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, 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, rps14, rps15, rps18, rps19, rps2, rps3, rps4, rps7, 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, ycf12, ycf2, ycf4 Other genes chlB, chlL, chlN, psaM, rpl21 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 rps12, rps16 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 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) [24023:24167](-) [22953:23362](-) clpP (2/3) [79457:79527](-) [78169:78712](-) ndhA (2/2) [111869:112427](-) [110458:110999](-) ndhB (2/2) [1081:1803](+) [2521:3270](+) petB (2/2) [82569:82574](+) [83227:83868](+) petD (2/2) [84052:84059](+) [84657:85131](+) rpl16 (1/2) [88573:88995](-) rpl2 (2/2) [91601:91997](-) [90511:90947](-) rpoC1 (2/2) [33665:34096](-) [31359:32984](-) ycf3 (3/3) [57132:57255](-) [56243:56472](-) [55389:55544](-) ### 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 accD ACG 6. Genes with nonstandard stop codon: Genes Stop codon accD CAA 7. Conclusion This genome has 129 genes (120 unique genes). Including: 83 protein-coding genes (83 are unique) 38 tRNA genes (33 are unique) 8 rRNA genes (4 are unique) Details are as follows: 83 protein-coding genes (83 are unique) Genes Length Location accD 948 [67593:68540](+) atpA 1527 [21385:22911](-) atpB 1470 [63408:64877](-) atpE 396 [63007:63402](-) atpF 555 [24023:24167](-) [22953:23362](-) atpH 246 [24492:24737](-) atpI 747 [25183:25929](-) ccsA 945 [105756:106700](+) cemA 1428 [70071:71498](+) chlB 1554 [16258:17811](-) chlL 873 [120778:121650](-) chlN 1290 [119420:120709](-) clpP 615 [79457:79527](-) [78169:78712](-) infA 243 [87134:87376](-) matK 1467 [13178:14644](-) ndhA 1101 [111869:112427](-) [110458:110999](-) ndhB 1473 [1081:1803](+) [2521:3270](+) ndhC 363 [61049:61411](-) ndhD 1497 [106769:108265](-) ndhE 303 [108765:109067](-) ndhF 2220 [101962:104181](-) ndhG 585 [109131:109715](-) ndhH 1182 [112429:113610](-) ndhI 549 [109811:110359](-) ndhJ 516 [59779:60294](-) ndhK 753 [60327:61079](-) petA 948 [71705:72652](+) petB 648 [82569:82574](+) [83227:83868](+) petD 483 [84052:84059](+) [84657:85131](+) petG 114 [75203:75316](+) petL 96 [74964:75059](+) petN 96 [38220:38315](+) psaA 2253 [52788:55040](-) psaB 2205 [50558:52762](-) psaC 246 [108375:108620](-) psaI 111 [69008:69118](+) psaJ 129 [75966:76094](+) psaM 99 [19420:19518](-) psbA 1062 [11624:12685](-) psbB 1527 [80018:81544](+) psbC 1422 [46246:47667](-) psbD 1062 [47615:48676](-) psbE 246 [74283:74528](-) psbF 120 [74148:74267](-) psbH 225 [82213:82437](+) psbI 111 [19045:19155](+) psbJ 123 [73784:73906](-) psbK 168 [18358:18525](+) psbL 117 [74011:74127](-) psbM 111 [38821:38931](-) psbN 132 [82006:82137](-) psbT 111 [81758:81868](+) psbZ 189 [45509:45697](-) rbcL 1428 [65454:66881](+) rpl14 369 [88033:88401](-) rpl16 423 [88573:88995](-) rpl2 834 [91601:91997](-) [90511:90947](-) rpl20 348 [76834:77181](-) rpl21 366 [104463:104828](+) rpl22 372 [89807:90178](-) rpl23 273 [92030:92302](-) rpl32 171 [104889:105059](+) rpl33 201 [76201:76401](+) rpl36 114 [86936:87049](-) rpoA 1023 [85358:86380](-) rpoB 3216 [34131:37346](-) rpoC1 2058 [33665:34096](-) [31359:32984](-) rpoC2 4164 [27057:31220](-) rps11 396 [86423:86818](-) rps14 306 [50103:50408](-) rps15 270 [113718:113987](-) rps18 228 [76452:76679](+) rps19 279 [90203:90481](-) rps2 708 [26375:27082](-) rps3 657 [89114:89770](-) rps4 624 [57794:58417](-) rps7 468 [498:965](+) rps8 399 [87482:87880](-) ycf1 4965 [114119:119083](-) ycf12 102 [19816:19917](+) ycf2 7185 [3765:10949](-) ycf3 510 [57132:57255](-) [56243:56472](-) [55389:55544](-) ycf4 555 [69401:69955](+) 38 tRNA genes (33 are unique) Genes Location trnL-CAA [3585:3666](+) trnH-GUG [11424:11497](-) trnK-UUU [15264:15300](-) [12890:12924](-) trnQ-UUG [18045:18116](-) trnS-CGA [18803:18887](+) trnS-GCU [19223:19312](-) trnG-UCC [20321:20343](+) [20991:21038](+) trnR-UCU [21188:21258](+) trnC-GCA [37745:37816](+) trnD-GUC [39140:39213](+) trnY-GUA [39261:39342](-) trnE-UUC [44988:45060](-) trnG-GCC [45173:45243](-) trnS-UGA [46020:46111](+) trnT-GGU [49637:49708](-) trnfM-CAU [49880:49953](-) trnS-GGA [57525:57612](+) trnT-UGU [58661:58733](-) trnL-UAA [58990:59023](+) [59284:59334](+) trnF-GAA [59492:59564](+) trnV-UAC [62148:62184](-) [61549:61583](-) trnM-CAU [62381:62453](+) trnR-CCG [67058:67131](+) trnW-CCA [75400:75473](-) trnP-UGG [75632:75705](-) trnI-CAU [92425:92498](-) trnV-GAC [93167:93238](+) trnI-GAU [95233:95270](+) [96178:96212](+) trnA-UGC [96292:96329](+) [97004:97038](+) trnR-ACG [100688:100761](+) trnN-GUU [101613:101684](-) trnP-GGG [105354:105427](-) trnL-UAG [105547:105626](+) trnN-GUU_copy2 [122657:122728](+) trnR-ACG_copy2 [123580:123653](-) trnA-UGC_copy2 [128012:128049](-) [127303:127337](-) trnI-GAU_copy2 [129071:129108](-) [128129:128163](-) trnV-GAC_copy2 [131103:131174](-) 8 rRNA genes (4 are unique) Genes Location rrn16 [93455:94951](+) rrn23 [97161:99959](+) rrn4.5 [100064:100166](+) rrn5 [100407:100527](+) rrn5_copy2 [123814:123934](-) rrn4.5_copy2 [124175:124277](-) rrn23_copy2 [124382:127180](-) rrn16_copy2 [129390:130886](-) This genome has 17 genes with intron(s). Details are as follows: 16 gene(s) have 1 intron(s) Genes Exons ndhB [1081:1803](+) [2521:3270](+) atpF [24023:24167](-) [22953:23362](-) rpoC1 [33665:34096](-) [31359:32984](-) clpP [79457:79527](-) [78169:78712](-) petB [82569:82574](+) [83227:83868](+) petD [84052:84059](+) [84657:85131](+) rpl2 [91601:91997](-) [90511:90947](-) ndhA [111869:112427](-) [110458:110999](-) trnK-UUU [15264:15300](-) [12890:12924](-) trnG-UCC [20321:20343](+) [20991:21038](+) trnL-UAA [58990:59023](+) [59284:59334](+) trnV-UAC [62148:62184](-) [61549:61583](-) trnI-GAU [95233:95270](+) [96178:96212](+) trnA-UGC [96292:96329](+) [97004:97038](+) trnA-UGC_copy2 [128012:128049](-) [127303:127337](-) trnI-GAU_copy2 [129071:129108](-) [128129:128163](-) 1 gene(s) have 2 intron(s) Genes Exons ycf3 [57132:57255](-) [56243:56472](-) [55389:55544](-)