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Asteraceae Genomic Research Platform

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Hierarchical alignments with the Arctium lappa genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Arctium lappa as a reference, and by comparing homologous gene locus maps and Ks values between Arctium lappa and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 74×31,441 macro-matrices.


Armi_1 Sain_1 Ceso_1 Cati_1 Ccar_1 Cien_1 Cich_1 Lssa_1 Laca_1 Tako_1 Tamo_1 Pslu_1 Lomi_1 Lomi_2 Enbr_1 Ecan_1 Soca_1 Glco_1 Artr_1 Aary_1 Aary_2 Aann_1 Chma_1 Chmo_1 Chmo_2 Chmo_3 Chla_1 Chna_1 Cind_1 Pdy_1 Cobi_1 Hean_1 Bial_1 Bial_2 Dapi_1 Dapi_2 Hetu_1 Hetu_2 Hetu_3 Amtr_1 Smso_1 Smso_2 Taer_1 Fro_1 Fso_1 Ftr_1 Fra_1 Fli_1 Stre_1 Mimi_1 Cobi_2 Hean_2 Bial_3 Bial_4 Dapi_3 Dapi_4 Hetu_4 Hetu_5 Hetu_6 Amtr_2 Smso_3 Smso_4 Taer_2 Fro_2 Fso_2 Ftr_2 Fra_2 Fli_2 Stre_2 Mimi_2
Armi1g00971 Sain12g00769 . Cati3g01006 Ccar2g01798 Cien5g03034 Cich4g04095 Lssa7g03049 Laca7g02486 Tako4g04535 Tamo4g03297 Pslu1g21807 Lomi1g00103 Lomi2g04556 Enbr6g02985 Ecan3g01865 Soca5g03024 . . . . Aann4g01577 . . . . . . . Pdy4g00148 . . . . . . . . . . . . . . . . . . . . Cobi4g03266 Hean16g00923 Bial4g03579 . Dapi7g00162 Dapi23g00179 Hetu48g00814 Hetu46g00902 Hetu47g00898 Amtr01g04192 Smso7g00176 Smso29g00217 Taer1g05649 . Fso2g00204 Ftr4g03789 Fra11g02633 Fli1g00165 Stre6g00209 .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00975 Sain12g00770 . . Ccar2g01797 Cien5g03033 Cich4g04094 Lssa7g03048 Laca7g02484 Tako4g04537 . Pslu1g21809 Lomi1g00102 Lomi2g04557 . Ecan3g01864 Soca5g03025 Glco3g00417 Artr3g12577 . . Aann4g01578 . . . . . . . Pdy4g00146 . Hean4g04526 . . Dapi16g02066 Dapi23g00107 Hetu11g00067 Hetu12g00070 Hetu10g00097 Amtr06g04371 . Smso26g02072 Taer1g05715 . . Ftr4g03836 Fra11g02757 Fli1g00112 Stre6g00150 . . . . . . . . . . . . . . . . . . . . .
Armi1g00976 Sain12g00775 Ceso2g01661 Cati3g01010 Ccar2g01796 . . Lssa7g03045 Laca7g02480 . . Pslu1g21811 Lomi1g00101 Lomi2g04558 . Ecan3g01863 Soca5g03026 Glco3g00418 . . . Aann4g01580 Chma7g09056 . Chmo14g00349 . Chla6g06671 Chna2g00162 Cind3g04242 Pdy4g00144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00979 Sain12g00780 . . . . . . . . . Pslu1g21812 Lomi1g00100 Lomi2g04559 . Ecan3g01859 Soca5g03027 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00984 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00985 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00987 Sain12g00790 . . Ccar2g01794 . . . . . . Pslu1g21820 Lomi1g00099 Lomi2g04562 . Ecan3g01857 Soca5g03029 . . . . . . Chmo13g00315 Chmo14g00337 . Chla6g06686 Chna2g00153 Cind3g04256 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00988 Sain12g00791 . Cati3g01011 Ccar2g01793 Cien5g03025 Cich4g04080 Lssa7g03035 . . Tamo4g03322 Pslu1g21821 Lomi1g00098 Lomi2g04563 . Ecan3g01856 Soca5g03030 Glco3g00430 Artr3g12626 . . Aann4g01596 . Chmo13g00316 Chmo14g00336 . Chla6g06687 Chna2g00152 Cind3g04257 . . Hean4g04531 . . Dapi16g02068 Dapi23g00104 . . . Amtr06g04386 . Smso26g02077 . . . . . . Stre6g00144 Mimi9g01584 . . . . . . . . . . . . . . . . . . . .
