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Asteraceae Genomic Research Platform

Gene Search

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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
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00411 . Ceso2g03453 . Ccar2g02063 Cien5g03260 Cich4g04548 Lssa7g03500 Laca7g02846 Tako4g03869 . Pslu1g21191 . . . Ecan3g02195 Soca5g02672 Glco3g01216 . . . . . Chmo13g00828 Chmo14g00754 Chmo15g00720 Chla6g05900 Chna2g00689 Cind3g04048 . . . . . . . . . . . . . . . . . . . . . Cobi4g03054 Hean11g00908 Bial4g03341 Bial16g02724 Dapi7g00356 . . Hetu31g00669 . . Smso7g00029 . Taer1g05463 Fro12g02360 Fso2g00271 Ftr4g03649 Fra11g02493 Fli1g00309 . .
Armi1g00412 Sain12g00374 Ceso2g03454 Cati3g00450 . Cien5g03257 Cich4g04545 Lssa7g03499 Laca7g02845 Tako4g03874 Tamo4g02812 Pslu1g21194 . Lomi2g04339 . . . . Artr3g11470 . . Aann4g01071 . Chmo13g00827 Chmo14g00753 Chmo15g00718 Chla6g05901 Chna2g00688 Cind3g01698 . . . . . . . . . . . . . . . . . . . . . Cobi4g03056 Hean11g00906 Bial4g03342 Bial16g02725 Dapi7g00355 . . Hetu31g00667 . Amtr02g06924 Smso7g00053 . Taer1g05464 Fro12g02361 Fso2g00270 Ftr4g03651 Fra11g02494 Fli1g00308 . .
Armi1g00413 Sain12g00375 Ceso2g03455 Cati3g00451 . Cien5g03256 Cich4g04544 Lssa7g03497 . Tako4g03876 . . Lomi1g00329 . . Ecan3g02194 Soca5g02427 . . . . . . . . . . . . Pdy4g00551 . . . . . . . . . . . . . . . . . . . . Cobi4g03058 Hean11g00904 Bial4g03343 Bial16g02726 Dapi7g00352 Dapi23g00376 . . . . Smso7g00054 Smso29g00036 . . . . . . Stre6g00454 .
Armi1g00418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00419 Sain12g00376 Ceso2g03457 Cati3g00452 . Cien5g03255 Cich4g04543 Lssa7g03495 Laca7g02840 Tako4g03879 Tamo4g02814 Pslu1g21199 . Lomi2g04340 . . . . Artr3g11477 . . Aann4g01075 . . . . . . . Pdy4g00550 . . . . . . . . . . . . . . . . . . . . Cobi4g03061 Hean11g00900 Bial4g03344 Bial16g02727 Dapi7g00349 Dapi23g00375 . . Hetu33g00796 Amtr02g06925 . Smso29g00038 Taer1g05466 Fro12g02363 Fso2g00269 Ftr4g03652 Fra11g02496 Fli1g00305 . Mimi17g00448
Armi1g00422 Sain12g00378 Ceso2g03459 Cati3g00455 . Cien5g03253 Cich4g04541 Lssa7g03494 Laca7g02839 Tako4g03881 . . Lomi1g00328 . . Ecan3g02193 Soca5g02428 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cobi4g03062 Hean11g00892 Bial4g03345 Bial16g02728 Dapi7g00347 Dapi23g00372 . . . Amtr02g06926 . Smso29g00040 . . . . . . Stre6g00453 Mimi17g00443
Armi1g00423 Sain12g00379 Ceso2g03460 Cati3g00456 . Cien5g03252 Cich4g04539 Lssa7g03492 Laca7g02838 Tako4g03893 Tamo4g02817 Pslu1g21200 . . . . . . Artr3g11480 . . Aann4g01076 . Chmo13g00823 Chmo14g00752 Chmo15g00713 Chla6g05903 Chna2g00686 Cind3g01697 Pdy4g00548 . . . . . . . . . . . . . . . . . . . . Cobi4g03063 Hean11g00890 Bial4g03346 Bial16g02729 . . Hetu32g00705 . Hetu33g00795 . . Smso29g00041 . . . . . . . .
