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, psbL, psbM, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl23, rpl23_copy2, rpl2_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps14, 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, 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 None Large subunit of ribosome rpl22 Small subunit of ribosome rps15 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 ycf15 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) [12698:12842](-) [11547:11956](-) clpP (3/3) [71318:71388](-) [70186:70477](-) [69337:69564](-) ndhA (1/2) [119676:120242](-) ndhB (2/2) [94747:95523](-) [93317:94072](-) ndhB_copy2 (2/2) [139494:140270](+) [140945:141700](+) petB (2/2) [74319:74324](+) [75091:75732](+) petD (2/2) [75956:75963](+) [76745:77219](+) rpl16 (2/2) [82039:82047](-) [80673:81074](-) rpl2 (1/2) [83900:84724](-) rpl2_copy2 (1/2) [150293:151117](+) rpoC1 (2/2) [22754:23185](-) [20391:21992](-) rps12 (3/3) [69080:69193](-) [96898:97129](-) [96337:96365](+) rps16 (2/2) [6130:6170](-) [5018:5231](-) ycf3 (3/3) [44630:44755](-) [43619:43846](-) [42712:42864](-) ### 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 psbL ACG rps19 GTG ndhD ACG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 127 genes (100 unique genes). Including: 82 protein-coding genes (77 are unique) 37 tRNA genes (19 are unique) 8 rRNA genes (4 are unique) Details are as follows: 82 protein-coding genes (77 are unique) Genes Length Location accD 1539 [56812:58350](+) atpA 1524 [9954:11477](-) atpB 1497 [52437:53933](-) atpE 405 [52036:52440](-) atpF 555 [12698:12842](-) [11547:11956](-) atpH 246 [13259:13504](-) atpI 744 [14180:14923](-) ccsA 972 [112778:113749](+) cemA 690 [60180:60869](+) clpP 591 [71318:71388](-) [70186:70477](-) [69337:69564](-) infA 177 [79223:79399](-) matK 1512 [2082:3593](-) ndhA 567 [119676:120242](-) ndhB 1533 [94747:95523](-) [93317:94072](-) ndhB_copy2 1533 [139494:140270](+) [140945:141700](+) ndhC 363 [50181:50543](-) ndhD 1503 [113941:115443](-) ndhE 306 [116194:116499](-) ndhF 2232 [108877:111108](-) ndhG 531 [116734:117264](-) ndhH 1182 [120244:121425](-) ndhI 513 [117586:118098](-) ndhJ 477 [48857:49333](-) ndhK 693 [49438:50130](-) petA 963 [61141:62103](+) petB 648 [74319:74324](+) [75091:75732](+) petD 483 [75956:75963](+) [76745:77219](+) petG 114 [65408:65521](+) petL 96 [65143:65238](+) petN 90 [27849:27938](+) psaA 2253 [39653:41905](-) psaB 2205 [37423:39627](-) psaC 246 [115588:115833](-) psaI 102 [58882:58983](+) psaJ 129 [66396:66524](+) psbA 1062 [527:1588](-) psbB 1527 [71813:73339](+) psbC 1422 [33822:35243](+) psbD 1062 [32813:33874](+) psbE 252 [63597:63848](-) psbF 120 [63469:63588](-) psbH 240 [73900:74139](+) psbI 111 [7784:7894](+) psbJ 123 [63057:63179](-) psbK 189 [7143:7331](+) psbL 117 [63325:63441](-) psbM 105 [29116:29220](-) psbN 132 [73684:73815](-) psbT 102 [73517:73618](+) psbZ 189 [35943:36131](+) rbcL 1428 [54702:56129](+) rpl14 366 [80165:80530](-) rpl16 411 [82039:82047](-) [80673:81074](-) rpl2 825 [83900:84724](-) rpl20 390 [67904:68293](-) rpl23 135 [84743:84877](-) rpl23_copy2 