Armi1g00989 Sain12g00794 Ceso2g01664 Cati3g01013 Ccar2g01791 . Cich4g04079 Lssa7g03034 . Tako4g04546 Tamo4g03323 Pslu1g21822 Lomi1g00097 . . Ecan3g01855 Soca5g03031 Glco3g00431 . . . . . Chmo13g00318 Chmo14g00335 . Chla6g06688 Chna2g00151 Cind3g04258 Pdy4g00129 . Hean4g04533 . . . . . . . Amtr06g04390 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
First Page 71 of 3145 Last
Gene_GFF
Chromosome Start End Strand Old_gene Gene Num
4 75525283 75528398 - chr4g0789471 Aann4g01577 1577
4 75553176 75554985 + chr4g0789491 Aann4g01578 1578
4 75585356 75589409 - chr4g0789571 Aann4g01580 1580
4 76047594 76048657 - chr4g0789961 Aann4g01596 1596
1 112945878 112946704 + AtrifAMIRv0_Chr01g0041921 Amtr01g04192 4192
6 97056208 97057845 + AtrifAMIRv0_Chr06g0431961 Amtr06g04371 4371
6 97359391 97361976 + AtrifAMIRv0_Chr06g0432111 Amtr06g04386 4386
6 97384287 97387807 + AtrifAMIRv0_Chr06g0432151 Amtr06g04390 4390
1 26219433 26220399 - AmiAMIRv0_Chr01g0009711 Armi1g00971 971
1 26299033 26300190 + AmiAMIRv0_Chr01g0009751 Armi1g00975 975
1 26394677 26395627 - AmiAMIRv0_Chr01g0009761 Armi1g00976 976
1 26554076 26555422 + AmiAMIRv0_Chr01g0009791 Armi1g00979 979
1 26727800 26728027 - AmiAMIRv0_Chr01g0009841 Armi1g00984 984
1 26793667 26793900 - AmiAMIRv0_Chr01g0009851 Armi1g00985 985
1 26832384 26833259 + AmiAMIRv0_Chr01g0009871 Armi1g00987 987
1 26833578 26833961 - AmiAMIRv0_Chr01g0009881 Armi1g00988 988
1 26837890 26839364 + AmiAMIRv0_Chr01g0009891 Armi1g00989 989
3 432571888 432573012 + AtridAMIRv0_Chr03g0433131 Artr3g12577 12577
3 434688618 434688995 - AtridAMIRv0_Chr03g0433621 Artr3g12626 12626
4 80970600 80971223 + g43418.t1 Bial4g03579 3579
3 14020901 14022014 - CtAH03T0072400.1 Cati3g01006 1006
3 14114854 14119998 - CtAH03T0072700.1 Cati3g01010 1010
3 14217683 14220522 - CtAH03T0072800.1 Cati3g01011 1011
3 14246326 14248348 + CtAH03T0073000.1 Cati3g01013 1013
2 63944252 63945362 - gnl|WGS:LEKV|Ccrd_010837.mRNA.1_mrna Ccar2g01791 1791
2 63970888 63971274 + gnl|WGS:LEKV|Ccrd_010839.mRNA.1_mrna Ccar2g01793 1793
2 63971570 63972457 - gnl|WGS:LEKV|Ccrd_010840.mRNA.1_mrna Ccar2g01794 1794
2 64041701 64042853 + gnl|WGS:LEKV|Ccrd_010842.mRNA.1_mrna Ccar2g01796 1796
2 64055599 64056792 + gnl|WGS:LEKV|Ccrd_010843.mRNA.1_mrna Ccar2g01797 1797
2 64082603 64084039 + gnl|WGS:LEKV|Ccrd_010844.mRNA.1_mrna Ccar2g01798 1798
2 35968961 35976235 - >KAJ9561075.1 Ceso2g01661 1661
2 36091765 36093896 + >KAJ9561216.1 Ceso2g01664 1664
6 272392948 272396346 - ClaG1_Chr06g0439181 Chla6g06671 6671