Armi1g00425 Sain12g00380 Ceso2g03461 Cati3g00457 . Cien5g03249 Cich4g04536 Lssa7g03490 Laca7g02834 Tako4g03898 Tamo4g02821 Pslu1g21202 Lomi1g00327 . . Ecan3g02192 Soca5g02429 . Artr3g11486 . . Aann4g01077 . . . . . . . Pdy4g00546 . . . . . . . . . . . . . . . . . . . . Cobi4g03065 Hean11g00886 Bial4g03352 Bial16g02737 . . Hetu32g00697 Hetu31g00661 Hetu33g00793 . . . . . . . . . . .
Armi1g00427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 59054200 59055284 - chr4g0774611 Aann4g01071 1071
4 59127904 59131556 - chr4g0774681 Aann4g01075 1075
4 59158948 59163084 - chr4g0774701 Aann4g01076 1076
4 59197931 59202670 - chr4g0774731 Aann4g01077 1077
2 126128555 126129634 - AtrifAMIRv0_Chr02g0165201 Amtr02g06924 6924
2 126149580 126152507 - AtrifAMIRv0_Chr02g0165211 Amtr02g06925 6925
2 126188139 126189491 - AtrifAMIRv0_Chr02g0165221 Amtr02g06926 6926
1 7737995 7740717 - AmiAMIRv0_Chr01g0004111 Armi1g00411 411
1 7768574 7769896 - AmiAMIRv0_Chr01g0004121 Armi1g00412 412
1 7776844 7778157 - AmiAMIRv0_Chr01g0004131 Armi1g00413 413
1 7835696 7837959 - AmiAMIRv0_Chr01g0004181 Armi1g00418 418
1 7838912 7840294 - AmiAMIRv0_Chr01g0004191 Armi1g00419 419
1 7858665 7859969 - AmiAMIRv0_Chr01g0004221 Armi1g00422 422
1 7932087 7933400 + AmiAMIRv0_Chr01g0004231 Armi1g00423 423
1 7983759 7985072 + AmiAMIRv0_Chr01g0004251 Armi1g00425 425
1 8036371 8037028 + AmiAMIRv0_Chr01g0004271 Armi1g00427 427
3 388262210 388263571 + AtridAMIRv0_Chr03g0422061 Artr3g11470 11470
3 388432463 388433797 - AtridAMIRv0_Chr03g0422131 Artr3g11477 11477
3 388600743 388601480 - AtridAMIRv0_Chr03g0422161 Artr3g11480 11480
3 388696875 388698236 - AtridAMIRv0_Chr03g0422221 Artr3g11486 11486
4 76231878 76233185 + g43180.t1 Bial4g03341 3341
4 76243815 76244888 + g43181.t1 Bial4g03342 3342
4 76271921 76273254 + g43182.t1 Bial4g03343 3343
4 76299058 76300368 + g43183.t1 Bial4g03344 3344
4 76373356 76374696 - g43184.t1 Bial4g03345 3345
4 76409747 76410838 - g43185.t1 Bial4g03346 3346
4 76581803 76583131 - g43191.t1 Bial4g03352 3352
16 70098476 70099576 + g127476.t1 Bial16g02724 2724
16 70133009 70134076 + g127475.t1 Bial16g02725 2725
16 70145616 70145981 + g127474.t1 Bial16g02726 2726
16 70153241 70153909 + g127473.t1 Bial16g02727 2727
16 70163506 70164585 + g127472.t1 Bial16g02728 2728
16 70170211 70171290 + g127471.t1 Bial16g02729 2729
16 70348588 70349922 - g127463.t1 Bial16g02737 2737
3 3862668 3871501 - CtAH03T0032000.1 Cati3g00450 450
3 3891377 3896847 - CtAH03T0032100.1 Cati3g00451 451
3 3900777 3902961 + CtAH03T0032200.1 Cati3g00452 452
3 3972486 3973805 + CtAH03T0032400.1 Cati3g00455 455
3 3977481 3988852 - CtAH03T0032500.1 Cati3g00456 456
3 3992572 4010666 - CtAH03T0032600.1 Cati3g00457 457
2 67754952 67773425 + gnl|WGS:LEKV|Ccrd_011110.mRNA.1_mrna Ccar2g02063 2063
2 85362730 85366939 - >KAJ9563351.1 Ceso2g03453 3453
2 85367787 85368338 - >KAJ9563352.1 Ceso2g03454 3454
2 85375600 85378855 - >KAJ9563348.1 Ceso2g03455 3455
2 85387451 85388779 - >KAJ9563350.1 Ceso2g03457 3457
