AGRP Logo

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
Hean1g00591 . . . . . . . . Amtr02g08870 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00592 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00593 . Bial10g01126 Bial22g00727 Dapi4g01633 Dapi20g01553 Hetu1g01659 Hetu2g01447 Hetu3g01465 Amtr02g08859 Smso1g03407 Smso28g00605 . Fro14g01053 Fso1g01669 Ftr2g01341 Fra18g01435 Fli3g01069 Stre1g04119 Mimi16g01870 . . . . . . . . . . . . . . . . . . . .
Hean1g00594 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00595 . Bial10g01128 Bial22g00729 Dapi4g01635 Dapi20g01556 . . . Amtr02g08851 Smso1g03409 . . Fro14g01055 . . Fra18g01437 Fli3g01067 . Mimi16g01872 . . . . . . . . . . . . . . . . . . . .
Hean1g00596 . . Bial22g00730 . Dapi20g01557 Hetu1g01654 Hetu2g01445 Hetu3g01460 Amtr02g08842 Smso1g03410 . . Fro14g01057 Fso1g01671 Ftr2g01338 Fra18g01438 Fli3g01066 . Mimi16g01874 . . . . . . . . . . . . . . . . . . . .
Hean1g00597 . . . . . Hetu1g01653 Hetu2g01435 Hetu3g01456 . . . . Fro14g01061 Fso1g01676 Ftr2g01330 . Fli3g01065 . . . . . . . . . . . . . . . . . . . . . .
Hean1g00598 . . . . . Hetu1g01652 Hetu2g01434 Hetu3g01455 . . Smso28g00600 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00599 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00600 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 172201439 172201801 - AtrifAMIRv0_Chr02g0184381 Amtr02g08842 8842
2 172296486 172297517 - AtrifAMIRv0_Chr02g0184471 Amtr02g08851 8851
2 172425382 172426522 - AtrifAMIRv0_Chr02g0184551 Amtr02g08859 8859
2 172730725 172731093 - AtrifAMIRv0_Chr02g0184661 Amtr02g08870 8870
10 11294656 11295163 + g87043.t1 Bial10g01126 1126
10 11305972 11307779 + g87041.t1 Bial10g01128 1128
22 7008119 7008728 + g147307.t1 Bial22g00727 727
22 7029426 7031182 + g147305.t1 Bial22g00729 729
22 7033175 7033839 + g147304.t1 Bial22g00730 730
4 100500942 100502361 + h2tg000160l.g57218.t1 Dapi4g01633 1633
4 100558124 100559197 + h2tg000160l.g57220.t1 Dapi4g01635 1635
20 92151091 92152553 + h2tg000075l.g16923.t1 Dapi20g01553 1553
20 92212531 92213547 + h2tg000075l.g16926.t1 Dapi20g01556 1556
20 92320962 92327124 + h2tg000075l.g16927.t1 Dapi20g01557 1557
3 35225662 35228396 - FliAMIRv0_Chr03g0083341 Fli3g01065 1065
3 35271554 35284071 - FliAMIRv0_Chr03g0083351 Fli3g01066 1066
3 35286256 35286795 - FliAMIRv0_Chr03g0083361 Fli3g01067 1067
3 35306910 35307928 - FliAMIRv0_Chr03g0083381 Fli3g01069 1069
18 56893121 56894063 + FraAMIRv0_Chr18g0356321 Fra18g01435 1435
18 56905838 56906842 + FraAMIRv0_Chr18g0356341 Fra18g01437 1437
18 56909024 56909757 + FraAMIRv0_Chr18g0356351 Fra18g01438 1438
14 16735183 16736240 + FroAMIRv0_Chr14g0252071 Fro14g01053 1053
14 16754372 16755409 + FroAMIRv0_Chr14g0252091 Fro14g01055 1055
14 16769735 16770464 + FroAMIRv0_Chr14g0252111 Fro14g01057 1057
14 16826059 16842812 + FroAMIRv0_Chr14g0252151 Fro14g01061 1061
1 48304986 48306556 + FsoAMIRv0_Chr01g0016681 Fso1g01669 1669
1 48362403 48363137 + FsoAMIRv0_Chr01g0016701 Fso1g01671 1671
1 48572080 48578886 + FsoAMIRv0_Chr01g0016751 Fso1g01676 1676
2 37177253 37177942 - FtrAMIRv0_Chr02g0041971 Ftr2g01330 1330
2 37662659 37663401 - FtrAMIRv0_Chr02g0042051 Ftr2g01338 1338
2 37723223 37724199 - FtrAMIRv0_Chr02g0042081 Ftr2g01341 1341
1 30568109 30570077 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006691 Hean1g00591 591
1 30622992 30624237 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006701 Hean1g00592 592
1 30624889 30628651 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006711 Hean1g00593 593
1 30629545 30631892 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006721 Hean1g00594 594
1 30717840 30718856 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006731 Hean1g00595 595
1 30793465 30798238 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006741 Hean1g00596 596
1 30933350 30942699 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006751 Hean1g00597 597
1 30948584 30949159 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006761 Hean1g00598 598
1 31063456 31064769 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006771 Hean1g00599 599
1 31076687 31077085 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0006781 Hean1g00600 600
1 90869386 90878486 + >Htub.h1tg001922l.g379.t1 Hetu1g01652 1652
1 90881368 90886559 + >Htub.h1tg001922l.g380.t1 Hetu1g01653 1653
1 90960420 90964086 - >Htub.h1tg001922l.g381.t1 Hetu1g01654 1654
1 91198997 91200189 - >Htub.h1tg001922l.g388.t1 Hetu1g01659 1659
2 81511681 81520831 + >Htub.h1tg000330l.g330.t1 Hetu2g01434 1434
2 81520973 81524990 + >Htub.h1tg000330l.g329.t1 Hetu2g01435 1435
2 81751074 81755041 - >Htub.h1tg000330l.g319.t1 Hetu2g01445 1445
2 81987601 81988734 - >Htub.h1tg000330l.g316.t1 Hetu2g01447 1447
3 79148935 79158078 + >Htub.h1tg000150l.g34.t1 Hetu3g01455 1455
3 79158220 79162239 + >Htub.h1tg000150l.g33.t1 Hetu3g01456 1456
3 79337881 79344233 - >Htub.h1tg000150l.g29.t1 Hetu3g01460 1460
3 79535802 79536935 - >Htub.h1tg000150l.g24.t1 Hetu3g01465 1465
16 78922742 78923792 + KAD3337940.1 Mimi16g01870 1870
16 78955351 78956370 + KAD3337942.1 Mimi16g01872 1872
16 79002872 79003998 + KAD3337944.1 Mimi16g01874 1874
1 116886292 116887344 + KAI3829370.1 Smso1g03407 3407
1 116918059 116918628 + KAI3829372.1 Smso1g03409 3409
1 116924662 116925530 + KAI3829373.1 Smso1g03410 3410
28 20536752 20549576 + KAI3682880.1 Smso28g00600 600
28 20907557 20909376 - KAI3682885.1 Smso28g00605 605
1 126233453 126235969 + Streb.1G041190.1 Stre1g04119 4119
       
DecoBrowse