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
Hean1g00351 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00352 Cobi2g02448 . . . . . . . . . . Taer4g02584 Fro14g01405 Fso1g02291 Ftr2g00502 Fra18g01562 Fli3g00598 Stre1g04477 . . . . . . . . . . . . . . . . . . . . .
Hean1g00353 . . . . . . . . Amtr12g00908 Smso1g03754 Smso28g00394 . . . . . . . Mimi16g02222 . . . . . . . . . . . . . . . . . . . .
Hean1g00354 Cobi2g02450 Bial10g01444 . Dapi4g02003 . Hetu1g00341 . Hetu3g00306 . Smso1g03755 . Taer4g02586 Fro14g01407 . . Fra18g01563 Fli3g00597 Stre1g04478 Mimi16g02223 Hean11g02472 . Bial12g02660 Bial24g02502 . Dapi31g02003 Hetu32g02095 Hetu31g02085 . Amtr07g04494 . Smso29g01440 . . . . . . . .
Hean1g00355 . Bial10g01445 . Dapi4g02004 . Hetu1g00342 . Hetu3g00309 . Smso1g03757 Smso28g00393 Taer4g02587 Fro14g01409 Fso1g02292 Ftr2g00501 Fra18g01564 Fli3g00596 Stre1g04479 Mimi16g02224 . . . . . . . . . . . . . . . . . . . .
Hean1g00356 Cobi2g02452 Bial10g01446 . Dapi4g02005 . Hetu1g00344 . Hetu3g00311 . Smso1g03758 Smso28g00392 Taer4g02588 Fro14g01410 Fso1g02293 Ftr2g00500 Fra18g01565 Fli3g00594 Stre1g04480 Mimi16g02228 . . . . . . . . . . . . . . . . . . . .
Hean1g00357 Cobi2g02453 Bial10g01447 . Dapi4g02006 . Hetu1g00346 Hetu2g00309 Hetu3g00312 Amtr12g00912 Smso1g03759 Smso28g00391 Taer4g02589 Fro14g01411 Fso1g02294 Ftr2g00499 Fra18g01566 Fli3g00593 Stre1g04481 Mimi16g02229 . . . . . . . . . . . . . . . . . . . .
Hean1g00358 Cobi2g02455 Bial10g01448 . . . . . . Amtr12g00913 Smso1g03760 . Taer4g02590 Fro14g01412 Fso1g02295 Ftr2g00498 Fra18g01567 Fli3g00592 Stre1g04482 Mimi16g02230 . . . . . . . . . . . . . . . . . . . .
Hean1g00359 Cobi2g02456 Bial10g01449 . Dapi4g02008 . Hetu1g00349 Hetu2g00429 Hetu3g00317 Amtr12g00914 Smso1g03761 Smso28g00390 . . . . . . Stre1g04483 Mimi16g02231 . . . . . . . . . . . . . . . . . . . .
Hean1g00360 Cobi2g02457 Bial10g01451 . Dapi4g02009 . Hetu1g00350 Hetu2g00312 Hetu3g00318 Amtr12g00915 Smso1g03762 . Taer4g02595 Fro14g01414 . Ftr2g00496 Fra18g01569 Fli3g00586 Stre1g04484 Mimi16g02232 . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 94131935 94138207 - AtrifAMIRv0_Chr07g0496411 Amtr07g04494 4494
12 24904489 24906981 - AtrifAMIRv0_Chr12g0726401 Amtr12g00908 908
12 24946194 24950738 + AtrifAMIRv0_Chr12g0726441 Amtr12g00912 912
12 24951543 24952643 - AtrifAMIRv0_Chr12g0726451 Amtr12g00913 913
12 24962277 24969092 - AtrifAMIRv0_Chr12g0726461 Amtr12g00914 914
12 24975271 24976578 + AtrifAMIRv0_Chr12g0726471 Amtr12g00915 915
10 14638693 14645966 + g86725.t1 Bial10g01444 1444
10 14647252 14650462 - g86724.t1 Bial10g01445 1445
10 14653259 14655697 - g86723.t1 Bial10g01446 1446
10 14657779 14660949 + g86722.t1 Bial10g01447 1447
10 14661905 14662780 - g86721.t1 Bial10g01448 1448
10 14669770 14673560 - g86720.t1 Bial10g01449 1449
10 14677392 14678219 + g86718.t1 Bial10g01451 1451
12 56856289 56858546 + g35859.t1 Bial12g02660 2660
24 55866685 55873191 + g68168.t1 Bial24g02502 2502
2 73606471 73608495 - h2tg000016l_1.g4798.t1 Cobi2g02448 2448
2 73624826 73631660 + h2tg000016l_1.g4796.t1 Cobi2g02450 2450
2 73649206 73656169 - h2tg000016l_1.g4794.t1 Cobi2g02452 2452
2 73672193 73672956 + h2tg000016l_1.g4793.t1 Cobi2g02453 2453
2 73683778 73684620 - h2tg000016l_1.g4791.t1 Cobi2g02455 2455
2 73694259 73701336 - h2tg000016l_1.g4790.t1 Cobi2g02456 2456
2 73719019 73719952 + h2tg000016l_1.g4789.t1 Cobi2g02457 2457
4 121272445 121279496 + h1tg000121l.g120113.t1 Dapi4g02003 2003
4 121281799 121284872 - h1tg000121l.g120112.t1 Dapi4g02004 2004
4 121288027 121293098 - h1tg000121l.g120111.t1 Dapi4g02005 2005
4 121294733 121298111 + h1tg000121l.g120110.t1 Dapi4g02006 2006