2 85392900 85395201 - >KAJ9563347.1 Ceso2g03459 3459
2 85396352 85398070 - >KAJ9563353.1 Ceso2g03460 3460
2 85400858 85402192 - >KAJ9563349.1 Ceso2g03461 3461
6 236546312 236547565 - ClaG1_Chr06g0431471 Chla6g05900 5900
6 236583619 236585081 - ClaG1_Chr06g0431481 Chla6g05901 5901
6 236630304 236631398 - ClaG1_Chr06g0431501 Chla6g05903 5903
13 41173284 41175012 + evm.model.scaffold_461.258 Chmo13g00823 823
13 41665211 41666985 + evm.model.scaffold_461.284 Chmo13g00827 827
13 41820994 41822487 + evm.model.scaffold_461.295 Chmo13g00828 828
14 34287971 34290308 - evm.model.scaffold_489.116 Chmo14g00752 752
14 34325927 34327506 - evm.model.scaffold_489.117 Chmo14g00753 753
14 34403456 34404939 - evm.model.scaffold_489.120 Chmo14g00754 754
15 40147680 40149206 + evm.model.scaffold_279.92 Chmo15g00713 713
15 40456670 40457996 + evm.model.scaffold_279.65 Chmo15g00718 718
15 40519676 40521025 + evm.model.scaffold_279.62 Chmo15g00720 720
2 52082959 52083705 + Cn0066740 Chna2g00686 686
2 52247791 52249143 + Cn0066830 Chna2g00688 688
2 52310239 52314107 + Cn0066850 Chna2g00689 689
4 131780004 131781374 - KAI3753671.1 Cich4g04536 4536
4 131902355 131903668 + KAI3753674.1 Cich4g04539 4539
4 131918903 131920216 + KAI3753676.1 Cich4g04541 4541
4 131966424 131967764 + KAI3753678.1 Cich4g04543 4543
4 131976528 131977853 + KAI3753679.1 Cich4g04544 4544
4 131987276 131988604 + KAI3753680.1 Cich4g04545 4545
4 132029696 132030223 + KAI3753683.1 Cich4g04548 4548
5 77903095 77904408 + KAI3509769.1 Cien5g03249 3249
5 77954650 77955963 + KAI3509772.1 Cien5g03252 3252
5 77962444 77963757 + KAI3509773.1 Cien5g03253 3253
5 78001983 78003323 + KAI3509775.1 Cien5g03255 3255
5 78008881 78010206 + KAI3509776.1 Cien5g03256 3256
5 78025209 78026618 + KAI3509777.1 Cien5g03257 3257
5 78060765 78062105 + KAI3509780.1 Cien5g03260 3260
3 328088416 328089765 - D.indicum_Contig189_G00061.t1 Cind3g01697 1697
3 328010791 328013033 - D.indicum_Contig189_G00062.t1 Cind3g01698 1698
3 327206496 327207224 - D.indicum_Contig463_G00001.t1 Cind3g04048 4048
4 79683555 79684862 + h2tg000009l_1.g42225.t1 Cobi4g03054 3054
4 79701031 79702341 + h2tg000009l_1.g42223.t1 Cobi4g03056 3056
4 79715802 79716224 + h2tg000009l_1.g42221.t1 Cobi4g03058 3058
4 79736740 79738086 - h2tg000009l_1.g42218.t1 Cobi4g03061 3061
4 79740491 79741570 + h2tg000009l_1.g42217.t1 Cobi4g03062 3062
4 79752960 79754306 - h2tg000009l_1.g42216.t1 Cobi4g03063 3063
4 79780532 79782667 - h2tg000009l_1.g42214.t1 Cobi4g03065 3065
7 7362988 7363308 + h1tg000030l.g76937.t1 Dapi7g00347 347
7 7427803 7428498 + h1tg000030l.g76939.t1 Dapi7g00349 349
7 7509622 7510974 + h1tg000030l.g76942.t1 Dapi7g00352 352
7 7610982 7612295 + h1tg000030l.g76945.t1 Dapi7g00355 355
7 7645235 7646551 - h1tg000030l.g76946.t1 Dapi7g00356 356
23 8166169 8167521 + h2tg000233l.g74336.t1 Dapi23g00372 372
23 8282699 8284015 + h2tg000233l.g74339.t1 Dapi23g00375 375
23 8331416 8332732 - h2tg000233l.g74340.t1 Dapi23g00376 376
