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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
Armi1g00327 Sain12g00296 . Cati3g00357 . Cien5g03355 Cich4g04651 Lssa7g03618 Laca7g02946 Tako4g03719 Tamo4g02632 Pslu1g21043 . Lomi2g04287 Enbr6g00658 Ecan3g02269 . Glco3g01320 Artr3g11268 . Aary13g03214 Aann4g00983 Chma7g07835 Chmo13g00913 Chmo14g00866 Chmo15g00797 . Chna2g00772 Cind3g05629 Pdy4g00644 . . . . . . . . . . . . . . . . . . . . Cobi4g02987 Hean11g00997 Bial4g03261 Bial16g02661 Dapi7g00412 Dapi23g00439 Hetu32g00797 Hetu31g00741 Hetu33g00864 Amtr02g06786 Smso7g00371 Smso29g00417 Taer1g05401 Fro12g02261 . Ftr4g03589 Fra11g02441 Fli1g00372 Stre6g00524 Mimi17g00542
. . Ceso2g03388 Cati3g00358 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00328 Sain12g00299 Ceso2g03389 Cati3g00360 . Cien5g03351 Cich4g04649 Lssa7g03617 Laca7g02945 Tako4g03721 Tamo4g02633 Pslu1g21048 . . Enbr6g00660 Ecan3g02267 . Glco3g01317 Artr3g11269 . Aary13g03217 Aann4g00988 Chma7g07839 Chmo13g00912 Chmo14g00865 Chmo15g00796 . Chna2g00771 Cind3g05633 Pdy4g00637 . . . . . . . . . . . . . . . . . . . . Cobi4g02988 Hean11g00996 Bial4g03262 Bial16g02662 Dapi7g00411 Dapi23g00438 Hetu32g00796 Hetu31g00740 Hetu33g00863 Amtr02g06787 Smso7g00370 Smso29g00416 Taer1g05402 Fro12g02262 . . Fra11g02442 Fli1g00371 Stre6g00522 Mimi17g00540
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
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Armi1g00329 Sain12g00301 . . . Cien5g03349 Cich4g04647 Lssa7g03616 Laca7g02944 Tako4g03731 Tamo4g02634 . . . . . . Glco3g01316 Artr3g11271 . . Aann4g00989 . . . . . . . Pdy4g00636 . . . . . . . . . . . . . . . . . . . . Cobi4g02989 Hean11g00993 . Bial16g02663 Dapi7g00410 . Hetu32g00795 Hetu31g00735 Hetu33g00861 . Smso7g00369 . . . . . . . Stre6g00520 .
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Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 56373855 56375877 + chr4g0772121 Aann4g00983 983
4 56542666 56555626 - chr4g0772331 Aann4g00988 988
4 56557420 56557915 - chr4g0772341 Aann4g00989 989
13 190233192 190235139 + Aargg13g32140.1 Aary13g03214 3214
13 190253250 190261568 - Aargg13g32170.1 Aary13g03217 3217
2 123088596 123089486 + AtrifAMIRv0_Chr02g0163821 Amtr02g06786 6786
2 123110578 123116855 - AtrifAMIRv0_Chr02g0163831 Amtr02g06787 6787
1 5938592 5939476 + AmiAMIRv0_Chr01g0003271 Armi1g00327 327
1 5957911 5976047 - AmiAMIRv0_Chr01g0003281 Armi1g00328 328
1 5982376 5982690 - AmiAMIRv0_Chr01g0003291 Armi1g00329 329
3 380344195 380345839 + AtridAMIRv0_Chr03g0420041 Artr3g11268 11268
3 380362272 380370827 - AtridAMIRv0_Chr03g0420051 Artr3g11269 11269
3 380507229 380507516 - AtridAMIRv0_Chr03g0420071 Artr3g11271 11271
4 74780297 74781756 + g43100.t1 Bial4g03261 3261
4 74785566 74794089 - g43101.t1 Bial4g03262 3262
