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, 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, 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, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps14, rps15, rps15_copy2, rps16, rps18, rps19, rps19_copy2, 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 infA Conserved open reading frames ycf4 Other genes orf222, orf222_copy2, orf23, orf23_copy2, orf28, orf28_copy2, orf34, orf34_copy2, orf39, orf39_copy2, orf46, orf46_copy2, orf63, orf63_copy2, orf64, orf64_copy2 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 None 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 ycf1, ycf15, ycf2 Other genes None 2. Multicopy genes with different lengths: Genes Length Location rpl2 813 join{[82228:82621](-), [81148:81568](-)} rpl2_copy2 825 join{[132428:132821](+), [133481:133913](+)} ndhH 171 [101188:101359](+) ndhH_copy2 1182 [112679:113861](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [32700:32844](+) [33673:34079](+) clpP (1/3) [67589:68239](-) ndhA (2/2) [112129:112678](-) [110602:111140](-) ndhB (2/2) [86820:87596](-) [85352:86107](-) ndhB_copy2 (2/2) [127454:128230](+) [128943:129698](+) petB (2/2) [71184:71189](+) [72003:72644](+) petD (2/2) [72836:72845](+) [73594:74066](+) rpl16 (2/2) [79146:79154](-) [77686:78087](-) rpl2 (2/2) [82229:82621](-) [81149:81568](-) rpl2_copy2 (2/2) [132429:132821](+) [133482:133913](+) rpoC1 (1/2) [22439:24487](+) rps12 (3/3) [67353:67454](-) [88994:89225](-) [88425:88453](-) rps16 (2/2) [5522:5561](-) [4487:4635](-) ycf3 (3/3) [43658:43789](-) [42694:42921](-) [41811:41969](-) ### 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 ndhK TTG psbT ATC rps19 GTG rpl2 ACG orf64 GTG orf64_copy2 GTG rpl2_copy2 ACG rps19_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon rpl2 CGT 7. Conclusion This genome has 140 genes (114 unique genes). Including: 100 protein-coding genes (85 are unique) 40 tRNA genes (29 are unique) 0 rRNA genes (0 are unique) Details are as follows: Nonstandard gene annotation ('/gene' tags possibly be missing in your GenBank file) 16S ribosomal RNA [122307:123798](-) 23S ribosomal RNA [116997:119885](-) 4.5S ribosomal RNA [116807:116902](-) 5S ribosomal RNA [116459:116580](-) 100 protein-coding genes (85 are unique) Genes Length Location accD 321 [56510:56830](+) atpA 1524 [34170:35693](+) atpB 1497 [51757:53253](-) atpE 414 [51347:51760](-) atpF 552 [32700:32844](+) [33673:34079](+) atpH 246 [31999:32244](+) atpI 744 [30461:31204](+) ccsA 966 [105201:106166](+) cemA 693 [58629:59321](+) clpP 651 [67589:68239](-) infA 324 [76192:76515](-) matK 1536 [1668:3203](-) ndhA 1089 [112129:112678](-) [110602:111140](-) ndhB 1533 [86820:87596](-) [85352:86107](-) ndhB_copy2 1533 [127454:128230](+) [128943:129698](+) ndhC 363 [49241:49603](-) ndhD 1503 [106363:107865](-) ndhE 306 [108677:108982](-) ndhF 2205 [101393:103597](-) ndhG 531 [109192:109722](-) ndhH 171 [101189:101359](+) ndhH_copy2 1182 [112680:113861](-) ndhI 543 [109965:110507](-) ndhJ 480 [47933:48412](-) ndhK 852 [48510:49361](-) orf222 669 [84035:84703](+) orf222_copy2 669 [130347:131015](-) orf23 72 [98975:99046](+) orf23_copy2 72 [116004:116075](-) orf28 87 [83491:83577](+) orf28_copy2 87 [131473:131559](-) orf34 105 [83356:83460](+) orf34_copy2 105 [131590:131694](-) orf39 120 [99582:99701](+) orf39_copy2 120 [115349:115468](-) orf46 141 [83234:83374](+) orf46_copy2 141 [131676:131816](-) orf63 192 [100166:100357](+) orf63_copy2 192 [114693:114884](-) orf64 195 [83642:83836](+) orf64_copy2 195 [131214:131408](-) petA 963 [59551:60513](+) petB 648 [71184:71189](+) [72003:72644](+) petD 483 [72836:72845](+) [73594:74066](+) petG 114 [63753:63866](+) petL 96 [63485:63580](+) petN 90 [17485:17574](-) psaA 2253 [38958:41210](-) psaB 