135 [150140:150274](+) rpl2_copy2 825 [150293:151117](+) rpl32 150 [111870:112019](+) rpl33 201 [66962:67162](+) rpl36 114 [78999:79112](-) rpoA 1011 [77316:78326](-) rpoB 3225 [23212:26436](-) rpoC1 2034 [22754:23185](-) [20391:21992](-) rpoC2 4110 [16091:20200](-) rps11 417 [78398:78814](-) rps12 375 [69080:69193](-) [96898:97129](-) [96337:96365](+) rps14 303 [36999:37301](-) rps16 255 [6130:6170](-) [5018:5231](-) rps18 306 [67341:67646](+) rps19 279 [83537:83815](-) rps2 711 [15145:15855](-) rps3 657 [82198:82854](-) rps4 606 [45464:46069](-) rps7 468 [95815:96282](-) rps7_copy2 468 [138735:139202](+) rps8 405 [79576:79980](-) ycf1 5487 [122097:127583](-) ycf2 6813 [85338:92150](+) ycf2_copy2 6813 [142867:149679](-) ycf3 507 [44630:44755](-) [43619:43846](-) [42712:42864](-) ycf4 555 [59319:59873](+) 37 tRNA genes (19 are unique) Genes Location trnH [9:82](-) trnK [4318:4354](-) [1802:1836](-) trnQ [6752:6823](+) trnS [7990:8077](+) trnR [9802:9873](+) trnC [27271:27341](+) trnD [30277:30350](+) trnY [30749:30832](-) trnE [30895:30967](-) trnT [31460:31531](+) trnM [31466:31524](+) trnS_copy2 [35495:35587](-) trnM_copy2 [36769:36843](-) trnS_copy3 [45030:45116](+) trnT_copy2 [46518:46590](-) trnL [47262:47296](+) [47683:47732](+) trnF [48060:48132](+) trnV [50964:51000](+) [51592:51629](+) trnM_copy3 [51795:51867](+) trnT_copy3 [51801:51859](+) trnW [65652:65725](-) trnP [65907:65980](-) trnI [85176:85249](-) trnL_copy2 [92670:92750](-) trnV_copy2 [98510:98581](+) trnI_copy2 [100592:100633](+) [101572:101606](+) trnA [101677:101714](+) [102533:102567](+) trnR_copy2 [106358:106431](+) trnN [107039:107110](-) trnL_copy3 [112625:112704](+) trnN_copy2 [127907:127978](+) trnR_copy3 [128586:128659](-) trnA_copy2 [133303:133340](-) [132450:132484](-) trnI_copy3 [134384:134425](-) [133411:133445](-) trnV_copy3 [136436:136507](-) trnL_copy4 [142267:142347](+) trnI_copy4 [149768:149841](+) 8 rRNA genes (4 are unique) Genes Location rrn16 [98809:100299](+) rrn23 [102724:105537](+) rrn4.5 [105635:105737](+) rrn5 [106000:106120](+) rrn5_copy2 [128897:129017](-) rrn4.5_copy2 [129280:129382](-) rrn23_copy2 [129480:132293](-) rrn16_copy2 [134718:136208](-) This genome has 18 genes with intron(s). Details are as follows: 15 gene(s) have 1 intron(s) Genes Exons rps16 [6130:6170](-) [5018:5231](-) atpF [12698:12842](-) [11547:11956](-) rpoC1 [22754:23185](-) [20391:21992](-) petB [74319:74324](+) [75091:75732](+) petD [75956:75963](+) [76745:77219](+) rpl16 [82039:82047](-) [80673:81074](-) ndhB [94747:95523](-) [93317:94072](-) ndhB_copy2 [139494:140270](+) [140945:141700](+) trnK [4318:4354](-) [1802:1836](-) trnL [47262:47296](+) [47683:47732](+) trnV [50964:51000](+) [51592:51629](+) trnI_copy2 [100592:100633](+) [101572:101606](+) trnA [101677:101714](+) [102533:102567](+) trnA_copy2 [133303:133340](-) [132450:132484](-) trnI_copy3 [134384:134425](-) [133411:133445](-) 3 gene(s) have 2 intron(s) Genes Exons ycf3 [44630:44755](-) [43619:43846](-) [42712:42864](-) rps12 [69080:69193](-) [96898:97129](-) [96337:96365](+) clpP [71318:71388](-) [70186:70477](-) [69337:69564](-)