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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

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.


Select 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
Armi1g00126 Sain12g00126 . Cati3g00169 Ccar2g02293 Cien5g03603 Cich4g04902 Lssa7g03832 Laca7g03132 . . . . Lomi2g04168 Enbr6g01671 Ecan3g00163 Soca5g05318 . . . . . . . . . . . . Pdy4g00891 . Hean6g02893 . Bial21g01676 . . . Hetu16g02415 . . . . . Fro2g01332 Fso6g01674 Ftr15g00588 Fra10g00404 Fli14g01558 . . . . . . . . . . . . . . . . . . . . . .
Armi1g00127 Sain12g00127 . Cati3g00170 Ccar2g02292 . . . . . . Pslu1g06395 . Lomi2g04167 . Ecan3g00162 Soca5g05316 . . . . . . Chmo13g01193 Chmo14g01096 Chmo15g01045 Chla6g05458 Chna2g01023 Cind3g01984 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00130 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00133 Sain12g00128 Ceso2g03241 Cati3g00171 Ccar2g02290 Cien5g03610 . Lssa7g03835 Laca7g03135 . . Pslu1g06409 . Lomi2g04166 . Ecan3g00161 Soca5g05310 . . Aary5g02683 . Aann4g00683 . . . . . Chna2g02176 . Pdy4g00894 . . . . . . . . . . . . . . . . . . . . . Hean11g01467 . . . . Hetu32g01094 Hetu31g01056 Hetu33g01156 Amtr02g06502 . . . . . . . . . Mimi17g00851
Armi1g00134 . . Cati3g00173 Ccar2g02289 . . . . . . . . Lomi2g04165 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00143 Sain12g00135 Ceso2g03256 Cati3g00180 Ccar2g02282 . . . . . . Pslu1g06426 . Lomi2g04155 . Ecan3g00151 Soca5g05277 . . . . . Chma7g07516 Chmo13g01208 Chmo14g01111 Chmo15g01059 Chla6g05427 Chna2g01033 Cind3g01966 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00144 Sain12g00136 Ceso2g03258 Cati3g00181 Ccar2g02281 . . . . . . Pslu1g06427 . Lomi2g04154 . Ecan3g00149 Soca5g05276 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00147 Sain12g00138 . Cati3g00183 Ccar2g02278 . . . . . . Pslu1g06429 . . . . . . . . . . Chma7g07517 Chmo13g01210 Chmo14g01113 Chmo15g01062 Chla6g05424 Chna2g01035 Cind3g01963 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00148 Sain12g00139 Ceso2g03260 Cati3g00184 Ccar2g02277 . . . . . . Pslu1g06430 . . . Ecan3g00147 Soca5g05273 . . . . . Chma7g07518 Chmo13g01211 Chmo14g01114 Chmo15g01063 Chla6g05422 Chna2g01036 Cind3g01962 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 46336541 46343839 - chr4g0763511 Aann4g00683 683
5 155645470 155651492 + Aargg5g26830.1 Aary5g02683 2683
2 117511366 117512283 - AtrifAMIRv0_Chr02g0160981 Amtr02g06502 6502
1 2545016 2548744 - AmiAMIRv0_Chr01g0001261 Armi1g00126 126
1 2564392 2564847 - AmiAMIRv0_Chr01g0001271 Armi1g00127 127
1 2636256 2637039 + AmiAMIRv0_Chr01g0001301 Armi1g00130 130
1 2665119 2672239 + AmiAMIRv0_Chr01g0001331 Armi1g00133 133
1 2675202 2675501 - AmiAMIRv0_Chr01g0001341 Armi1g00134 134
1 2774263 2788895 + AmiAMIRv0_Chr01g0001431 Armi1g00143 143
1 2791177 2792571 - AmiAMIRv0_Chr01g0001441 Armi1g00144 144
1 2839750 2845405 + AmiAMIRv0_Chr01g0001471 Armi1g00147 147
1 2845799 2849693 - AmiAMIRv0_Chr01g0001481 Armi1g00148 148
21 40344947 40348133 - g82161.t1 Bial21g01676 1676
3 1274301 1281213 - CtAH03T0009400.1 Cati3g00169 169
