5555:5594](-) [4503:4720](-) ycf3 (3/3) [46646:46769](-) [45656:45885](-) [44760:44918](-) ### 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 rps19 GTG rpl2 ACG rpl2_copy2 ACG rps19_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 163 genes (119 unique genes). Including: 117 protein-coding genes (94 are unique) 38 tRNA genes (21 are unique) 8 rRNA genes (4 are unique) Details are as follows: 117 protein-coding genes (94 are unique) Genes Length Location atpA 1524 [37078:38601](+) atpB 1497 [55162:56658](-) atpE 414 [54752:55165](-) atpF 552 [35604:35748](+) [36581:36987](+) atpH 246 [34879:35124](+) atpI 744 [33316:34059](+) ccsA 966 [109746:110711](+) cemA 693 [61230:61922](+) clpP 651 [70176:70826](-) infA 324 [78743:79066](-) matK 1542 [1673:3214](-) ndhA 1089 [116656:117205](-) [115094:115632](-) ndhB 1533 [91394:92170](-) [89935:90690](-) ndhB_copy2 1533 [132061:132837](+) [133541:134296](+) ndhC 363 [52382:52744](-) ndhD 1503 [110892:112394](-) ndhE 306 [113220:113525](-) ndhF 2217 [105815:108031](-) ndhG 531 [113744:114274](-) ndhH 1182 [117207:118388](-) ndhI 543 [114458:115000](-) ndhJ 480 [51067:51546](-) ndhK 684 [51645:52328](-) orf134 405 [97804:98208](+) orf134_copy2 405 [126023:126427](-) orf137 414 [83732:84145](+) orf137_copy2 414 [140086:140499](-) orf147 444 [15489:15932](-) orf173 522 [88574:89095](+) orf173_copy2 522 [135136:135657](-) orf179 540 [86986:87525](+) orf179_copy2 540 [136706:137245](-) orf25 78 [104251:104328](+) orf251 756 [85972:86727](+) orf251_copy2 756 [137504:138259](-) orf25_copy2 78 [119903:119980](-) orf34 105 [85837:85941](+) orf34_copy2 105 [138290:138394](-) orf38 117 [87417:87533](+) orf38_copy2 117 [136698:136814](-) orf43 132 [9014:9145](+) orf46 141 [85715:85855](+) orf46_copy2 141 [138376:138516](-) orf49 150 [99429:99578](+) orf49_copy2 150 [124653:124802](-) orf58 177 [94841:95017](-) orf58_copy2 177 [129214:129390](+) orf63 192 [104799:104990](+) orf63_copy2 192 [119241:119432](-) orf69 210 [89400:89609](-) orf69_copy2 210 [134622:134831](+) orf74 225 [83385:83609](-) orf74_copy2 225 [140622:140846](+) orf81 246 [14956:15201](-) orf85 258 [95067:95324](-) orf85_copy2 258 [128907:129164](+) orf99 300 [88214:88513](+) orf99_copy2 300 [135718:136017](-) petA 963 [62151:63113](+) petB 648 [73796:73801](+) [74559:75200](+) petD 483 [75383:75390](+) [76131:76605](+) petG 114 [66258:66371](+) petL 96 [65995:66090](+) petN 90 [19586:19675](-) psaA 2253 [41903:44155](-) psaB 2205 [39673:41877](-) psaC 246 [112514:112759](-) psaI 111 [59830:59940](+) psaJ 129 [67162:67290](+) psbB 1527 [71341:72867](+) psbC 1422 [10434:11855](+) psbD 1062 [9425:10486](+) psbE 252 [64530:64781](-) psbF 120 [64400:64519](-) psbH 222 [73445:73666](+) psbI 111 [8124:8234](+) psbJ 123 [64013:64135](-) psbK 186 [7550:7735](+) psbL 117 [64261:64377](-) psbM 105 [18671:18775](+) psbN 132 [73210:73341](-) psbT 102 [73036:73137](+) psbZ 189 [12441:12629](+) rbcL 1431 [57455:58885](+) rpl14 372 [79696:80067](-) rpl16 411 [81658:81666](-) [80177:80578](-) rpl2 822 [84720:85110](-) [83626:84056](-) rpl20 360 [68885:69244](-) rpl22 447 [82545:82991](-) rpl23 282 [85129:85410](-) rpl23_copy2 282 [138821:139102](+) rpl2_copy2 822 [139121:139511](+) [140175:140605](+) rpl32 180 [108887:109066](+) rpl33 