6 273216231 273217444 + ClaG1_Chr06g0439331 Chla6g06686 6686
6 273217849 273218577 - ClaG1_Chr06g0439341 Chla6g06687 6687
6 273272722 273274141 + ClaG1_Chr06g0439351 Chla6g06688 6688
7 304732780 304735462 - CmaNakai_Chr07g0713581 Chma7g09056 9056
13 13871126 13873109 + evm.model.scaffold_927.45 Chmo13g00315 315
13 13873249 13873626 - evm.model.scaffold_927.46 Chmo13g00316 316
13 13891622 13892809 + evm.model.scaffold_927.48 Chmo13g00318 318
14 14057599 14058734 - evm.model.scaffold_5211.62 Chmo14g00335 335
14 14066499 14066876 + evm.model.scaffold_5211.63 Chmo14g00336 336
14 14067017 14068998 - evm.model.scaffold_5211.64 Chmo14g00337 337
14 14690132 14692584 + evm.model.scaffold_124.146 Chmo14g00349 349
2 9354989 9356300 - Cn1268670 Chna2g00151 151
2 9362378 9362755 + Cn1268660 Chna2g00152 152
2 9363574 9364464 - Cn1268650 Chna2g00153 153
2 10321005 10323473 + Cn1268370 Chna2g00162 162
4 119438937 119446531 - KAI3753214.1 Cich4g04079 4079
4 119462401 119462784 + KAI3753215.1 Cich4g04080 4080
4 120179714 120180910 - KAI3753229.1 Cich4g04094 4094
4 120242846 120243483 + KAI3753230.1 Cich4g04095 4095
5 72430204 72430587 + KAI3509545.1 Cien5g03025 3025
5 72615274 72616470 - KAI3509553.1 Cien5g03033 3033
5 72649161 72649797 + KAI3509554.1 Cien5g03034 3034
3 364745637 364748080 - D.indicum_Contig50_G00058.t1 Cind3g04242 4242
3 365449733 365450623 + D.indicum_Contig50_G00072.t1 Cind3g04256 4256
3 365451441 365451818 - D.indicum_Contig50_G00073.t1 Cind3g04257 4257
3 365464265 365465396 + D.indicum_Contig50_G00074.t1 Cind3g04258 4258
4 82441805 82442442 + h2tg000064l_1.g27481.t1 Cobi4g03266 3266
7 3271376 3272225 - h1tg000136l.g124502.t1 Dapi7g00162 162
16 81807827 81808987 + h1tg000026l.g57019.t1 Dapi16g02066 2066
16 81932093 81932470 - h1tg000026l.g57021.t1 Dapi16g02068 2068
23 2149074 2149442 + h2tg000064l.g12442.t1 Dapi23g00104 104
23 2275078 2276310 - h2tg000064l.g12445.t1 Dapi23g00107 107
23 3771167 3771858 - h2tg000064l.g12517.t1 Dapi23g00179 179
3 29622602 29623812 - XM_043766886.1 Ecan3g01855 1855
3 29625957 29626619 + XM_043765250.1 Ecan3g01856 1856
3 29626836 29627940 - XM_043765249.1 Ecan3g01857 1857
3 29646464 29648300 - XM_043765896.1 Ecan3g01859 1859
3 29668380 29669993 + XM_043763134.1 Ecan3g01863 1863
3 29674833 29676583 - XM_043763133.1 Ecan3g01864 1864
3 29684684 29685911 + XM_043766219.1 Ecan3g01865 1865
6 109518422 109519361 + evm.model.ctg1961.6 Enbr6g02985 2985
1 1976247 1977539 - FliAMIRv0_Chr01g0001101 Fli1g00112 112
1 3342009 3342682 - FliAMIRv0_Chr01g0001601 Fli1g00165 165
