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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
Hean1g00121 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00122 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00123 Cobi2g02283 . . . . . . . . . Smso28g00479 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00124 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00125 . Bial10g01314 Bial22g00905 . Dapi20g01800 Hetu1g00117 Hetu2g00175 Hetu3g00113 Amtr12g00388 Smso1g03621 . Taer4g02388 Fro14g01283 Fso1g02103 Ftr2g00727 . Fli3g00793 Stre1g04338 Mimi16g02106 . . . . . . . . . . . . . . . . . . . .
Hean1g00126 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00127 Cobi2g02285 Bial10g01315 Bial22g00906 . Dapi20g01801 Hetu1g00118 Hetu2g00176 Hetu3g00116 Amtr12g00389 Smso1g03622 Smso28g00478 Taer4g02389 Fro14g01284 Fso1g02104 . . Fli3g00792 Stre1g04339 Mimi16g02107 . . . . . . . . . . . . . . . . . . . .
Hean1g00128 Cobi2g02286 . Bial22g00907 . . Hetu1g00119 Hetu2g00177 Hetu3g00117 . . . . . . . . . . Mimi16g02110 . . . . . . . . . . . . . . . . . . . .
Hean1g00129 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00130 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
12 12880293 12882450 + AtrifAMIRv0_Chr12g0721201 Amtr12g00388 388
12 12952150 12956258 + AtrifAMIRv0_Chr12g0721211 Amtr12g00389 389
10 13081016 13082210 + g86855.t1 Bial10g01314 1314
10 13086500 13089785 + g86854.t1 Bial10g01315 1315
22 8641204 8642394 + g147129.t1 Bial22g00905 905
22 8646624 8648679 + g147128.t1 Bial22g00906 906
22 8649231 8650674 - g147127.t1 Bial22g00907 907
2 69785780 69788005 + h2tg000016l_1.g4963.t1 Cobi2g02283 2283
2 69855700 69859554 + h2tg000016l_1.g4961.t1 Cobi2g02285 2285
2 69860682 69861886 - h2tg000016l_1.g4960.t1 Cobi2g02286 2286
20 107339733 107341551 + h1tg000169l.g129597.t1 Dapi20g01800 1800
20 107344990 107348660 + h1tg000169l.g129596.t1 Dapi20g01801 1801
3 21982072 21983761 - FliAMIRv0_Chr03g0080611 Fli3g00792 792
3 21997659 21999623 - FliAMIRv0_Chr03g0080621 Fli3g00793 793
14 20446133 20448242 + FroAMIRv0_Chr14g0254371 Fro14g01283 1283
14 20450698 20453694 + FroAMIRv0_Chr14g0254381 Fro14g01284 1284
1 60680937 60682914 + FsoAMIRv0_Chr01g0021021 Fso1g02103 2103
1 60684578 60687990 + FsoAMIRv0_Chr01g0021031 Fso1g02104 2104
2 13632804 13634478 - FtrAMIRv0_Chr02g0035941 Ftr2g00727 727
1 2513236 2514041 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001371 Hean1g00121 121
1 2515370 2516505 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001381 Hean1g00122 122
1 2520528 2525097 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001391 Hean1g00123 123
1 2526077 2527421 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001401 Hean1g00124 124
1 2568973 2571773 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001411 Hean1g00125 125
1 2573755 2577603 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001421 Hean1g00126 126
1 2589494 2597291 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001431 Hean1g00127 127
1 2597599 2617154 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001441 Hean1g00128 128
1 2601013 2603137 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001451 Hean1g00129 129
1 2610133 2615365 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001461 Hean1g00130 130
1 4454495 4458388 + >Htub.h1tg003050l.g378.t1 Hetu1g00117 117
1 4509928 4511637 + >Htub.h1tg003050l.g379.t1 Hetu1g00118 118
1 4512588 4516159 - >Htub.h1tg003050l.g380.t1 Hetu1g00119 119
2 5485706 5488791 + >Htub.h1tg002382l.g217.t1 Hetu2g00175 175
2 5501495 5502763 + >Htub.h1tg000710l.g56.t1 Hetu2g00176 176
2 5504797 5508938 - >Htub.h1tg000710l.g57.t1 Hetu2g00177 177
3 4326199 4328512 + >Htub.h1tg000727l.g11.t1 Hetu3g00113 113
3 4379228 4384192 + >Htub.h1tg000727l.g14.t1 Hetu3g00116 116
3 4385142 4388094 - >Htub.h1tg000727l.g15.t1 Hetu3g00117 117
16 83373200 83375267 + KAD3338176.1 Mimi16g02106 2106
16 83389192 83396324 + KAD3338177.1 Mimi16g02107 2107
16 83415621 83421676 - KAD3338180.1 Mimi16g02110 2110
1 121563765 121566024 + KAI3829584.1 Smso1g03621 3621
1 121581388 121584727 + KAI3829585.1 Smso1g03622 3622
28 13321216 13325429 - KAI3682758.1 Smso28g00478 478
28 13331894 13334232 - KAI3682759.1 Smso28g00479 479
1 129646660 129648674 + Streb.1G043380.1 Stre1g04338 4338
1 129651022 129654583 + Streb.1G043390.1 Stre1g04339 4339
4 54024881 54026917 + >KAK1428170.1 Taer4g02388 2388
4 54030425 54034383 + >KAK1428171.1 Taer4g02389 2389
       
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