201 [67658:67858](+) rpl36 114 [78529:78642](-) rpoA 1020 [76826:77845](-) rpoB 3228 [21920:25147](+) rpoC1 2052 [25185:27236](+) rpoC2 4605 [27436:32040](+) rps11 432 [77912:78343](-) rps12 375 [69929:70042](-) [93569:93800](-) [93000:93028](-) rps12_copy2 375 [69929:70042](-) [130431:130662](+) [131203:131231](+) rps14 312 [39217:39528](-) rps15 237 [105454:105690](+) rps15_copy2 237 [118541:118777](-) rps16 258 [5555:5594](-) [4503:4720](-) rps18 492 [68171:68662](+) rps19 282 [83084:83365](-) rps19_copy2 282 [140866:141147](+) rps2 711 [32355:33065](+) rps3 675 [81811:82485](-) rps4 606 [47725:48330](-) rps7 471 [92471:92941](-) rps7_copy2 471 [131290:131760](+) rps8 411 [79146:79556](-) ycf3 513 [46646:46769](-) [45656:45885](-) [44760:44918](-) ycf4 558 [60301:60858](+) 38 tRNA genes (21 are unique) Genes Location trnK [3902:3938](-) [1389:1423](-) trnQ [7124:7195](-) trnS [8361:8448](-) trnS_copy2 [12010:12097](-) trnG [12915:12985](+) trnfM [13477:13550](-) trnG_copy2 [14395:14417](-) [13649:13696](-) trnT [16373:16444](+) trnE [16979:17051](+) trnY [17113:17196](+) trnD [17546:17619](+) trnC [20637:20707](-) trnR [38740:38811](-) trnS_copy3 [47358:47444](+) trnT_copy2 [48650:48722](-) trnL [49523:49557](+) [50010:50059](+) trnF [50425:50497](+) trnV [54312:54350](-) [53673:53707](-) trnM [54567:54639](+) trnW [66493:66566](-) trnP [66707:66781](-) trnH [83496:83570](+) trnI [85577:85650](-) trnL_copy2 [89283:89363](-) trnV_copy2 [95567:95638](+) trnI_copy2 [97663:97699](+) [98651:98685](+) trnA [98751:98788](+) [99599:99633](+) trnR_copy2 [103463:103536](+) trnN [103790:103861](-) trnL_copy3 [109589:109668](+) trnN_copy2 [120370:120441](+) trnR_copy3 [120695:120768](-) trnA_copy2 [125443:125480](-) [124598:124632](-) trnI_copy3 [126532:126568](-) [125546:125580](-) trnV_copy3 [128593:128664](-) trnL_copy4 [134868:134948](+) trnI_copy4 [138581:138654](+) trnH_copy2 [140661:140735](-) 8 rRNA genes (4 are unique) Genes Location rrn16 [95869:97359](+) rrn23 [99779:102666](+) rrn4.5 [102762:102856](+) rrn5 [103089:103209](+) rrn5_copy2 [121022:121142](-) rrn4.5_copy2 [121375:121469](-) rrn23_copy2 [121565:124452](-) rrn16_copy2 [126872:128362](-) This genome has 21 genes with intron(s). Details are as follows: 18 gene(s) have 1 intron(s) Genes Exons rps16 [5555:5594](-) [4503:4720](-) atpF [35604:35748](+) [36581:36987](+) petB [73796:73801](+) [74559:75200](+) petD [75383:75390](+) [76131:76605](+) rpl16 [81658:81666](-) [80177:80578](-) rpl2 [84720:85110](-) [83626:84056](-) ndhB [91394:92170](-) [89935:90690](-) ndhA [116656:117205](-) [115094:115632](-) ndhB_copy2 [132061:132837](+) [133541:134296](+) rpl2_copy2 [139121:139511](+) [140175:140605](+) trnK [3902:3938](-) [1389:1423](-) trnG_copy2 [14395:14417](-) [13649:13696](-) trnL [49523:49557](+) [50010:50059](+) trnV [54312:54350](-) [53673:53707](-) trnI_copy2 [97663:97699](+) [98651:98685](+) trnA [98751:98788](+) [99599:99633](+) trnA_copy2 [125443:125480](-) [124598:124632](-) trnI_copy3 [126532:126568](-) [125546:125580](-) 3 gene(s) have 2 intron(s) Genes Exons rps12 [69929:70042](-) [93569:93800](-) [93000:93028](-) ycf3 [46646:46769](-) [45656:45885](-) [44760:44918](-) rps12_copy2 [69929:70042](-) [130431:130662](+) [131203:131231](+)