16 68950752 68952205 + g149921.t1 Bial16g02661 2661
16 68955920 68965341 - g149920.t1 Bial16g02662 2662
16 68967438 68967713 - g149919.t1 Bial16g02663 2663
3 2917345 2919555 + CtAH03T0024700.1 Cati3g00357 357
3 2921308 2939732 - CtAH03T0024800.1 Cati3g00358 358
3 2951494 2953428 - CtAH03T0025000.1 Cati3g00360 360
2 84123438 84136870 - >KAJ9562836.1 Ceso2g03388 3388
2 84144460 84154473 - >KAJ9562835.1 Ceso2g03389 3389
7 268089800 268090762 + CmaNakai_Chr07g0701371 Chma7g07835 7835
7 268131149 268148977 - CmaNakai_Chr07g0701411 Chma7g07839 7839
13 47624992 47637198 + evm.model.scaffold_191.113 Chmo13g00912 912
13 47663217 47665245 - evm.model.scaffold_191.116 Chmo13g00913 913
14 41997947 42008035 + evm.model.scaffold_25.375 Chmo14g00865 865
14 42062250 42063213 - evm.model.scaffold_25.370 Chmo14g00866 866
15 45851181 45862968 + evm.model.scaffold_1806.501 Chmo15g00796 796
15 45899839 45900800 - evm.model.scaffold_1806.494 Chmo15g00797 797
2 58522498 58530318 + Cn0026300 Chna2g00771 771
2 58550757 58552956 - Cn0026330 Chna2g00772 772
4 134008505 134009127 + KAI3753782.1 Cich4g04647 4647
4 134024916 134031475 + KAI3753784.1 Cich4g04649 4649
4 134054723 134055610 - KAI3753786.1 Cich4g04651 4651
5 79248717 79249720 + KAI3509869.1 Cien5g03349 3349
5 79266735 79273186 + KAI3509871.1 Cien5g03351 3351
5 79308108 79311130 - KAI3509875.1 Cien5g03355 3355
3 321824977 321826051 + D.indicum_Contig84_G00061.t1 Cind3g05629 5629
3 321920448 321926290 - D.indicum_Contig84_G00065.t1 Cind3g05633 5633
4 78789496 78791154 + h2tg000009l_1.g42292.t1 Cobi4g02987 2987
4 78794990 78805547 - h2tg000009l_1.g42291.t1 Cobi4g02988 2988
4 78809530 78809817 - h2tg000009l_1.g42290.t1 Cobi4g02989 2989
7 8990228 8990515 + h1tg000030l.g77000.t1 Dapi7g00410 410
7 8993714 9001843 + h1tg000030l.g77001.t1 Dapi7g00411 411
7 9005501 9006385 - h1tg000030l.g77002.t1 Dapi7g00412 412
23 9669836 9677798 + h1tg000278l.g137333.t1 Dapi23g00438 438
23 9681602 9682486 - h1tg000278l.g137334.t1 Dapi23g00439 439
3 33512907 33521230 + XM_043765724.1 Ecan3g02267 2267
3 33527131 33529248 - XM_043765808.1 Ecan3g02269 2269
6 23868384 23869527 + evm.model.ctg7030.3 Enbr6g00658 658
6 23875510 23883854 - evm.model.ctg7030.5 Enbr6g00660 660
1 7604083 7609020 + FliAMIRv0_Chr01g0003661 Fli1g00371 371
1 7633929 7634813 - FliAMIRv0_Chr01g0003671 Fli1g00372 372
11 78131277 78132161 + FraAMIRv0_Chr11g0224631 Fra11g02441 2441
11 78138234 78144443 - FraAMIRv0_Chr11g0224641 Fra11g02442 2442
12 30029818 30030702 + FroAMIRv0_Chr12g0218091 Fro12g02261 2261
12 30039767 30043481 - FroAMIRv0_Chr12g0218101 Fro12g02262 2262
4 119270678 119271562 + FtrAMIRv0_Chr04g0130231 Ftr4g03589 3589
3 83420001 83420288 + GcoAMIRv0_Chr03g0169451 Glco3g01316 1316
3 83440260 83446626 + GcoAMIRv0_Chr03g0169461 Glco3g01317 1317
3 83582274 83583465 - GcoAMIRv0_Chr03g0169491 Glco3g01320 1320