2205 [36728:38932](-) psaC 246 [107985:108230](-) psaI 111 [57167:57277](+) psaJ 135 [64576:64710](+) psbA 1062 [82:1143](-) psbB 1527 [68751:70277](+) psbC 1422 [9848:11269](+) psbD 1062 [8839:9900](+) psbE 252 [62037:62288](-) psbF 120 [61907:62026](-) psbH 222 [70833:71054](+) psbI 111 [7615:7725](+) psbJ 123 [61519:61641](-) psbK 186 [7040:7225](+) psbL 117 [61768:61884](-) psbM 105 [16620:16724](+) psbN 132 [70598:70729](-) psbT 117 [70433:70549](+) psbZ 189 [11876:12064](+) rbcL 1434 [54051:55484](+) rpl14 372 [77202:77573](-) rpl16 411 [79146:79154](-) [77686:78087](-) rpl2 813 [82229:82621](-) [81149:81568](-) rpl20 360 [66307:66666](-) rpl22 450 [80074:80523](-) rpl23 282 [82640:82921](-) rpl23_copy2 282 [132129:132410](+) rpl2_copy2 825 [132429:132821](+) [133482:133913](+) rpl32 180 [104313:104492](+) rpl33 201 [65152:65352](+) rpl36 114 [75968:76081](-) rpoA 1014 [74286:75299](-) rpoB 3228 [19174:22401](+) rpoC1 2049 [22439:24487](+) rpoC2 4542 [24687:29228](+) rps11 432 [75363:75794](-) rps12 363 [67353:67454](-) [88994:89225](-) [88425:88453](-) rps14 312 [36269:36580](-) rps15 273 [100778:101050](+) rps15_copy2 273 [114000:114272](-) rps16 189 [5522:5561](-) [4487:4635](-) rps18 492 [65593:66084](+) rps19 282 [80594:80875](-) rps19_copy2 282 [134175:134456](+) rps2 711 [29500:30210](+) rps3 720 [79300:80019](-) rps4 606 [44761:45366](-) rps7 471 [87896:88366](-) rps7_copy2 471 [126684:127154](+) rps8 411 [76652:77062](-) ycf3 519 [43658:43789](-) [42694:42921](-) [41811:41969](-) ycf4 558 [57652:58209](+) 40 tRNA genes (29 are unique) Genes Location trnK-UUU [3895:3931](-) [1373:1407](-) trnQ-UUG [6622:6694](-) trnS-GCU [7836:7923](-) trnS-UGA [11442:11529](-) trnG-GCC [12270:12340](+) trnfM-CAU [12774:12847](-) trnT-GGU [14994:15065](+) trnM-CAU [15000:15058](+) trnT-GGU_copy2 [15067:15130](+) trnE-UUC [15584:15656](+) trnY-GUA [15718:15801](+) trnD-GUC [16165:16238](+) trnC-GCA [18020:18090](-) trnR-UCU [35826:35897](-) trnfM-CAU_copy2 [36044:36100](-) trnS-GGA [44389:44475](+) trnT-UGU [45666:45738](-) trnL-UAA [46496:46530](+) [47072:47121](+) trnF-GAA [47366:47438](+) trnV-UAC [50942:50980](-) [50320:50356](-) trnM-CAU_copy2 [51162:51234](+) trnT-GGU_copy3 [51168:51226](+) trnW-CCA [63983:64056](-) trnP-UGG [64183:64257](-) trnH-GUG [81007:81081](+) trnI-CAU [83096:83169](-) trnL-CAA [84668:84748](-) trnV-GAC [90949:91020](+) trnA-UGC [94136:94173](+) [94985:95019](+) trnR-ACG [98849:98922](+) trnN-GUU [99175:99246](-) trnL-UAG [105039:105118](+) trnN-GUU_copy2 [115804:115875](+) trnR-ACG_copy2 [116128:116201](-) trnA-UGC_copy2 [120877:120914](-) [120031:120065](-) trnI-GAU [121956:121997](-) [120979:121013](-) trnV-GAC_copy2 [124030:124101](-) trnL-CAA_copy2 [130302:130382](+) trnI-CAU_copy2 [131881:131954](+) trnH-GUG_copy2 [133969:134043](-) 0 rRNA genes (0 are unique) Genes Location This genome has 18 genes with intron(s). Details are as follows: 16 gene(s) have 1 intron(s) Genes Exons rps16 [5522:5561](-) [4487:4635](-) atpF [32700:32844](+) [33673:34079](+) petB [71184:71189](+) [72003:72644](+) petD [72836:72845](+) [73594:74066](+) rpl16 [79146:79154](-) [77686:78087](-) rpl2 [82229:82621](-) [81149:81568](-) ndhB [86820:87596](-) [85352:86107](-) ndhA [112129:112678](-) [110602:111140](-) ndhB_copy2 [127454:128230](+) [128943:129698](+) rpl2_copy2 [132429:132821](+) [133482:133913](+) trnK-UUU [3895:3931](-) [1373:1407](-) trnL-UAA [46496:46530](+) [47072:47121](+) trnV-UAC [50942:50980](-) [50320:50356](-) trnA-UGC [94136:94173](+) [94985:95019](+) trnA-UGC_copy2 [120877:120914](-) [120031:120065](-) trnI-GAU [121956:121997](-) [120979:121013](-) 2 gene(s) have 2 intron(s) Genes Exons rps12 [67353:67454](-) [88994:89225](-) [88425:88453](-) ycf3 [43658:43789](-) [42694:42921](-) [41811:41969](-)