11 79848144 79848813 + FraAMIRv0_Chr11g0226551 Fra11g02633 2633
11 81057780 81059090 - FraAMIRv0_Chr11g0227791 Fra11g02757 2757
2 2873515 2874192 + FsoAMIRv0_Chr02g0030231 Fso2g00204 204
4 121818365 121819040 + FtrAMIRv0_Chr04g0132231 Ftr4g03789 3789
4 122376783 122378087 + FtrAMIRv0_Chr04g0132701 Ftr4g03836 3836
3 22477381 22478502 + GcoAMIRv0_Chr03g0160461 Glco3g00417 417
3 22614154 22616187 - GcoAMIRv0_Chr03g0160471 Glco3g00418 418
3 23745784 23746158 - GcoAMIRv0_Chr03g0160591 Glco3g00430 430
3 23758264 23759302 + GcoAMIRv0_Chr03g0160601 Glco3g00431 431
4 206870967 206872154 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191721 Hean4g04526 4526
4 206921716 206922402 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191781 Hean4g04531 4531
4 206926954 206927256 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191801 Hean4g04533 4533
16 29034592 29035985 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0733391 Hean16g00923 923
10 3617667 3618848 - >Htub.h1tg003188l.g198.t1 Hetu10g00097 97
11 2938211 2939392 - >Htub.h1tg000030l.g120.t1 Hetu11g00067 67
12 3242461 3243642 - >Htub.h1tg000754l.g273.t1 Hetu12g00070 70
46 45276168 45276986 + >Htub.h1tg000086l.g509.t1 Hetu46g00902 902
47 49875056 49875868 + >Htub.h1tg003760l.g412.t1 Hetu47g00898 898
48 42401458 42402424 + >Htub.h1tg002973l.g340.t1 Hetu48g00814 814
7 118019989 118021831 + CAI9294655.1 Laca7g02480 2480
7 118104911 118106125 - CAI9294659.1 Laca7g02484 2484
7 118294191 118295897 + CAI9294661.1 Laca7g02486 2486
1 923878 924792 - LmiAMIRv0_Chr01g0000971 Lomi1g00097 97
1 926516 926884 + LmiAMIRv0_Chr01g0000981 Lomi1g00098 98
1 927623 928513 - LmiAMIRv0_Chr01g0000991 Lomi1g00099 99
1 935882 937195 - LmiAMIRv0_Chr01g0001001 Lomi1g00100 100
1 953303 954516 + LmiAMIRv0_Chr01g0001011 Lomi1g00101 101
1 965436 966596 - LmiAMIRv0_Chr01g0001021 Lomi1g00102 102
1 969733 970361 + LmiAMIRv0_Chr01g0001031 Lomi1g00103 103
2 50552378 50553193 - LmiAMIRv0_Chr02g0090891 Lomi2g04556 4556
2 50557409 50558572 + LmiAMIRv0_Chr02g0090901 Lomi2g04557 4557
2 50562091 50563252 - LmiAMIRv0_Chr02g0090911 Lomi2g04558 4558
2 50575451 50576761 + LmiAMIRv0_Chr02g0090921 Lomi2g04559 4559
2 50586938 50587828 + LmiAMIRv0_Chr02g0090951 Lomi2g04562 4562
2 50588692 50589072 - LmiAMIRv0_Chr02g0090961 Lomi2g04563 4563
7 159719686 159720884 - >KAJ0196410.1 Lssa7g03034 3034
7 159756121 159756504 + >KAJ0194911.1 Lssa7g03035 3035
7 160783443 160784694 + >KAJ0196500.1 Lssa7g03045 3045
7 160890089 160891303 - >KAJ0194858.1 Lssa7g03048 3048