3 32706553 32708150 + XM_043764800.1 Ecan3g02192 2192
3 32717557 32719148 + XM_043766781.1 Ecan3g02193 2193
3 32726003 32727512 + XM_043764534.1 Ecan3g02194 2194
3 32733540 32734953 + XM_043763458.1 Ecan3g02195 2195
1 6218557 6219909 + FliAMIRv0_Chr01g0003001 Fli1g00305 305
1 6264443 6264958 - FliAMIRv0_Chr01g0003031 Fli1g00308 308
1 6265006 6265755 - FliAMIRv0_Chr01g0003041 Fli1g00309 309
11 78600132 78601445 + FraAMIRv0_Chr11g0225151 Fra11g02493 2493
11 78606016 78607326 - FraAMIRv0_Chr11g0225161 Fra11g02494 2494
11 78632809 78633711 - FraAMIRv0_Chr11g0225181 Fra11g02496 2496
12 31298246 31299559 + FroAMIRv0_Chr12g0219081 Fro12g02360 2360
12 31304900 31306222 + FroAMIRv0_Chr12g0219091 Fro12g02361 2361
12 31320276 31321628 - FroAMIRv0_Chr12g0219111 Fro12g02363 2363
2 3819179 3819484 + FsoAMIRv0_Chr02g0030881 Fso2g00269 269
2 3821999 3823351 + FsoAMIRv0_Chr02g0030891 Fso2g00270 270
2 3833783 3835096 + FsoAMIRv0_Chr02g0030901 Fso2g00271 271
4 120141230 120142270 + FtrAMIRv0_Chr04g0130831 Ftr4g03649 3649
4 120170206 120170721 + FtrAMIRv0_Chr04g0130851 Ftr4g03651 3651
4 120175507 120176838 - FtrAMIRv0_Chr04g0130861 Ftr4g03652 3652
3 74585512 74586831 + GcoAMIRv0_Chr03g0168451 Glco3g01216 1216
11 21158481 21160049 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476241 Hean11g00886 886
11 21214248 21215734 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476281 Hean11g00890 890
11 21383020 21393434 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476311 Hean11g00892 892
11 21509865 21511163 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476391 Hean11g00900 900
11 21537807 21539111 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476431 Hean11g00904 904
11 21550335 21551642 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476451 Hean11g00906 906
11 21595944 21597451 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476471 Hean11g00908 908
31 26937129 26938481 + >Htub.h1tg002695l.g177.t1 Hetu31g00661 661
31 27589981 27590509 + >Htub.h1tg002695l.g170.t1 Hetu31g00667 667
31 27686287 27687618 + >Htub.h1tg002695l.g168.t1 Hetu31g00669 669
32 30034989 30036563 + >Htub.h1tg002251l.g193.t1 Hetu32g00697 697
32 30879215 30880546 + >Htub.h1tg002251l.g185.t1 Hetu32g00705 705
33 30884925 30886277 + >Htub.h1tg001856l.g220.t1 Hetu33g00793 793
33 31124058 31129152 - >Htub.h1tg001856l.g218.t1 Hetu33g00795 795
33 31171642 31172973 + >Htub.h1tg001856l.g217.t1 Hetu33g00796 796
7 135889744 135891057 + CAI9295022.1 Laca7g02834 2834
7 135977255 135978621 + CAI9295026.1 Laca7g02838 2838
7 135990860 135991411 + CAI9295027.1 Laca7g02839 2839
7 135991459 135992226 + CAI9295028.1 Laca7g02840 2840
7 136056948 136058119 + CAI9295033.1 Laca7g02845 2845
7 136093240 136094580 + CAI9295034.1 Laca7g02846 2846
1 2800469 2801812 + LmiAMIRv0_Chr01g0003271 Lomi1g00327 327
1 2807250 2808596 + LmiAMIRv0_Chr01g0003281 Lomi1g00328 328
1 2812072 2813379 + LmiAMIRv0_Chr01g0003291 Lomi1g00329 329
2 48775921 48777228 - LmiAMIRv0_Chr02g0088721 Lomi2g04339 4339