3 1286257 1286745 - CtAH03T0009500.1 Cati3g00170 170
3 1321462 1331165 + CtAH03T0009600.1 Cati3g00171 171
3 1336873 1337172 - CtAH03T0009800.1 Cati3g00173 173
3 1392312 1398400 + CtAH03T0010300.1 Cati3g00180 180
3 1400055 1402229 - CtAH03T0010400.1 Cati3g00181 181
3 1423836 1431596 + CtAH03T0010600.1 Cati3g00183 183
3 1432276 1435284 - CtAH03T0010700.1 Cati3g00184 184
2 69836568 69840479 + gnl|WGS:LEKV|Ccrd_011328.mRNA.1_mrna Ccar2g02277 2277
2 69840205 69846128 - gnl|WGS:LEKV|Ccrd_011329.mRNA.1_mrna Ccar2g02278 2278
2 69866900 69868806 + gnl|WGS:LEKV|Ccrd_011332.mRNA.1_mrna Ccar2g02281 2281
2 69870559 69885208 - gnl|WGS:LEKV|Ccrd_011333.mRNA.1_mrna Ccar2g02282 2282
2 69947438 69947737 + gnl|WGS:LEKV|Ccrd_011340.mRNA.1_mrna Ccar2g02289 2289
2 69952822 69960861 - gnl|WGS:LEKV|Ccrd_011341.mRNA.1_mrna Ccar2g02290 2290
2 69989101 69989553 + gnl|WGS:LEKV|Ccrd_011343.mRNA.1_mrna Ccar2g02292 2292
2 69992436 69997406 + gnl|WGS:LEKV|Ccrd_011344.mRNA.1_mrna Ccar2g02293 2293
2 81590248 81598258 + >KAJ9562736.1 Ceso2g03241 3241
2 81703264 81713517 + >KAJ9562782.1 Ceso2g03256 3256
2 81715632 81718361 - >KAJ9562785.1 Ceso2g03258 3258
2 81744076 81746853 - >KAJ9562783.1 Ceso2g03260 3260
6 213559809 213563364 + ClaG1_Chr06g0426691 Chla6g05422 5422
6 213571454 213574487 - ClaG1_Chr06g0426711 Chla6g05424 5424
6 213636529 213641198 - ClaG1_Chr06g0426741 Chla6g05427 5427
6 214779860 214780514 - ClaG1_Chr06g0427051 Chla6g05458 5458
7 258226967 258233408 + CmaNakai_Chr07g0698181 Chma7g07516 7516
7 258294187 258296213 + CmaNakai_Chr07g0698191 Chma7g07517 7517
7 258306693 258309888 - CmaNakai_Chr07g0698201 Chma7g07518 7518
13 62534953 62535621 - evm.model.scaffold_4060.162 Chmo13g01193 1193
13 63637430 63642476 + evm.model.scaffold_4060.93 Chmo13g01208 1208
13 63702623 63706279 + evm.model.scaffold_4060.90 Chmo13g01210 1210
13 63708563 63712496 - evm.model.scaffold_4060.89 Chmo13g01211 1211
14 57555871 57556539 - evm.model.scaffold_948.20 Chmo14g01096 1096
14 58719030 58724118 + evm.model.scaffold_948.71 Chmo14g01111 1111
14 58827582 58830449 + evm.model.scaffold_948.75 Chmo14g01113 1113
14 58838029 58841655 - evm.model.scaffold_948.77 Chmo14g01114 1114
15 60468861 60469529 - evm.model.scaffold_122.25 Chmo15g01045 1045
15 61029105 61034658 + evm.model.scaffold_1478.8 Chmo15g01059 1059
15 61153026 61156386 + evm.model.scaffold_1478.15 Chmo15g01062 1062
15 61157735 61162794 - evm.model.scaffold_1478.16 Chmo15g01063 1063
2 81142974 81143432 - Cn0815290 Chna2g01023 1023
2 82052544 82057810 + Cn0815450 Chna2g01033 1033
2 82329700 82335915 + Cn0815480 Chna2g01035 1035
2 82340308 82343729 - Cn0815490 Chna2g01036 1036
2 228956547 228957971 + Cn0816730 Chna2g02176 2176
4 139055466 139057474 - KAI3754037.1 Cich4g04902 4902
5 82462841 82465022 - KAI3510123.1 Cien5g03603 3603
5 82538073 82542136 + KAI3510130.1 Cien5g03610 3610
3 306020707 306025891 + D.indicum_Contig21_G00006.t1 Cind3g01962 1962
3 306027835 306031533 - D.indicum_Contig21_G00007.t1 Cind3g01963 1963
3 306256006 306261219 - D.indicum_Contig21_G00010.t1 Cind3g01966 1966
3 306976832 306977290 + D.indicum_Contig21_G00028.t1 Cind3g01984 1984
