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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

Hierarchical alignments with the Helianthus annuus genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Helianthus annuus as a reference, and by comparing homologous gene locus maps and Ks values between Helianthus annuus and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 40×70, 843 macro-matrices.


Select Hean_1 Cobi_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 Hean_2 Cobi_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
Hean1g00581 . . . Dapi4g01624 . . Hetu2g01455 Hetu3g01470 Amtr02g08889 Smso1g03402 . . . . . . . Stre1g04114 . Hean11g02787 Cobi6g00968 Bial12g02806 Bial24g02649 . Dapi31g02142 Hetu32g02360 Hetu31g02347 Hetu33g02274 Amtr07g06101 . Smso20g01964 . . . . . . Stre1g04114 .
Hean1g00582 . Bial10g01120 . Dapi4g01625 Dapi20g01545 Hetu1g01667 Hetu2g01454 Hetu3g01469 Amtr02g08888 Smso1g03403 . . Fro14g01049 Fso1g01653 . . Fli3g01076 Stre1g04115 Mimi16g01866 . . . . . . . . . . . . . . . . . . . .
Hean1g00583 Cobi2g02043 Bial10g01121 . Dapi4g01626 Dapi20g01546 Hetu1g01666 Hetu2g01453 Hetu3g01468 Amtr02g08886 Smso1g03404 . . Fro14g01050 Fso1g01661 . . Fli3g01075 Stre1g04116 Mimi16g01867 . . . . . . . . . . . . . . . . . . . .
Hean1g00584 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00585 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00586 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00587 Cobi2g02044 Bial10g01122 Bial22g00720 Dapi4g01628 Dapi20g01548 Hetu1g01664 Hetu2g01452 Hetu3g01467 . Smso1g03405 . . . . . . . Stre1g04117 Mimi16g01868 . . . . . . . . . . . . . . . . . . . .
Hean1g00588 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00589 . . . . . . . . Amtr02g08873 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00590 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 172783435 172783812 - AtrifAMIRv0_Chr02g0184691 Amtr02g08873 8873
2 173078168 173083238 - AtrifAMIRv0_Chr02g0184821 Amtr02g08886 8886
2 173179057 173181528 + AtrifAMIRv0_Chr02g0184841 Amtr02g08888 8888
2 173181831 173185586 - AtrifAMIRv0_Chr02g0184851 Amtr02g08889 8889
7 128209963 128215527 + AtrifAMIRv0_Chr07g0512481 Amtr07g06101 6101
10 11250851 11253060 - g87049.t1 Bial10g01120 1120
10 11255621 11258953 + g87048.t1 Bial10g01121 1121
10 11260294 11266884 + g87047.t1 Bial10g01122 1122
12 58083550 58088656 - g36005.t1 Bial12g02806 2806
22 6940893 6945213 + g147314.t1 Bial22g00720 720
24 57257709 57261125 - g68315.t1 Bial24g02649 2649
2 63601742 63605456 + h2tg000016l_1.g5203.t1 Cobi2g02043 2043
2 63644303 63651457 + h2tg000016l_1.g5202.t1 Cobi2g02044 2044
6 7769177 7774122 + h2tg000031l_1.g19281.t1 Cobi6g00968 968
4 99594706 99597621 + h2tg000160l.g57209.t1 Dapi4g01624 1624
4 99747224 99749777 - h2tg000160l.g57210.t1 Dapi4g01625 1625
4 99947069 99950956 + h2tg000160l.g57211.t1 Dapi4g01626 1626
4 100167132 100175607 + h2tg000160l.g57213.t1 Dapi4g01628 1628
20 91520051 91522928 - h2tg000075l.g16915.t1 Dapi20g01545 1545
20 91625164 91632885 + h2tg000075l.g16916.t1 Dapi20g01546 1546
20 91771927 91780241 + h2tg000075l.g16918.t1 Dapi20g01548 1548
31 105294128 105296647 - h2tg000063l.g12227.t1 Dapi31g02142 2142
3 35910755 35913762 - FliAMIRv0_Chr03g0083441 Fli3g01075 1075
3 36043025 36045143 + FliAMIRv0_Chr03g0083451 Fli3g01076 1076
14 16635004 16637270 - FroAMIRv0_Chr14g0252031 Fro14g01049 1049
14 16671348 16675337 + FroAMIRv0_Chr14g0252041 Fro14g01050 1050
1 47808764 47811953 - FsoAMIRv0_Chr01g0016521 Fso1g01653 1653
1 48082032 48087053 + FsoAMIRv0_Chr01g0016601 Fso1g01661 1661
1 29901559 29906652 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006591 Hean1g00581 581
1 29906468 29909985 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006601 Hean1g00582 582
1 30122890 30126316 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006611 Hean1g00583 583
1 30228094 30229621 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006621 Hean1g00584 584
1 30232238 30233908 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006631 Hean1g00585 585
1 30239510 30241113 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006641 Hean1g00586 586
1 30259745 30268827 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006651 Hean1g00587 587
1 30260055 30266214 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006661 Hean1g00588 588
1 30321169 30322971 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006671 Hean1g00589 589
1 30567232 30567490 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006681 Hean1g00590 590
11 128708836 128713010 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0499241 Hean11g02787 2787
1 91415346 91421348 - >Htub.h1tg001922l.g393.t1 Hetu1g01664 1664
1 91461512 91468149 - >Htub.h1tg001922l.g395.t1 Hetu1g01666 1666
1 91480818 91486858 + >Htub.h1tg001922l.g396.t1 Hetu1g01667 1667
2 82169899 82179614 - >Htub.h1tg000330l.g311.t1 Hetu2g01452 1452
2 82238886 82245270 - >Htub.h1tg000330l.g310.t1 Hetu2g01453 1453
2 82264492 82269604 + >Htub.h1tg000330l.g309.t1 Hetu2g01454 1454
2 82269889 82274015 - >Htub.h1tg000330l.g308.t1 Hetu2g01455 1455
3 79693631 79704235 - >Htub.h1tg000150l.g22.t1 Hetu3g01467 1467
3 79751414 79757058 - >Htub.h1tg000150l.g21.t1 Hetu3g01468 1468
3 79775904 79779935 + >Htub.h1tg000150l.g20.t1 Hetu3g01469 1469
3 79780221 79784343 - >Htub.h1tg000150l.g19.t1 Hetu3g01470 1470
31 136952743 136956739 - >Htub.h1tg000896l.g559.t1 Hetu31g02347 2347
32 138404418 138408002 - >Htub.h1tg001182l.g337.t1 Hetu32g02360 2360
33 129993421 129997297 - >Htub.h1tg000530l.g131.t1 Hetu33g02274 2274
16 78854963 78857914 - KAD3337936.1 Mimi16g01866 1866
16 78876894 78889341 + KAD3337937.1 Mimi16g01867 1867
16 78895814 78903894 + KAD3337938.1 Mimi16g01868 1868
1 116775372 116780098 + KAI3829365.1 Smso1g03402 3402
1 116786115 116794357 - KAI3829366.1 Smso1g03403 3403
1 116806321 116809932 + KAI3829367.1 Smso1g03404 3404
1 116818400 116828217 + KAI3829368.1 Smso1g03405 3405
20 64595239 64600968 - KAI3742960.1 Smso20g01964 1964
1 126148742 126152936 + Streb.1G041140.1 Stre1g04114 4114
1 126154427 126160085 - Streb.1G041150.1 Stre1g04115 4115
1 126176934 126180757 + Streb.1G041160.1 Stre1g04116 4116
1 126181854 126188796 + Streb.1G041170.1 Stre1g04117 4117
       
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