11 25413343 25413738 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0477481 Hean11g00993 993
11 25474956 25483853 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0477511 Hean11g00996 996
11 25510214 25512498 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0477521 Hean11g00997 997
31 31954089 31954581 + >Htub.h2tg002051l.g115.t1 Hetu31g00735 735
31 32014427 32022377 + >Htub.h2tg002051l.g120.t1 Hetu31g00740 740
31 32033295 32034715 - >Htub.h2tg002051l.g121.t1 Hetu31g00741 741
32 34914006 34919507 + >Htub.h1tg002251l.g90.t1 Hetu32g00795 795
32 34963069 34970923 + >Htub.h1tg002251l.g89.t1 Hetu32g00796 796
32 34981794 34983690 - >Htub.h1tg002251l.g88.t1 Hetu32g00797 797
33 35103533 35109026 + >Htub.h1tg001856l.g149.t1 Hetu33g00861 861
33 35158142 35164822 + >Htub.h1tg001856l.g147.t1 Hetu33g00863 863
33 35205799 35207226 - >Htub.h1tg001856l.g146.t1 Hetu33g00864 864
7 140796739 140797056 + CAI9295137.1 Laca7g02944 2944
7 140850407 140855913 + CAI9295138.1 Laca7g02945 2945
7 140868823 140869710 - CAI9295139.1 Laca7g02946 2946
2 48326632 48327647 + LmiAMIRv0_Chr02g0088201 Lomi2g04287 4287
7 191802107 191802424 + >KAJ0196229.1 Lssa7g03616 3616
7 191816676 191822701 + >KAJ0195639.1 Lssa7g03617 3617
7 191839116 191840003 - >KAJ0197133.1 Lssa7g03618 3618
17 19891875 19898709 + KAD3066862.1 Mimi17g00540 540
17 19971413 19972835 - KAD3066864.1 Mimi17g00542 542
4 11635407 11635700 + PdyAMIRv0_Chr04g0154431 Pdy4g00636 636
4 11638414 11650200 + PdyAMIRv0_Chr04g0154441 Pdy4g00637 637
4 11720528 11721412 - PdyAMIRv0_Chr04g0154511 Pdy4g00644 644
1 151450066 151451032 + PluAMIRv0_Chr01g0209501 Pslu1g21043 21043
1 151471312 151477713 - PluAMIRv0_Chr01g0209551 Pslu1g21048 21048
12 5336428 5337312 + SinAMIRv0_Chr12g0358611 Sain12g00296 296
12 5438073 5451988 - SinAMIRv0_Chr12g0358641 Sain12g00299 299
12 5539834 5540148 + SinAMIRv0_Chr12g0358661 Sain12g00301 301
7 6056405 6056692 + KAI3809949.1 Smso7g00369 369
7 6072068 6082862 + KAI3809950.1 Smso7g00370 370
7 6091898 6092782 - KAI3809951.1 Smso7g00371 371
29 6209882 6216746 + KAI3675410.1 Smso29g00416 416
29 6261402 6262286 - KAI3675411.1 Smso29g00417 417
6 14328238 14328554 + Streb.6G005200.1 Stre6g00520 520
6 14394452 14408232 + Streb.6G005220.1 Stre6g00522 522
6 14467382 14469126 - Streb.6G005240.1 Stre6g00524 524
1 49524107 49525508 + >KAK1439581.1 Taer1g05401 5401
1 49527928 49533469 - >KAK1439582.1 Taer1g05402 5402
4 83077698 83079561 + TkA04G328970.1 Tako4g03719 3719
4 83118525 83126495 - TkA04G329140.1 Tako4g03721 3721
4 83853946 83854272 + TkA04G332350.1 Tako4g03731 3731
4 49008572 49010674 + TbA04G035190.1 Tamo4g02632 2632
4 49050157 49057797 - TbA04G035170.1 Tamo4g02633 2633
4 49060011 49060331 - TbA04G035160.1 Tamo4g02634 2634
       
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