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
Hean1g00321 Cobi2g02431 . . . . . . . Amtr12g00862 . . Taer4g02555 Fro14g01390 Fso1g02257 Ftr2g00538 Fra18g01547 Fli3g00621 Stre1g04463 Mimi16g02201 . . . . . . . . . . . . . . . . . . . .
Hean1g00322 Cobi2g02433 Bial10g01430 . . . . . . Amtr12g00863 Smso1g03742 . Taer4g02556 Fro14g01391 Fso1g02261 . Fra18g01548 Fli3g00616 Stre1g04464 Mimi16g02202 . . . . . . . . . . . . . . . . . . . .
Hean1g00323 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00324 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00325 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00326 . . . . . Hetu1g00293 . Hetu3g00275 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00327 Cobi2g02437 Bial10g01431 . Dapi4g01985 . Hetu1g00294 Hetu2g00284 . Amtr12g00865 Smso1g03743 Smso28g00408 . . . . . . Stre1g04465 Mimi16g02204 Hean11g02488 . Bial12g02652 Bial24g02496 . Dapi31g02010 Hetu32g02114 Hetu31g02106 . Amtr07g04516 . Smso20g01631 . . . . . . . .
Hean1g00328 Cobi2g02442 Bial10g01432 . Dapi4g01986 . Hetu1g00295 Hetu2g00285 Hetu3g00276 Amtr12g00867 Smso1g03744 Smso28g00407 . . . . . . Stre1g04466 Mimi16g02205 . . . . . . . . . . . . . . . . . . . .
Hean1g00329 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00330 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 94793958 94820893 - AtrifAMIRv0_Chr07g0496631 Amtr07g04516 4516
12 24021326 24023160 + AtrifAMIRv0_Chr12g0725941 Amtr12g00862 862
12 24052728 24056820 + AtrifAMIRv0_Chr12g0725951 Amtr12g00863 863
12 24102675 24121409 + AtrifAMIRv0_Chr12g0725971 Amtr12g00865 865
12 24147202 24154738 - AtrifAMIRv0_Chr12g0725991 Amtr12g00867 867
10 14393683 14397974 + g86739.t1 Bial10g01430 1430
10 14417408 14434951 + g86738.t1 Bial10g01431 1431
10 14452577 14460619 - g86737.t1 Bial10g01432 1432
12 56764181 56782069 + g35851.t1 Bial12g02652 2652
24 55767181 55784535 + g68162.t1 Bial24g02496 2496
2 73345273 73347260 + h2tg000016l_1.g4815.t1 Cobi2g02431 2431
2 73367553 73371294 + h2tg000016l_1.g4813.t1 Cobi2g02433 2433
2 73411813 73429146 + h2tg000016l_1.g4809.t1 Cobi2g02437 2437
2 73473790 73481928 - h2tg000016l_1.g4804.t1 Cobi2g02442 2442
4 120153716 120173973 + h1tg000121l.g120131.t1 Dapi4g01985 1985
4 120195786 120214648 - h1tg000121l.g120130.t1 Dapi4g01986 1986
31 99082911 99102238 - h2tg000063l.g12095.t1 Dapi31g02010 2010
3 15988261 15988542 - FliAMIRv0_Chr03g0078851 Fli3g00616 616
3 16037759 16041219 - FliAMIRv0_Chr03g0078901 Fli3g00621 621
18 60515491 60517590 + FraAMIRv0_Chr18g0357441 Fra18g01547 1547
18 60558505 60562658 + FraAMIRv0_Chr18g0357451 Fra18g01548 1548
14 22000085 22002195 + FroAMIRv0_Chr14g0255441 Fro14g01390 1390
14 22021347 22025387 + FroAMIRv0_Chr14g0255451 Fro14g01391 1391
1 63814275 63816353 + FsoAMIRv0_Chr01g0022561 Fso1g02257 2257
1 63860815 63861021 + FsoAMIRv0_Chr01g0022601 Fso1g02261 2261
2 9620764 9621057 - FtrAMIRv0_Chr02g0034051 Ftr2g00538 538
1 8660795 8664217 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003611 Hean1g00321 321
1 8678626 8683161 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003621 Hean1g00322 322
1 8692901 8693599 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003631 Hean1g00323 323
1 8706541 8707424 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003641 Hean1g00324 324
1 8718887 8723620 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003651 Hean1g00325 325
1 8735730 8736393 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003661 Hean1g00326 326
1 8736673 8757261 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003671 Hean1g00327 327
1 8827031 8839327 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003691 Hean1g00328 328
1 8843064 8843461 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003701 Hean1g00329 329
1 8927206 8937455 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003711 Hean1g00330 330
11 108351724 108367919 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495601 Hean11g02488 2488
1 11304038 11305088 + >Htub.h1tg000484l.g220.t1 Hetu1g00293 293
1 11310587 11324558 + >Htub.h1tg000484l.g218.t1 Hetu1g00294 294
1 11369418 11377644 - >Htub.h1tg000484l.g217.t1 Hetu1g00295 295
2 10201963 10216497 + >Htub.h2tg001300l.g329.t1 Hetu2g00284 284
2 10255093 10264707 - >Htub.h2tg001300l.g328.t1 Hetu2g00285 285
3 11384667 11386006 + >Htub.h1tg003572l.g269.t1 Hetu3g00275 275
3 11452386 11460612 - >Htub.h1tg003572l.g267.t1 Hetu3g00276 276
31 119435979 119445129 + >Htub.h1tg001293l.g181.t1 Hetu31g02106 2106
32 120888209 120897905 + >Htub.h1tg000110l.g71.t1 Hetu32g02114 2114
16 85411134 85412988 + KAD3338271.1 Mimi16g02201 2201
16 85429922 85435135 + KAD3338272.1 Mimi16g02202 2202
16 85481512 85501214 + KAD3338274.1 Mimi16g02204 2204
16 85529091 85537699 - KAD3338275.1 Mimi16g02205 2205
1 124316709 124320162 + KAI3829705.1 Smso1g03742 3742
1 124365609 124384681 + KAI3829706.1 Smso1g03743 3743
1 124427979 124437208 - KAI3829707.1 Smso1g03744 3744
20 54096959 54125541 + KAI3742627.1 Smso20g01631 1631
28 10653304 10661564 + KAI3682687.1 Smso28g00407 407
28 10680458 10703907 - KAI3682688.1 Smso28g00408 408
1 131909125 131911243 + Streb.1G044630.1 Stre1g04463 4463
1 131937573 131942099 + Streb.1G044640.1 Stre1g04464 4464
1 132005015 132022069 + Streb.1G044650.1 Stre1g04465 4465
1 132044373 132053667 - Streb.1G044660.1 Stre1g04466 4466
4 56330387 56332903 + >KAK1428332.1 Taer4g02555 2555
4 56358298 56361552 + >KAK1428333.1 Taer4g02556 2556
       
DecoBrowse