2 48782552 48783880 - LmiAMIRv0_Chr02g0088731 Lomi2g04340 4340
7 184613839 184615161 + >KAJ0195527.1 Lssa7g03490 3490
7 184678481 184679785 + >KAJ0196419.1 Lssa7g03492 3492
7 184807574 184808941 + >KAJ0194623.1 Lssa7g03494 3494
7 184864610 184865932 + >KAJ0196959.1 Lssa7g03495 3495
7 184917142 184917927 + >KAJ0196516.1 Lssa7g03497 3497
7 184922458 184922940 + >KAJ0197547.1 Lssa7g03499 3499
7 184989961 184991301 + >KAJ0196067.1 Lssa7g03500 3500
17 15082709 15084010 + KAD3066765.1 Mimi17g00443 443
17 15199959 15201287 + KAD3066770.1 Mimi17g00448 448
4 10239105 10240433 + PdyAMIRv0_Chr04g0153531 Pdy4g00546 546
4 10273119 10274498 + PdyAMIRv0_Chr04g0153551 Pdy4g00548 548
4 10318808 10319206 - PdyAMIRv0_Chr04g0153571 Pdy4g00550 550
4 10337540 10338718 + PdyAMIRv0_Chr04g0153581 Pdy4g00551 551
1 152424262 152425569 - PluAMIRv0_Chr01g0210971 Pslu1g21191 21191
1 152436440 152436819 - PluAMIRv0_Chr01g0211001 Pslu1g21194 21194
1 152459220 152460545 - PluAMIRv0_Chr01g0211051 Pslu1g21199 21199
1 152462070 152463416 - PluAMIRv0_Chr01g0211061 Pslu1g21200 21200
1 152470862 152472208 - PluAMIRv0_Chr01g0211081 Pslu1g21202 21202
12 7263897 7264415 - SinAMIRv0_Chr12g0359381 Sain12g00374 374
12 7267059 7267850 - SinAMIRv0_Chr12g0359391 Sain12g00375 375
12 7281515 7282762 - SinAMIRv0_Chr12g0359401 Sain12g00376 376
12 7322835 7324139 + SinAMIRv0_Chr12g0359421 Sain12g00378 378
12 7335647 7336957 - SinAMIRv0_Chr12g0359431 Sain12g00379 379
12 7344765 7346078 - SinAMIRv0_Chr12g0359441 Sain12g00380 380
7 450839 451606 - KAI3809609.1 Smso7g00029 29
7 969507 970660 + KAI3809633.1 Smso7g00053 53
7 984166 985488 + KAI3809634.1 Smso7g00054 54
29 675869 677188 + KAI3675030.1 Smso29g00036 36
29 719629 720948 - KAI3675032.1 Smso29g00038 38
29 738534 739638 - KAI3675034.1 Smso29g00040 40
29 746741 747989 - KAI3675035.1 Smso29g00041 41
5 25922763 25924070 - augustus16674.t01 Soca5g02427 2427
5 25952642 25968684 - transfrag11079.t01 Soca5g02428 2428
5 25985622 25987019 - augustus16677.t01 Soca5g02429 2429
5 29316017 29317447 - asmbl_5735.p1 Soca5g02672 2672
6 12331577 12333167 + Streb.6G004530.1 Stre6g00453 453
6 12347974 12349027 + Streb.6G004540.1 Stre6g00454 454
1 49936877 49938208 - >KAK1439643.1 Taer1g05463 5463
1 49941474 49942805 - >KAK1439644.1 Taer1g05464 5464
1 49952780 49954114 + >KAK1439646.1 Taer1g05466 5466
4 87127755 87128159 - TkA04G344610.1 Tako4g03869 3869
4 87198813 87199895 - TkA04G344900.1 Tako4g03874 3874
4 87213275 87214357 - TkA04G344950.1 Tako4g03876 3876
4 87276945 87278255 - TkA04G345160.1 Tako4g03879 3879
4 87305306 87306735 - TkA04G345270.1 Tako4g03881 3881
4 87464316 87465656 - TkA04G345940.1 Tako4g03893 3893
4 87555771 87559122 - TkA04G346570.1 Tako4g03898 3898
4 53289162 53290502 - TbA04G030230.1 Tamo4g02812 2812
4 53333245 53334311 - TbA04G030180.1 Tamo4g02814 2814
4 53475029 53476354 - TbA04G030030.1 Tamo4g02817 2817
4 53549687 53550847 - TbA04G029990.1 Tamo4g02821 2821
       
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