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, 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 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, rps14, rps15, rps16, 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 None Subunit of Acetyl-CoA-carboxylase None Translational initiation factor None Conserved open reading frames ycf1, ycf2, ycf4 Other genes None Possible missing protein coding genes: Group of genes Name of genes Subunits of ATP synthase None Subunits of NADH-dehydrogenase ndhB Subunits of cytochrome b/f complex None Subunits of photosystem I psaA Subunits of photosystem II None Large subunit of ribosome rpl23 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 clpP Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf15 Other genes None 2. Multicopy genes with different lengths: Genes Length Location psbA 1062 [496:1558](-) psbA_copy2 2253 [58401:60654](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13267:13411](-) [12112:12521](-) ndhA (2/2) [136504:137056](-) [134939:135477](-) petB (2/2) [27342:27347](-) [25906:26550](-) petD (2/2) [25707:25714](-) [24545:25022](-) rpl16 (2/2) [18639:18647](+) [19686:20105](+) rpl2 (2/2) [15402:15771](+) [16439:16869](+) rpoC1 (2/2) [89170:89622](+) [90378:91994](+) rps12 (3/3) [147087:147200](-) [99217:99448](+) [99995:100020](+) rps16 (1/2) [4982:5281](-) ycf3 (3/3) [83263:83386](+) [84182:84411](+) [85132:85284](+) ### 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 psbL ACG ndhD CTT 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 119 genes (107 unique genes). Including: 74 protein-coding genes (73 are unique) 37 tRNA genes (30 are unique) 8 rRNA genes (4 are unique) Details are as follows: 74 protein-coding genes (73 are unique) Genes Length Location atpA 1506 [10540:12045](-) atpB 1497 [71061:72557](+) atpE 402 [72554:72955](+) atpF 555 [13267:13411](-) [12112:12521](-) atpH 246 [13829:14074](-) atpI 744 [97589:98332](+) ccsA 936 [129521:130456](+) cemA 690 [75415:76104](+) matK 1530 [2088:3617](-) ndhA 1092 [136504:137056](-) [134939:135477](-) ndhC 363 [40881:41243](+) ndhD 1542 [130748:132289](-) ndhE 303 [132897:133199](-) ndhF 2220 [122537:124756](-) ndhG 531 [133427:133957](-) ndhH 1182 [137058:138239](-) ndhI 504 [134353:134856](-) ndhJ 477 [42090:42566](+) ndhK 657 [41293:41949](+) petA 963 [76304:77266](+) petB 651 [27342:27347](-) [25906:26550](-) petD 486 [25707:25714](-) [24545:25022](-) petG 114 [35842:35955](-) petL 96 [36134:36229](-) petN 90 [65857:65946](+) psaB 2205 [56172:58376](-) psaC 246 [132378:132623](-) psaI 111 [73431:73541](+) psaJ 135 [34997:35131](-) psbA 1062 [497:1558](-) psbA_copy2 2253 [58402:60654](-) psbB 1527 [28382:29908](-) psbC 1422 [52725:54146](+) psbD 1062 [51716:52777](+) psbE 252 [37162:37413](+) psbF 120 [37423:37542](+) psbH 222 [27384:27605](-) psbI 111 [8250:8360](+) psbJ 123 [37826:37948](+) psbK 186 [7598:7783](+) psbL 117 [37565:37681](+) psbM 105 [66462:66566](-) psbN 132 [27848:27979](+) psbT 102 [28051:28152](-) psbZ 189 [54763:54951](+) rbcL 1428 [68822:70249](-) rpl14 369 [20206:20574](+) rpl16 429 [18639:18647](+) [19686:20105](+) rpl2 801 [15402:15771](+) [16439:16869](+) rpl20 339 [33190:33528](+) rpl22 540 [17260:17799](+) rpl32 207 [128615:128821](+) rpl33 195 [34348:34542](-) rpl36 114 [21651:21764](+) rpoA 1014 [22356:23369](+) rpoB 3219 [85946:89164](+) rpoC1 2070 [89170:89622](+) [90378:91994](+) rpoC2 4269 [92160:96428](+) rps11 405 [21871:22275](+) rps12 372 [147087:147200](-) [99217:99448](+) [99995:100020](+) rps14 294 [55750:56043](-) rps15 330 [138334:138663](-) rps16 300 [4982:5281](-) rps18 336 [33890:34225](-) rps19 282 [16924:17205](+) rps2 765 [96653:97417](+) rps3 699 [17784:18482](+) rps4 609 [78148:78756](+) rps7 468 [100074:100541](+) rps8 393 [20764:21156](+) ycf1 6822 [139480:146301](-) ycf2 7116 [104873:111988](+) ycf3 507 [83263:83386](+) [84182:84411](+) [85132:85284](+) ycf4 555 [73890:74444](+) 37 tRNA genes (30 are unique) Genes Location trnH-GUG [119:192](-) trnK-UUU [4357:4393](-) [1790:1824](-) trnQ-UUU [6845:6915](-) trnS-GCU [8499:8586](-) trnG-UCC [9413:9435](+) [10139:10186](+) trnR-UCU [10359:10430](+) trnP-UGG [35534:35607](+) trnW-CCA [35655:35726](+) trnF-GAA [43148:43220](-) trnL-UAA [44123:44157](-) [43568:43617](-) trnT-UGU [44918:44990](+) trnD-GUC [49274:49347](-) trnY-GUA [49451:49534](-) trnE-UUC [49594:49666](-) trnT-GGU [50452:50523](+) trnS-UGA [54325:54416](-) trnG-GCC [55272:55342](+) trnfM-CAU [55511:55583](-) trnI-CAU [61131:61204](+) trnM-CAU [61367:61439](-) trnV-UAC [61636:61673](+) [62257:62291](+) trnC-GCA [63101:63172](+) trnV-GAC [67853:67924](-) trnS-GGA [79063:79149](-) trnV-GAC_copy2 [79937:80008](+) trnI-CAU_copy2 [104567:104640](-) trnL-CAA [112502:112582](-) trnI-GUA [114977:115019](+) [115946:115980](+) trnA-UGC [116053:116090](+) [116892:116926](+) trnR-AGC [121037:121110](+) trnN-GUU [121347:121418](-) trnL-UAG [129339:129418](+) trnN-GUU_copy2 [150663:150734](+) trnR-AGC_copy2 [150971:151044](-) trnA-UGC_copy2 [155991:156028](-) [155155:155189](-) trnI-GUA_copy2 [157062:157104](-) [156101:156135](-) trnL-CAA_copy2 [159499:159579](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [112832:114675](+) rrn23 [117068:120300](+) rrn4.5 [120358:120460](+) rrn5 [120675:120795](+) rrn5_copy2 [151286:151406](-) rrn4.5_copy2 [151621:151723](-) rrn23_copy2 [151802:155013](-) rrn16_copy2 [157406:159249](-) This genome has 17 genes with intron(s). Details are as follows: 15 gene(s) have 1 intron(s) Genes Exons atpF [13267:13411](-) [12112:12521](-) rpl2 [15402:15771](+) [16439:16869](+) rpl16 [18639:18647](+) [19686:20105](+) petD [25707:25714](-) [24545:25022](-) petB [27342:27347](-) [25906:26550](-) rpoC1 [89170:89622](+) [90378:91994](+) ndhA [136504:137056](-) [134939:135477](-) trnK-UUU [4357:4393](-) [1790:1824](-) trnG-UCC [9413:9435](+) [10139:10186](+) trnL-UAA [44123:44157](-) [43568:43617](-) trnV-UAC [61636:61673](+) [62257:62291](+) trnI-GUA [114977:115019](+) [115946:115980](+) trnA-UGC [116053:116090](+) [116892:116926](+) trnA-UGC_copy2 [155991:156028](-) [155155:155189](-) trnI-GUA_copy2 [157062:157104](-) [156101:156135](-) 2 gene(s) have 2 intron(s) Genes Exons ycf3 [83263:83386](+) [84182:84411](+) [85132:85284](+) rps12 [147087:147200](-) [99217:99448](+) [99995:100020](+)