1. Annotated 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 psbM Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, 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 None Subunit of rubisco None c-type cytochrom synthesis gene None Envelop membrane protein None Maturase matK Protease clpP Subunit of Acetyl-CoA-carboxylase None Translational initiation factor infA Conserved open reading frames ycf15, ycf15_copy2, ycf2, ycf2_copy2 Other genes None Possible missing 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, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl23 Small subunit of ribosome None DNA dependent RNA polymerase rpoA, rpoB, rpoC1, rpoC2 Subunit of rubisco rbcL c-type cytochrom synthesis gene ccsA Envelop membrane protein cemA Maturase None Protease None Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor None Conserved open reading frames ycf1, ycf4 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 clpP (3/3) [59688:59756](+) [60506:60796](+) [61434:61661](+) rpl16 (2/2) [55234:55242](+) [56132:56533](+) rpl2 (2/2) [1100:1492](-) [1:435](-) rpl2_copy2 (2/2) [52036:52428](+) [53093:53527](+) rps12 (3/3) [61795:61908](+) [41596:41827](+) [42357:42388](+) rps12_copy2 (3/3) [61795:61908](+) [11701:11932](-) [11140:11171](-) rps16 (2/2) [96497:96535](+) [97411:97602](+) ### 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 ycf15 GTG ycf15_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 75 genes (60 unique genes). Including: 31 protein-coding genes (26 are unique) 36 tRNA genes (29 are unique) 8 rRNA genes (5 are unique) Details are as follows: 31 protein-coding genes (26 are unique) Genes Length Location clpP 588 [59688:59756](+) [60506:60796](+) [61434:61661](+) infA 234 [57693:57926](+) matK 1548 [98959:100506](+) psbM 96 [86724:86819](+) rpl14 369 [56662:57030](+) rpl16 411 [55234:55242](+) [56132:56533](+) rpl2 828 [1100:1492](-) [1:435](-) rpl20 387 [62729:63115](+) rpl22 465 [53960:54424](+) rpl2_copy2 828 [52036:52428](+) [53093:53527](+) rpl32 171 [30139:30309](-) rpl33 201 [63739:63939](-) rpl36 114 [58024:58137](+) rps11 417 [58239:58655](+) rps12 378 [61795:61908](+) [41596:41827](+) [42357:42388](+) rps12_copy2 378 [61795:61908](+) [11701:11932](-) [11140:11171](-) rps14 303 [81421:81723](+) rps15 264 [28046:28309](+) rps16 231 [96497:96535](+) [97411:97602](+) rps18 306 [63286:63591](-) rps19 279 [53591:53869](+) rps2 738 [90208:90945](+) rps3 651 [54409:55059](+) rps4 606 [76232:76837](+) rps7 468 [10619:11086](-) rps7_copy2 468 [42442:42909](+) rps8 393 [57179:57571](+) ycf15 249 [8983:9231](+) ycf15_copy2 249 [44297:44545](-) ycf2 6774 [2123:8896](+) ycf2_copy2 6774 [44632:51405](-) 36 tRNA genes (29 are unique) Genes Location trnI-CAU [1952:2025](-) trnL-CAA [9574:9654](-) trnV-GAC [13506:13577](+) trnI-GAU [15604:15645](+) [16583:16617](+) trnA-UGC [16682:16719](+) [17529:17563](+) trnR-ACG [21348:21421](+) trnN-GUU [21970:22042](-) trnL-UAG [29622:29701](-) trnN-GUU_copy2 [31486:31558](+) trnR-ACG_copy2 [32107:32180](-) trnA-UGC_copy2 [36809:36846](-) [35965:35999](-) trnI-GAU_copy2 [37883:37924](-) [36911:36945](-) trnV-GAC_copy2 [39951:40022](+) trnL-CAA_copy2 [43874:43954](+) trnI-CAU_copy2 [51503:51576](+) trnP-UGG [64517:64590](+) trnW-CCA [64777:64850](+) trnM-CAU [73830:73902](-) trnV-UAC [74092:74129](+) [74720:74756](+) trnF-GAA [74797:74869](-) trnT-UGU [75743:75779](-) [75221:75270](-) trnS-GGA [77112:77197](-) trnfM-CAU [81860:81932](+) trnG-UCC [81998:82068](-) trnS-UGA [82440:82531](+) trnT-GGU [85087:85158](-) trnE-UUC [85774:85846](+) trnY-GUA [85910:85993](+) trnD-GUC [86124:86197](+) trnC-GCA [87327:87397](-) trnR-UCU [93421:93492](-) trnG [94415:94438](-) [93657:93704](-) trnS-GCU [94705:94792](+) trnQ-UUG [95572:95642](+) trnK [98227:98263](+) [100745:100770](+) trnH-GUG [102173:102245](+) 8 rRNA genes (5 are unique) Genes Location 16s [13807:15294](+) rrn23 [17760:20569](+) rrn4.5 [20668:20770](+) rrn5 [20994:21114](+) rrn5_copy2 [32414:32534](-) rrn4.5_copy2 [32758:32860](-) rrn23_copy2 [32973:35782](-) rrn16 [38236:39723](-) This genome has 15 genes with intron(s). Details are as follows: 12 gene(s) have 1 intron(s) Genes Exons rpl2 [1100:1492](-) [1:435](-) rpl2_copy2 [52036:52428](+) [53093:53527](+) rpl16 [55234:55242](+) [56132:56533](+) rps16 [96497:96535](+) [97411:97602](+) trnI-GAU [15604:15645](+) [16583:16617](+) trnA-UGC [16682:16719](+) [17529:17563](+) trnA-UGC_copy2 [36809:36846](-) [35965:35999](-) trnI-GAU_copy2 [37883:37924](-) [36911:36945](-) trnV-UAC [74092:74129](+) [74720:74756](+) trnT-UGU [75743:75779](-) [75221:75270](-) trnG [94415:94438](-) [93657:93704](-) trnK [98227:98263](+) [100745:100770](+) 3 gene(s) have 2 intron(s) Genes Exons rps12 [61795:61908](+) [41596:41827](+) [42357:42388](+) rps12_copy2 [61795:61908](+) [11701:11932](-) [11140:11171](-) clpP [59688:59756](+) [60506:60796](+) [61434:61661](+)