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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
Hean1g00151 . . Bial22g00916 . . Hetu1g00135 Hetu2g00199 Hetu3g00136 . . Smso28g00473 Taer4g02412 Fro14g01302 Fso1g02123 Ftr2g00697 . Fli3g00759 . . . . . . . . . . . . . . . . . . . . . .
Hean1g00152 Cobi2g02300 Bial10g01327 Bial22g00917 . . Hetu1g00136 Hetu2g00203 Hetu3g00138 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00153 Cobi2g02303 . Bial22g00918 . Dapi20g01816 . . . Amtr12g00417 Smso1g03631 Smso28g00472 . Fro14g01303 . . . Fli3g00758 Stre1g04358 Mimi16g02123 . . . . . . . . . . . . . . . . . . . .
Hean1g00154 Cobi2g02304 Bial10g01328 Bial22g00919 . Dapi20g01817 . Hetu2g00204 . Amtr12g00418 . . Taer4g02414 . . . Fra18g01671 Fli3g00757 Stre1g04361 . Hean11g02626 Cobi6g01021 Bial12g02749 Bial24g02593 . Dapi31g02075 . . . Amtr07g06316 . Smso20g01708 . . . . . . Stre1g04358 Mimi16g02123
Hean1g00155 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00156 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00157 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00158 Cobi2g02306 Bial10g01331 Bial22g00921 . Dapi20g01818 Hetu1g00141 Hetu2g00205 Hetu3g00146 Amtr12g00449 Smso1g03633 . Taer4g02416 Fro14g01304 Fso1g02126 Ftr2g00680 Fra18g01669 Fli3g00752 Stre1g04362 Mimi16g02124 . . . . . . . . . . . . . . . . . . . .
Hean1g00159 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00160 Cobi2g02311 Bial10g01332 Bial22g00922 . Dapi20g01819 Hetu1g00148 Hetu2g00208 Hetu3g00148 Amtr12g00450 Smso1g03634 Smso28g00471 . . . . . . Stre1g04363 Mimi16g02125 . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 134849320 134851574 + AtrifAMIRv0_Chr07g0514631 Amtr07g06316 6316
12 13823134 13825065 - AtrifAMIRv0_Chr12g0721491 Amtr12g00417 417
12 13848490 13850367 - AtrifAMIRv0_Chr12g0721501 Amtr12g00418 418
12 14661775 14666043 - AtrifAMIRv0_Chr12g0721811 Amtr12g00449 449
12 14720002 14724639 - AtrifAMIRv0_Chr12g0721821 Amtr12g00450 450
10 13249040 13249306 + g86842.t1 Bial10g01327 1327
10 13256743 13258509 - g86841.t1 Bial10g01328 1328
10 13291155 13297747 - g86838.t1 Bial10g01331 1331
10 13303221 13307968 - g86837.t1 Bial10g01332 1332
12 57556657 57559120 - g35948.t1 Bial12g02749 2749
22 8791952 8792308 - g147118.t1 Bial22g00916 916
22 8798638 8798936 - g147117.t1 Bial22g00917 917
22 8807973 8813131 + g147116.t1 Bial22g00918 918
22 8819449 8826584 - g147115.t1 Bial22g00919 919
22 8848936 8855267 - g147113.t1 Bial22g00921 921
22 8862297 8866463 - g147112.t1 Bial22g00922 922
24 56683487 56685996 - g68259.t1 Bial24g02593 2593
2 70373571 70374482 + h2tg000016l_1.g4946.t1 Cobi2g02300 2300
2 70481328 70483819 + h2tg000016l_1.g4943.t1 Cobi2g02303 2303
2 70487315 70487794 + h2tg000016l_1.g4942.t1 Cobi2g02304 2304
2 70517816 70524829 - h2tg000016l_1.g4940.t1 Cobi2g02306 2306
2 70566309 70570882 - h2tg000016l_1.g4935.t1 Cobi2g02311 2311
6 8221654 8224025 + h2tg000031l_1.g19334.t1 Cobi6g01021 1021
20 107835935 107838032 - h1tg000169l.g129581.t1 Dapi20g01816 1816
20 107867410 107870457 + h1tg000169l.g129580.t1 Dapi20g01817 1817
20 107893545 107898310 - h1tg000169l.g129579.t1 Dapi20g01818 1818
20 107949141 107953971 - h1tg000169l.g129578.t1 Dapi20g01819 1819
31 101984983 101987261 - h2tg000063l.g12160.t1 Dapi31g02075 2075
3 20729473 20733029 + FliAMIRv0_Chr03g0080211 Fli3g00752 752
3 20918772 20919482 + FliAMIRv0_Chr03g0080261 Fli3g00757 757
3 20919618 20920808 + FliAMIRv0_Chr03g0080271 Fli3g00758 758
