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, rps12, rps12_copy2, 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 infA Conserved open reading frames ycf1, ycf15, ycf15_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 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 None 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) [26546:26690](+) [27384:27808](+) clpP (3/3) [70158:70228](-) [69061:69354](-) [68222:68447](-) ndhA (2/2) [118828:119389](-) [117264:117781](-) ndhB (2/2) [94020:94796](-) [92594:93349](-) ndhB_copy2 (2/2) [138492:139268](+) [139939:140694](+) petB (1/2) [73896:74576](+) petD (1/2) [75420:75944](+) rpl16 (1/2) [79405:79815](-) rpl2 (2/2) [83637:84027](-) [82530:82975](-) rpl2_copy2 (2/2) [149261:149651](+) [150313:150758](+) rpoC1 (2/2) [15856:16306](+) [17022:18676](+) rps12 (2/3) [67962:68075](-) [96158:96400](-) rps12_copy2 (2/3) [67962:68075](-) [136888:137130](+) rps16 (2/2) [6238:6277](-) [5150:5376](-) ycf3 (3/3) [43444:43567](-) [42511:42740](-) [41617:41769](-) ### 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 petB ATA rpl16 ATC rps19 GTG ndhD AAC 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 130 genes (110 unique genes). Including: 86 protein-coding genes (79 are unique) 36 tRNA genes (27 are unique) 8 rRNA genes (4 are unique) Details are as follows: 86 protein-coding genes (79 are unique) Genes Length Location accD 1452 [55436:56887](+) atpA 1527 [27873:29399](+) atpB 1491 [51205:52695](-) atpE 402 [50807:51208](-) atpF 570 [26546:26690](+) [27384:27808](+) atpH 246 [25923:26168](+) atpI 744 [24104:24847](+) ccsA 960 [111952:112911](+) cemA 690 [59555:60244](+) clpP 591 [70158:70228](-) [69061:69354](-) [68222:68447](-) infA 234 [77974:78207](-) matK 1521 [2039:3559](-) ndhA 1080 [118828:119389](-) [117264:117781](-) ndhB 1533 [94020:94796](-) [92594:93349](-) ndhB_copy2 1533 [138492:139268](+) [139939:140694](+) ndhC 363 [48983:49345](-) ndhD 1500 [113176:114675](-) ndhE 306 [115285:115590](-) ndhF 2229 [107451:109679](-) ndhG 531 [115802:116332](-) ndhH 1182 [119391:120572](-) ndhI 501 [116685:117185](-) ndhJ 477 [47674:48150](-) ndhK 678 [48254:48931](-) petA 963 [60473:61435](+) petB 681 [73896:74576](+) petD 525 [75420:75944](+) petG 114 [64534:64647](+) petL 96 [64273:64368](+) petN 90 [9977:10066](+) psaA 2253 [38701:40953](-) psaB 2205 [36471:38675](-) psaC 246 [114790:115035](-) psaI 111 [57633:57743](+) psaJ 135 [65407:65541](+) psbA 1062 [467:1528](-) psbB 1527 [70678:72204](+) psbC 1422 [32986:34407](+) psbD 1062 [31977:33038](+) psbE 252 [62739:62990](-) psbF 120 [62610:62729](-) psbH 222 [72812:73033](+) psbI 111 [8193:8303](+) psbJ 123 [62200:62322](-) psbK 180 [7603:7782](+) psbM 105 [10577:10681](-) psbN 132 [72578:72709](-) psbT 102 [72403:72504](+) psbZ 189 [35060:35248](+) rbcL 1431 [53423:54853](+) rpl14 369 [78927:79295](-) rpl16 411 [79405:79815](-) rpl2 837 [83637:84027](-) [82530:82975](-) rpl20 381 [66844:67224](-) rpl22 474 [81649:82122](-) rpl23 282 [84046:84327](-) rpl23_copy2 282 [148961:149242](+) rpl2_copy2 837 [149261:149651](+) [150313:150758](+) rpl32 165 [110723:110887](+) rpl33 201 [65911:66111](+) rpl36 114 [77746:77859](-) rpoA 1008 [76142:77149](-) rpoB 3183 [12652:15834](+) rpoC1 2106 [15856:16306](+) [17022:18676](+) rpoC2 4146 [18778:22923](+) rps11 411 [77230:77640](-) rps12 357 [67962:68075](-) [96158:96400](-) rps12_copy2 357 [67962:68075](-) [136888:137130](+) rps14 303 [36035:36337](-) rps15 279 [120664:120942](-) rps16 267 [6238:6277](-) [5150:5376](-) rps18 306 [66290:66595](+) rps19 279 [82189:82467](-) rps2 711 [23178:23888](+) rps3 657 [81008:81664](-) rps4 606 [44627:45232](-) rps7 468 [95087:95554](-) rps7_copy2 468 [137734:138201](+) rps8 405 [78329:78733](-) ycf1 5088 [121341:126428](-) ycf15 192 [97356:97547](-) ycf15_copy2 192 [135741:135932](+) ycf2 6849 [84678:91526](+) ycf2_copy2 6849 [141762:148610](-) ycf3 507 [43444:43567](-) [42511:42740](-) [41617:41769](-) ycf4 555 [58139:58693](+) 36 tRNA genes (27 are unique) Genes Location trnH-GUG [1:72](-) trnK-UUU [4309:4346](-) [1738:1773](-) trnQ-UUG [7174:7245](-) trnS-GCU [8444:8531](-) trnC-GCA [9287:9357](+) trnD-GUC [11333:11406](-) trnY-GUA [11520:11603](-) trnE-UUC [11783:11854](-) trnR-UCU [29527:29598](-) trnS-CGA [30553:30583](-) [29800:29859](-) trnT-GGU [30724:30794](+) trnS-UGA [34639:34721](-) trnG-GCC [35557:35627](+) trnM-CAU [35807:35880](-) trnS-GGA [44229:44315](+) trnT-UGU [45517:45589](-) trnL-UAA [46148:46182](+) [46629:46678](+) trnF-GAA [47032:47104](+) trnM-CAU_copy2 [50520:50592](+) trnW-CCA [64771:64844](-) trnP-UGG [65013:65086](-) trnM-CAU_copy3 [84493:84566](-) trnL-CAA [91946:92026](-) trnV-GAC [98247:98318](+) trnI [100329:100361](+) [101142:101181](+) trnA-UGC [101246:101282](+) [102106:102141](+) trnR-ACG [105921:105994](+) trnN-GUU [106461:106532](-) trnL-UAG [111765:111844](+) trnN-GUU_copy2 [126756:126827](+) trnR-ACG_copy2 [127294:127367](-) trnA-UGC_copy2 [132006:132042](-) [131147:131182](-) trnI_copy2 [132927:132959](-) [132107:132146](-) trnV-GAC_copy2 [134970:135041](-) trnL-CAA_copy2 [141262:141342](+) trnM-CAU_copy4 [148722:148795](+) 8 rRNA genes (4 are unique) Genes Location rrn16S [98545:100035](+) rrn23S [102294:105103](+) rrn4.5S [105202:105466](-) rrn5S [105550:105680](+) rrn5S_copy2 [127608:127738](-) rrn4.5S_copy2 [127822:128086](+) rrn23S_copy2 [128185:130994](-) rrn16S_copy2 [133253:134743](-) This genome has 19 genes with intron(s). Details are as follows: 17 gene(s) have 1 intron(s) Genes Exons rps12 [67962:68075](-) [96158:96400](-) rps16 [6238:6277](-) [5150:5376](-) rpoC1 [15856:16306](+) [17022:18676](+) atpF [26546:26690](+) [27384:27808](+) rps12_copy2 [67962:68075](-) [136888:137130](+) rpl2 [83637:84027](-) [82530:82975](-) ndhB [94020:94796](-) [92594:93349](-) ndhA [118828:119389](-) [117264:117781](-) ndhB_copy2 [138492:139268](+) [139939:140694](+) rpl2_copy2 [149261:149651](+) [150313:150758](+) trnK-UUU [4309:4346](-) [1738:1773](-) trnS-CGA [30553:30583](-) [29800:29859](-) trnL-UAA [46148:46182](+) [46629:46678](+) trnI [100329:100361](+) [101142:101181](+) trnA-UGC [101246:101282](+) [102106:102141](+) trnA-UGC_copy2 [132006:132042](-) [131147:131182](-) trnI_copy2 [132927:132959](-) [132107:132146](-) 2 gene(s) have 2 intron(s) Genes Exons ycf3 [43444:43567](-) [42511:42740](-) [41617:41769](-) clpP [70158:70228](-) [69061:69354](-) [68222:68447](-)