3 1299298 1302150 + XM_043767082.1 Ecan3g00147 147
3 1320445 1323206 + XM_043765837.1 Ecan3g00149 149
3 1393666 1400152 - XM_043764633.1 Ecan3g00151 151
3 1488348 1495986 - XM_043763639.1 Ecan3g00161 161
3 1531848 1532629 + XM_043766422.1 Ecan3g00162 162
3 1556449 1560990 + XM_043765406.1 Ecan3g00163 163
6 58926464 58929437 - evm.model.ctg9269.1 Enbr6g01671 1671
14 48187130 48189672 - FliAMIRv0_Chr14g0327031 Fli14g01558 1558
10 12645269 12647737 + FraAMIRv0_Chr10g0185691 Fra10g00404 404
2 16515777 16518199 - FroAMIRv0_Chr02g0027191 Fro2g01332 1332
6 38516672 38519175 - FsoAMIRv0_Chr06g0148391 Fso6g01674 1674
15 19087533 19090040 + FtrAMIRv0_Chr15g0424811 Ftr15g00588 588
6 104061700 104064510 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr06g0271391 Hean6g02893 2893
11 43087095 43094786 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0483081 Hean11g01467 1467
16 125242583 125244169 - >Htub.h1tg000461l.g422.t1 Hetu16g02415 2415
31 47602376 47608783 - >Htub.h2tg000229l.g7.t1 Hetu31g01056 1056
32 51677844 51685161 - >Htub.h1tg000795l.g345.t1 Hetu32g01094 1094
33 49530648 49536988 - >Htub.h1tg003380l.g193.t1 Hetu33g01156 1156
7 147795509 147798716 - CAI9295335.1 Laca7g03132 3132
7 147915390 147920172 + CAI9295338.1 Laca7g03135 3135
2 47162337 47164043 + LmiAMIRv0_Chr02g0086871 Lomi2g04154 4154
2 47164910 47170419 - LmiAMIRv0_Chr02g0086881 Lomi2g04155 4155
2 47202747 47203019 + LmiAMIRv0_Chr02g0086981 Lomi2g04165 4165
2 47206117 47212485 - LmiAMIRv0_Chr02g0086991 Lomi2g04166 4166
2 47231190 47231654 + LmiAMIRv0_Chr02g0087001 Lomi2g04167 4167
2 47238445 47240842 + LmiAMIRv0_Chr02g0087011 Lomi2g04168 4168
7 202963327 202966748 - >KAJ0195740.1 Lssa7g03832 3832
7 203258232 203262637 + >KAJ0195256.1 Lssa7g03835 3835
17 47749031 47762691 + KAD3067173.1 Mimi17g00851 851
4 16907377 16909511 - PdyAMIRv0_Chr04g0156981 Pdy4g00891 891
4 17004711 17011406 + PdyAMIRv0_Chr04g0157011 Pdy4g00894 894
1 43925699 43926142 - PluAMIRv0_Chr01g0063711 Pslu1g06395 6395
1 43989982 43995360 + PluAMIRv0_Chr01g0063851 Pslu1g06409 6409
1 44058276 44063771 + PluAMIRv0_Chr01g0064021 Pslu1g06426 6426
1 44065801 44067104 - PluAMIRv0_Chr01g0064031 Pslu1g06427 6427
1 44078736 44082428 + PluAMIRv0_Chr01g0064051 Pslu1g06429 6429
1 44082647 44084700 - PluAMIRv0_Chr01g0064061 Pslu1g06430 6430
12 2075054 2078707 - SinAMIRv0_Chr12g0356911 Sain12g00126 126
12 2089037 2089489 - SinAMIRv0_Chr12g0356921 Sain12g00127 127
12 2216421 2223287 + SinAMIRv0_Chr12g0356931 Sain12g00128 128
12 2401868 2413779 + SinAMIRv0_Chr12g0357001 Sain12g00135 135
12 2420578 2422760 - SinAMIRv0_Chr12g0357011 Sain12g00136 136
12 2443222 2448712 + SinAMIRv0_Chr12g0357031 Sain12g00138 138
12 2449397 2453185 - SinAMIRv0_Chr12g0357041 Sain12g00139 139
5 71685199 71687512 + augustus35848.t01 Soca5g05273 5273
5 71724585 71726939 + transfrag23834.t01 Soca5g05276 5276
5 71735431 71741779 - augustus35854.t01 Soca5g05277 5277
5 72996841 73003642 - transfrag23861.t01 Soca5g05310 5310
5 73060848 73061536 + transfrag23863.t01 Soca5g05316 5316
5 73070711 73075442 + transfrag23864.t02 Soca5g05318 5318
       
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