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, 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, 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 None Conserved open reading frames ycf1, ycf15, ycf15_copy2, 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 None Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II psbL Large subunit of ribosome None Small subunit of ribosome rps12 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 None Other genes None 2. Multicopy genes with different lengths: Genes Length Location ycf1 1074 [112799:113873](+) ycf1_copy2 5775 [129099:134874](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13421:13588](-) [12290:12667](-) clpP (3/3) [75809:75877](-) [74599:75099](-) [73682:73915](-) ndhA (2/2) [126635:127228](-) [124947:125459](-) ndhB (2/2) [99809:100600](-) [98383:99165](-) ndhB_copy2 (2/2) [146984:147775](+) [148419:149201](+) petB (1/2) [79551:80249](+) petD (1/2) [81186:81668](+) rpl16 (1/2) [84910:85326](-) rpl2 (2/2) [89247:89663](-) [88136:88666](-) rpl2_copy2 (2/2) [157921:158337](+) [158918:159448](+) rpoC1 (2/2) [24154:24609](-) [21746:23401](-) rps16 (2/2) [5948:6076](-) [5103:5327](-) ycf3 (3/3) [46915:47040](-) [45901:46128](-) [45062:45151](-) ### 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 psbA ATA rps16 ATA atpA ATA atpH ATA psbD ATC psbC GTG rps14 ATC psaB TTG psaA TTG ndhJ ATA ndhC TTG atpE ATT atpB ATT cemA ATT petA ATA rps18 ATT rpl20 ATT psbB TTG psbT ATC petD ATC rpoA ATT rps11 ATT rpl14 TTG rpl16 ATA rps3 ATT rps19 ATT rpl2 ATC ycf2 ATC ycf15 ATT ndhF ATT ccsA TTG ndhD CTG psaC ATC ndhE TTG ndhI ATT ndhA ATA ndhH ATC ycf1_copy2 ATC ycf15_copy2 ATT ycf2_copy2 ATC rpl2_copy2 ATC 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 117 genes (102 unique genes). Including: 84 protein-coding genes (77 are unique) 25 tRNA genes (20 are unique) 8 rRNA genes (5 are unique) Details are as follows: Nonstandard gene annotation ('/gene' tags possibly be missing in your GenBank file) tRNA-Met [157403:157478](+) 84 protein-coding genes (77 are unique) Genes Length Location accD 1494 [60449:61942](+) atpA 1530 [10710:12239](-) atpB 1551 [55957:57507](-) atpE 411 [55559:55969](-) atpF 546 [13421:13588](-) [12290:12667](-) atpH 315 [14043:14357](-) atpI 744 [15495:16238](-) ccsA 1011 [119441:120451](+) cemA 720 [64681:65400](+) clpP 804 [75809:75877](-) [74599:75099](-) [73682:73915](-) matK 1518 [1715:3232](-) ndhA 1107 [126635:127228](-) [124947:125459](-) ndhB 1575 [99809:100600](-) [98383:99165](-) ndhB_copy2 1575 [146984:147775](+) [148419:149201](+) ndhC 411 [53567:53977](-) ndhD 1539 [120709:122247](-) ndhE 324 [122893:123216](-) ndhF 2268 [113776:116043](-) ndhG 531 [123442:123972](-) ndhH 1203 [127200:128402](-) ndhI 510 [124363:124872](-) ndhJ 513 [52223:52735](-) ndhK 762 [52836:53597](-) petA 1029 [65544:66572](+) petB 699 [79551:80249](+) petD 483 [81186:81668](+) petG 114 [69653:69766](+) petL 96 [69386:69481](+) petN 90 [30064:30153](+) psaA 2304 [41983:44286](-) psaB 2217 [39753:41969](-) psaC 291 [122350:122640](-) psaI 114 [62707:62820](+) psaJ 135 [70623:70757](+) psbA 1080 [60:1139](-) psbB 1551 [76316:77866](+) psbC 1452 [35886:37337](+) psbD 1068 [34901:35968](+) psbE 252 [67894:68145](-) psbF 120 [67765:67884](-) psbH 222 [78457:78678](+) psbI 111 [8339:8449](+) psbJ 123 [67366:67488](-) psbK 186 [7687:7872](+) psbM 105 [31451:31555](-) psbN 132 [78221:78352](-) psbT 117 [78037:78153](+) psbZ 189 [37975:38163](+) rbcL 1449 [58243:59691](+) rpl14 393 [84396:84788](-) rpl16 417 [84910:85326](-) rpl2 948 [89247:89663](-) [88136:88666](-) rpl20 378 [72230:72607](-) rpl22 408 [87291:87698](-) rpl23 282 [89664:89945](-) rpl23_copy2 282 [157639:157920](+) rpl2_copy2 948 [157921:158337](+) [158918:159448](+) rpl32 159 [117416:117574](+) rpl33 201 [71240:71440](+) rpl36 123 [83433:83555](-) rpoA 978 [81843:82820](-) rpoB 3213 [24615:27827](-) rpoC1 2112 [24154:24609](-) [21746:23401](-) rpoC2 4167 [17414:21580](-) rps11 426 [82880:83305](-) rps14 309 [39313:39621](-) rps15 273 [128511:128783](-) rps16 354 [5948:6076](-) [5103:5327](-) rps18 339 [71594:71932](+) rps19 282 [87779:88060](-) rps2 711 [16462:17172](-) rps3 651 [86552:87202](-) rps4 606 [48166:48771](-) rps7 468 [100915:101382](-) rps7_copy2 468 [146202:146669](+) rps8 411 [83803:84213](-) ycf1 1074 [112800:113873](+) ycf15 171 [103039:103209](-) ycf15_copy2 171 [144375:144545](+) ycf1_copy2 5775 [129100:134874](-) ycf2 6873 [90269:97141](+) ycf2_copy2 6873 [150443:157315](-) ycf3 444 [46915:47040](-) [45901:46128](-) [45062:45151](-) ycf4 555 [63245:63799](+) 25 tRNA genes (20 are unique) Genes Location trnQ-CAA [7234:7305](+) trnS-AGC [8635:8722](-) trnR-AGA [10495:10566](+) trnC-UGC [28970:29040](+) trnD-GAC [32086:32161](-) trnY-UAC [32584:32667](-) trnE-GAA [32725:32799](-) trnT-ACC [33442:33513](+) trnS-UCA [37595:37687](-) trnG-GGC [38803:38874](+) trnM-AUG [39073:39147](-) trnS-UCC [47800:47886](+) trnT-ACA [49225:49299](-) trnF-UUC [51466:51539](+) trnW-UGG [69892:69965](-) trnP-CCA [70109:70184](-) trnM-AUG_copy2 [90106:90180](-) trnL-UUG [97710:97792](-) trnV-GUC [103924:103995](+) trnR-CGU [111740:111814](+) trnN-AAC [112404:112477](-) trnN-AAC_copy2 [135107:135180](+) trnR-CGU_copy2 [135770:135844](-) trnV-GUC_copy2 [143589:143660](-) trnL-UUG_copy2 [149792:149874](+) 8 rRNA genes (5 are unique) Genes Location rns [104223:105713](+) rnl [108129:110938](+) rrn4.5 [111037:111139](+) rrn5 [111364:111484](+) 5S [136100:136220](-) rrn4.5_copy2 [136445:136547](-) rnl_copy2 [136646:139455](-) rns_copy2 [141871:143361](-) This genome has 10 genes with intron(s). Details are as follows: 8 gene(s) have 1 intron(s) Genes Exons rps16 [5948:6076](-) [5103:5327](-) atpF [13421:13588](-) [12290:12667](-) rpoC1 [24154:24609](-) [21746:23401](-) rpl2 [89247:89663](-) [88136:88666](-) ndhB [99809:100600](-) [98383:99165](-) ndhA [126635:127228](-) [124947:125459](-) ndhB_copy2 [146984:147775](+) [148419:149201](+) rpl2_copy2 [157921:158337](+) [158918:159448](+) 2 gene(s) have 2 intron(s) Genes Exons ycf3 [46915:47040](-) [45901:46128](-) [45062:45151](-) clpP [75809:75877](-) [74599:75099](-) [73682:73915](-)