3 20945568 20946968 + FliAMIRv0_Chr03g0080281 Fli3g00759 759
18 63916248 63919735 + FraAMIRv0_Chr18g0358661 Fra18g01669 1669
18 64015499 64017536 + FraAMIRv0_Chr18g0358681 Fra18g01671 1671
14 20713990 20715309 + FroAMIRv0_Chr14g0254561 Fro14g01302 1302
14 20738273 20740743 + FroAMIRv0_Chr14g0254571 Fro14g01303 1303
14 20750520 20755628 - FroAMIRv0_Chr14g0254581 Fro14g01304 1304
1 61049722 61051151 - FsoAMIRv0_Chr01g0021221 Fso1g02123 2123
1 61219337 61223193 - FsoAMIRv0_Chr01g0021251 Fso1g02126 2126
2 12809126 12809778 + FtrAMIRv0_Chr02g0035471 Ftr2g00680 680
2 13134536 13136087 + FtrAMIRv0_Chr02g0035641 Ftr2g00697 697
1 3081612 3083586 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001701 Hean1g00151 151
1 3087057 3089181 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001711 Hean1g00152 152
1 3092443 3106368 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001721 Hean1g00153 153
1 3117519 3120121 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001731 Hean1g00154 154
1 3239492 3241519 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001751 Hean1g00155 155
1 3241521 3243679 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001761 Hean1g00156 156
1 3271928 3276228 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001771 Hean1g00157 157
1 3667398 3674458 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001811 Hean1g00158 158
1 3877695 3878554 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001831 Hean1g00159 159
1 3901165 3908924 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001851 Hean1g00160 160
11 117747560 117751717 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0497201 Hean11g02626 2626
1 5177849 5179822 - >Htub.h1tg003050l.g397.t1 Hetu1g00135 135
1 5185234 5185639 - >Htub.h1tg003050l.g398.t1 Hetu1g00136 136
1 5385998 5390849 - >Htub.h1tg003050l.g403.t1 Hetu1g00141 141
1 5661574 5663246 - >Htub.h1tg003050l.g411.t1 Hetu1g00148 148
2 6089054 6091011 - >Htub.h1tg000710l.g81.t1 Hetu2g00199 199
2 6151153 6153043 - >Htub.h1tg000710l.g86.t1 Hetu2g00203 203
2 6156635 6158548 - >Htub.h1tg000710l.g87.t1 Hetu2g00204 204
2 6359613 6366196 - >Htub.h1tg000710l.g88.t1 Hetu2g00205 205
2 6569431 6573962 - >Htub.h1tg000710l.g91.t1 Hetu2g00208 208
3 5101265 5103705 - >Htub.h1tg000727l.g35.t1 Hetu3g00136 136
3 5116145 5116559 - >Htub.h1tg000727l.g37.t1 Hetu3g00138 138
3 5441393 5444852 - >Htub.h1tg000727l.g45.t1 Hetu3g00146 146
3 5597994 5599612 - >Htub.h1tg000727l.g48.t1 Hetu3g00148 148
16 83669754 83671597 + KAD3338193.1 Mimi16g02123 2123
16 83685159 83692579 - KAD3338194.1 Mimi16g02124 2124
16 83697657 83702302 - KAD3338195.1 Mimi16g02125 2125
1 121761057 121762995 - KAI3829594.1 Smso1g03631 3631
1 121785752 121789230 - KAI3829596.1 Smso1g03633 3633
1 121795386 121799693 - KAI3829597.1 Smso1g03634 3634
20 57367472 57369616 + KAI3742704.1 Smso20g01708 1708
28 12852504 12856772 + KAI3682751.1 Smso28g00471 471
28 13034018 13035983 + KAI3682752.1 Smso28g00472 472
28 13087108 13087459 + KAI3682753.1 Smso28g00473 473
1 129898343 129901530 + Streb.1G043580.1 Stre1g04358 4358
1 129917628 129921566 - Streb.1G043610.1 Stre1g04361 4361
1 129962736 129967081 - Streb.1G043620.1 Stre1g04362 4362
1 129978047 129982008 - Streb.1G043630.1 Stre1g04363 4363
4 54343252 54344797 - >KAK1428193.1 Taer4g02412 2412
4 54360652 54365097 - >KAK1428195.1 Taer4g02414 2414
4 54394967 54399243 - >KAK1428197.1 Taer4g02416 2416
       
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