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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
Hean1g00211 . Bial10g01353 Bial22g00948 . Dapi20g01844 . . . . . . . Fro14g01331 Fso1g02170 Ftr2g00634 Fra18g01634 Fli3g00712 Stre1g04384 Mimi16g02146 . . . . . . . . . . . . . . . . . . . .
Hean1g00212 . Bial10g01354 Bial22g00949 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00213 . Bial10g01357 Bial22g00951 Dapi4g01900 Dapi20g01847 . . . . . Smso28g00453 . . . . . . . . Hean11g02532 Cobi6g01053 . Bial24g02556 Dapi4g01799 Dapi31g02034 Hetu32g02152 . Hetu33g02089 Amtr07g04607 . Smso20g01794 Taer4g02276 Fro13g01319 Fso12g01883 Ftr6g02274 Fra13g01455 Fli9g01357 Stre1g04238 Mimi16g02054
Hean1g00214 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00215 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00216 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00217 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00218 . . . . . Hetu1g00201 Hetu2g00241 Hetu3g00190 Amtr12g01678 Smso1g03653 . . Fro14g01333 Fso1g02173 Ftr2g00631 Fra18g01633 Fli3g00707 Stre1g04385 Mimi16g02147 . . . . . . . . . . . . . . . . . . . .
Hean1g00219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 97932712 97933340 - AtrifAMIRv0_Chr07g0497541 Amtr07g04607 4607
12 39699726 39700541 - AtrifAMIRv0_Chr12g0734101 Amtr12g01678 1678
10 13561153 13562529 - g86816.t1 Bial10g01353 1353
10 13567687 13568808 - g86815.t1 Bial10g01354 1354
10 13609859 13612105 + g86812.t1 Bial10g01357 1357
22 9131122 9132498 - g147086.t1 Bial22g00948 948
22 9137639 9138574 - g147085.t1 Bial22g00949 949
22 9166801 9169044 + g147083.t1 Bial22g00951 951
24 56428559 56428912 - g68222.t1 Bial24g02556 2556
6 8453555 8454433 + h2tg000031l_1.g19366.t1 Cobi6g01053 1053
4 114185995 114187357 - h1tg000180l.g132113.t1 Dapi4g01799 1799
4 117390051 117392263 + h1tg000193l.g132836.t1 Dapi4g01900 1900
20 108826326 108827738 - h1tg000169l.g129553.t1 Dapi20g01844 1844
20 109160284 109162499 + h1tg000169l.g129550.t1 Dapi20g01847 1847
31 100692089 100693336 - h2tg000063l.g12119.t1 Dapi31g02034 2034
3 19342581 19343765 + FliAMIRv0_Chr03g0079761 Fli3g00707 707
3 19453004 19454170 + FliAMIRv0_Chr03g0079811 Fli3g00712 712
9 70333114 70333927 - FliAMIRv0_Chr09g0221231 Fli9g01357 1357
13 42880139 42881085 + FraAMIRv0_Chr13g0267631 Fra13g01455 1455
18 63287968 63289161 + FraAMIRv0_Chr18g0358301 Fra18g01633 1633
18 63302253 63303620 + FraAMIRv0_Chr18g0358311 Fra18g01634 1634
13 22745714 22746596 - FroAMIRv0_Chr13g0235011 Fro13g01319 1319
14 21156633 21158018 - FroAMIRv0_Chr14g0254851 Fro14g01331 1331
14 21174393 21175598 - FroAMIRv0_Chr14g0254871 Fro14g01333 1333
1 62158319 62159686 - FsoAMIRv0_Chr01g0021691 Fso1g02170 2170
1 62205455 62205787 - FsoAMIRv0_Chr01g0021721 Fso1g02173 2173
12 57231543 57232482 - FsoAMIRv0_Chr12g0308471 Fso12g01883 1883
2 11687796 11688512 + FtrAMIRv0_Chr02g0034981 Ftr2g00631 631
2 11728586 11729956 + FtrAMIRv0_Chr02g0035011 Ftr2g00634 634
6 89494536 89495516 - FtrAMIRv0_Chr06g0184231 Ftr6g02274 2274
1 5765326 5768237 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002441 Hean1g00211 211
1 5783924 5786149 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002451 Hean1g00212 212
1 5798220 5800219 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002461 Hean1g00213 213
1 5839122 5844102 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002471 Hean1g00214 214
1 5860384 5861361 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002481 Hean1g00215 215
1 5862735 5865058 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002491 Hean1g00216 216
1 5886977 5887342 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002501 Hean1g00217 217
1 5888184 5890024 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002511 Hean1g00218 218
1 5906810 5908250 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002521 Hean1g00219 219
1 5944510 5944901 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002531 Hean1g00220 220
11 113297774 113298957 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0496131 Hean11g02532 2532
1 8048103 8049293 - >Htub.h1tg003050l.g468.t1 Hetu1g00201 201
2 8691985 8693175 - >Htub.h1tg000710l.g127.t1 Hetu2g00241 241
3 7955993 7957183 - >Htub.h1tg000727l.g91.t1 Hetu3g00190 190
32 124824244 124824612 - >Htub.h1tg000110l.g31.t1 Hetu32g02152 2152
33 117179010 117179435 - >Htub.h1tg000866l.g472.t1 Hetu33g02089 2089
16 82404017 82405929 + KAD3338124.1 Mimi16g02054 2054
16 84128379 84129776 - KAD3338216.1 Mimi16g02146 2146
16 84168085 84169281 - KAD3338217.1 Mimi16g02147 2147
1 122332081 122333259 - KAI3829616.1 Smso1g03653 3653
20 60940327 60941345 - KAI3742790.1 Smso20g01794 1794
28 12070285 12072762 - KAI3682733.1 Smso28g00453 453
1 128293100 128293538 - Streb.1G042380.1 Stre1g04238 4238
1 130381802 130383472 - Streb.1G043840.1 Stre1g04384 4384
1 130394590 130396394 - Streb.1G043850.1 Stre1g04385 4385
4 52239143 52239514 - >KAK1428059.1 Taer4g02276 2276
       
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