7 161031921 161033568 + >KAJ0197390.1 Lssa7g03049 3049
9 59408002 59408809 - KAD5318319.1 Mimi9g01584 1584
4 2158124 2159592 + PdyAMIRv0_Chr04g0149371 Pdy4g00129 129
4 2315864 2316758 + PdyAMIRv0_Chr04g0149521 Pdy4g00144 144
4 2360082 2361293 - PdyAMIRv0_Chr04g0149541 Pdy4g00146 146
4 2375393 2376298 + PdyAMIRv0_Chr04g0149561 Pdy4g00148 148
1 156618474 156619326 - PluAMIRv0_Chr01g0217111 Pslu1g21807 21807
1 156640975 156642129 + PluAMIRv0_Chr01g0217131 Pslu1g21809 21809
1 156651065 156652220 - PluAMIRv0_Chr01g0217151 Pslu1g21811 21811
1 156671708 156673021 + PluAMIRv0_Chr01g0217161 Pslu1g21812 21812
1 156691831 156692721 + PluAMIRv0_Chr01g0217241 Pslu1g21820 21820
1 156693482 156693844 - PluAMIRv0_Chr01g0217251 Pslu1g21821 21821
1 156696030 156696970 + PluAMIRv0_Chr01g0217261 Pslu1g21822 21822
12 18672800 18674449 - SinAMIRv0_Chr12g0363331 Sain12g00769 769
12 18773295 18774467 + SinAMIRv0_Chr12g0363341 Sain12g00770 770
12 18874928 18883918 - SinAMIRv0_Chr12g0363391 Sain12g00775 775
12 19135854 19137185 + SinAMIRv0_Chr12g0363441 Sain12g00780 780
12 19489616 19490494 + SinAMIRv0_Chr12g0363541 Sain12g00790 790
12 19490987 19491358 - SinAMIRv0_Chr12g0363551 Sain12g00791 791
12 19567861 19569203 + SinAMIRv0_Chr12g0363581 Sain12g00794 794
7 3111250 3112237 + KAI3809756.1 Smso7g00176 176
26 47542108 47543388 + KAI3695557.1 Smso26g02072 2072
26 47761717 47762082 - KAI3695562.1 Smso26g02077 2077
29 3436397 3440256 + KAI3675211.1 Smso29g00217 217
5 33737918 33739021 - transfrag28643.t01 Soca5g03024 3024
5 33745361 33746989 + transfrag28642.t01 Soca5g03025 3025
5 33762176 33763559 - genewise36790.t01 Soca5g03026 3026
5 33781528 33785530 + transfrag28641.t01 Soca5g03027 3027
5 33825992 33826939 + augustus42878.t01 Soca5g03029 3029
5 33827361 33828090 - transfrag28638.t01 Soca5g03030 3030
5 33830661 33833367 + genewise36784.t01 Soca5g03031 3031
6 3576484 3577695 + Streb.6G001440.1 Stre6g00144 144
6 3764783 3766401 - Streb.6G001500.1 Stre6g00150 150
6 5480114 5481779 - Streb.6G002090.1 Stre6g00209 209
1 51420712 51421347 + >KAK1439827.1 Taer1g05649 5649
1 51912959 51914389 + >KAK1439891.1 Taer1g05715 5715
4 105083623 105084854 - TkA04G417350.1 Tako4g04535 4535
4 105251490 105252680 + TkA04G418130.1 Tako4g04537 4537
4 105664150 105673344 + TkA04G419460.2 Tako4g04546 4546
4 64110325 64111681 - TbA04G017080.1 Tamo4g03297 3297
4 64612818 64613207 - TbA04G016500.1 Tamo4g03322 3322
4 64616454 64617520 + TbA04G016490.1 Tamo4g03323 3323
       
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