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, ndhG, ndhH, ndhH_copy2, 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, psbA_copy2, psbB, psbC, psbD, psbE, psbF, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps15_copy2, 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 None Conserved open reading frames ycf1, ycf1_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 ndhF Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II None Large subunit of ribosome rpl23 Small subunit of ribosome 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 infA 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) [6613:6757](-) [5440:5849](-) clpP (1/3) [64209:65024](-) ndhA (2/2) [123143:123694](-) [121544:122083](-) ndhB (2/2) [91257:92033](-) [89818:90573](-) ndhB_copy2 (2/2) [142417:143193](+) [143877:144632](+) petB (2/2) [68103:68108](+) [68900:69541](+) petD (2/2) [69732:69739](+) [70563:71064](+) rpl16 (2/2) [75941:75949](-) [74475:74870](-) rpl2 (2/2) [78860:79249](-) [77766:78200](-) rpoC1 (2/2) [17259:17711](-) [14892:16502](-) rps12 (3/3) [63934:64047](-) [93462:93693](-) [92893:92918](-) rps12_copy2 (3/3) [63934:64047](-) [140757:140988](+) [141532:141557](+) ycf3 (3/3) [38906:39022](-) [37966:38193](-) [37114:37266](-) ### 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 rps7 ACG ndhD ACG rps7_copy2 ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 128 genes (109 unique genes). Including: 83 protein-coding genes (75 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 83 protein-coding genes (75 are unique) Genes Length Location accD 1887 [51802:53688](+) atpA 1524 [3855:5378](-) atpB 1497 [47374:48870](-) atpE 402 [46976:47377](-) atpF 555 [6613:6757](-) [5440:5849](-) atpH 246 [7239:7484](-) atpI 744 [8628:9371](-) ccsA 969 [116128:117096](+) cemA 687 [55371:56057](+) clpP 816 [64209:65024](-) matK 1566 [154363:155928](-) ndhA 1092 [123143:123694](-) [121544:122083](-) ndhB 1533 [91257:92033](-) [89818:90573](-) ndhB_copy2 1533 [142417:143193](+) [143877:144632](+) ndhC 366 [44329:44694](-) ndhD 1506 [117361:118866](-) ndhE 303 [119475:119777](-) ndhG 531 [120015:120545](-) ndhH 1182 [109573:110754](+) ndhH_copy2 1182 [123696:124877](-) ndhI 492 [120967:121458](-) ndhJ 477 [43021:43497](-) ndhK 675 [43604:44278](-) petA 963 [56229:57191](+) petB 648 [68103:68108](+) [68900:69541](+) petD 510 [69732:69739](+) [70563:71064](+) petG 114 [59956:60069](+) petL 96 [59696:59791](+) petN 90 [22562:22651](+) psaA 2253 [34160:36412](-) psaB 2205 [31930:34134](-) psaC 246 [118996:119241](-) psaI 114 [54305:54418](+) psaJ 135 [60964:61098](+) psbA 1062 [80627:81688](+) psbA_copy2 1062 [152762:153823](-) psbB 1527 [65631:67157](+) psbC 1422 [28240:29661](+) psbD 1062 [27231:28292](+) psbE 252 [58695:58946](-) psbF 120 [58566:58685](-) psbH 222 [67753:67974](+) psbI 111 [1293:1403](+) psbJ 123 [58144:58266](-) psbK 186 [688:873](+) psbL 117 [58417:58533](-) psbM 105 [23141:23245](-) psbN 132 [67500:67631](-) psbT 108 [67299:67406](+) psbZ 189 [30420:30608](+) rbcL 1428 [49668:51095](+) rpl14 369 [73987:74355](-) rpl16 405 [75941:75949](-) [74475:74870](-) rpl2 825 [78860:79249](-) [77766:78200](-) rpl20 348 [62809:63156](-) rpl22 477 [76775:77251](-) rpl32 159 [114797:114955](+) rpl33 201 [61582:61782](+) rpl36 114 [72851:72964](-) rpoA 1014 [71237:72250](-) rpoB 3222 [17717:20938](-) rpoC1 2064 [17259:17711](-) [14892:16502](-) rpoC2 4170 [10527:14696](-) rps11 417 [72315:72731](-) rps12 372 [63934:64047](-) [93462:93693](-) [92893:92918](-) rps12_copy2 372 [63934:64047](-) [140757:140988](+) [141532:141557](+) rps14 303 [31521:31823](-) rps15 264 [109202:109465](+) rps15_copy2 264 [124985:125248](-) rps18 438 [62107:62544](+) rps19 285 [77430:77714](-) rps2 711 [9581:10291](-) rps3 657 [76109:76765](-) rps4 606 [39764:40369](-) rps7 480 [92361:92840](-) rps7_copy2 480 [141610:142089](+) rps8 405 [73425:73829](-) ycf1 5400 [103571:108970](+) ycf1_copy2 5400 [125480:130879](-) ycf2 6237 [82409:88645](+) ycf2_copy2 6237 [145805:152041](-) ycf3 498 [38906:39022](-) [37966:38193](-) [37114:37266](-) ycf4 555 [54797:55351](+) 37 tRNA genes (30 are unique) Genes Location trnQ-UUG [280:351](-) trnS-GCU [1531:1621](-) trnG-UCC [2438:2460](+) [3144:3191](+) trnR-UCU [3391:3462](+) trnC-GCA [22158:22229](+) trnD-GUC [24326:24399](-) trnY-GUA [24886:24969](-) trnE-UUC [25035:25107](-) trnT-GGU [26045:26116](+) trnS-UGA [29899:29988](-) trnG-GCC [31001:31071](+) trnfM-CAU [31252:31325](-) trnS-GGA [39409:39495](+) trnT-UGU [40803:40875](-) trnL-UAA [41268:41304](+) [41825:41874](+) trnF-GAA [42200:42272](+) trnV-UAC [46472:46510](-) [45831:45865](-) trnM-CAU [46675:46747](+) trnW-CCA [60183:60256](-) trnP-UGG [60407:60480](-) trnI-CAU [79548:79621](-) trnH-GUG [82050:82123](+) trnL-CAA [89153:89233](-) trnV-GAC [94960:95031](+) trnI-GAU [97116:97152](+) [98140:98174](+) trnA-UGC [98239:98276](+) [99071:99105](+) trnR-ACG [102800:102873](+) trnN-GUU [103116:103187](-) trnL-UAG [115927:116006](+) trnN-GUU_copy2 [131263:131334](+) trnR-ACG_copy2 [131577:131650](-) trnA-UGC_copy2 [136174:136211](-) [135345:135379](-) trnI-GAU_copy2 [137298:137334](-) [136276:136310](-) trnV-GAC_copy2 [139419:139490](-) trnL-CAA_copy2 [145217:145297](+) trnH-GUG_copy2 [152327:152401](-) trnK-UUU [156673:156709](-) [154076:154110](-) 8 rRNA genes (4 are unique) Genes Location rrn16S [95322:96812](+) rrn23S [99256:102063](+) rrn4.5S [102163:102264](+) rrn5S [102443:102563](+) rrn5S_copy2 [131887:132007](-) rrn4.5S_copy2 [132186:132287](-) rrn23S_copy2 [132387:135194](-) rrn16S_copy2 [137638:139128](-) This genome has 20 genes with intron(s). Details are as follows: 17 gene(s) have 1 intron(s) Genes Exons atpF [6613:6757](-) [5440:5849](-) rpoC1 [17259:17711](-) [14892:16502](-) petB [68103:68108](+) [68900:69541](+) petD [69732:69739](+) [70563:71064](+) rpl16 [75941:75949](-) [74475:74870](-) rpl2 [78860:79249](-) [77766:78200](-) ndhB [91257:92033](-) [89818:90573](-) ndhA [123143:123694](-) [121544:122083](-) ndhB_copy2 [142417:143193](+) [143877:144632](+) trnG-UCC [2438:2460](+) [3144:3191](+) trnL-UAA [41268:41304](+) [41825:41874](+) trnV-UAC [46472:46510](-) [45831:45865](-) trnI-GAU [97116:97152](+) [98140:98174](+) trnA-UGC [98239:98276](+) [99071:99105](+) trnA-UGC_copy2 [136174:136211](-) [135345:135379](-) trnI-GAU_copy2 [137298:137334](-) [136276:136310](-) trnK-UUU [156673:156709](-) [154076:154110](-) 3 gene(s) have 2 intron(s) Genes Exons rps12 [63934:64047](-) [93462:93693](-) [92893:92918](-) ycf3 [38906:39022](-) [37966:38193](-) [37114:37266](-) rps12_copy2 [63934:64047](-) [140757:140988](+) [141532:141557](+)