4 121329368 121336665 - h1tg000121l.g120108.t1 Dapi4g02008 2008
4 121342158 121343052 + h1tg000121l.g120107.t1 Dapi4g02009 2009
31 98803534 98810871 - h2tg000063l.g12088.t1 Dapi31g02003 2003
3 14730406 14730910 - FliAMIRv0_Chr03g0078551 Fli3g00586 586
3 14847407 14848572 + FliAMIRv0_Chr03g0078611 Fli3g00592 592
3 14851008 14865953 - FliAMIRv0_Chr03g0078621 Fli3g00593 593
3 14867971 14871526 + FliAMIRv0_Chr03g0078631 Fli3g00594 594
3 14882664 14887801 + FliAMIRv0_Chr03g0078651 Fli3g00596 596
3 14889337 14897609 - FliAMIRv0_Chr03g0078661 Fli3g00597 597
3 14942493 14946257 + FliAMIRv0_Chr03g0078671 Fli3g00598 598
18 60929990 60934325 - FraAMIRv0_Chr18g0357591 Fra18g01562 1562
18 60944446 60952941 + FraAMIRv0_Chr18g0357601 Fra18g01563 1563
18 60954431 60959151 - FraAMIRv0_Chr18g0357611 Fra18g01564 1564
18 60965049 60968657 - FraAMIRv0_Chr18g0357621 Fra18g01565 1565
18 60986718 60990593 + FraAMIRv0_Chr18g0357631 Fra18g01566 1566
18 60991362 60992452 - FraAMIRv0_Chr18g0357641 Fra18g01567 1567
18 61011759 61012263 + FraAMIRv0_Chr18g0357661 Fra18g01569 1569
14 22367994 22372644 - FroAMIRv0_Chr14g0255591 Fro14g01405 1405
14 22385710 22393962 + FroAMIRv0_Chr14g0255611 Fro14g01407 1407
14 22400763 22404147 - FroAMIRv0_Chr14g0255631 Fro14g01409 1409
14 22411046 22414556 - FroAMIRv0_Chr14g0255641 Fro14g01410 1410
14 22415590 22419167 + FroAMIRv0_Chr14g0255651 Fro14g01411 1411
14 22423443 22424558 - FroAMIRv0_Chr14g0255661 Fro14g01412 1412
14 22446937 22447441 + FroAMIRv0_Chr14g0255681 Fro14g01414 1414
1 64611134 64615065 - FsoAMIRv0_Chr01g0022901 Fso1g02291 2291
1 64642983 64644687 - FsoAMIRv0_Chr01g0022911 Fso1g02292 2292
1 64650674 64655346 - FsoAMIRv0_Chr01g0022921 Fso1g02293 2293
1 64669749 64673233 + FsoAMIRv0_Chr01g0022931 Fso1g02294 2294
1 64674697 64675811 - FsoAMIRv0_Chr01g0022941 Fso1g02295 2295
2 8010448 8010955 - FtrAMIRv0_Chr02g0033631 Ftr2g00496 496
2 8028739 8029696 + FtrAMIRv0_Chr02g0033651 Ftr2g00498 498
2 8032063 8036436 - FtrAMIRv0_Chr02g0033661 Ftr2g00499 499
2 8050827 8054619 + FtrAMIRv0_Chr02g0033671 Ftr2g00500 500
2 8089188 8094252 + FtrAMIRv0_Chr02g0033681 Ftr2g00501 501
2 8120751 8120954 + FtrAMIRv0_Chr02g0033691 Ftr2g00502 502
1 9975914 9979307 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003931 Hean1g00351 351
1 9992525 9993409 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003951 Hean1g00352 352
1 9997429 9998043 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003961 Hean1g00353 353
1 10014192 10030021 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003971 Hean1g00354 354
1 10031085 10035934 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003981 Hean1g00355 355
1 10039941 10046614 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003991 Hean1g00356 356
1 10081764 10089494 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004001 Hean1g00357 357
1 10090077 10091841 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004011 Hean1g00358 358
1 10103462 10111447 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004021 Hean1g00359 359
1 10114948 10117381 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004031 Hean1g00360 360
11 107899327 107909311 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495441 Hean11g02472 2472
1 15467330 15477274 + >Htub.h1tg000484l.g171.t1 Hetu1g00341 341
1 15480781 15486475 - >Htub.h1tg000484l.g170.t1 Hetu1g00342 342
1 15503840 15505616 - >Htub.h1tg000484l.g168.t1 Hetu1g00344 344
1 15517800 15553308 + >Htub.h1tg000484l.g166.t1 Hetu1g00346 346
1 15568826 15571618 - >Htub.h1tg000484l.g163.t1 Hetu1g00349 349
1 15595747 15596975 + >Htub.h1tg000484l.g162.t1 Hetu1g00350 350
2 12012472 12017189 + >Htub.h2tg000795l.g149.t1 Hetu2g00309 309
2 12071760 12073032 + >Htub.h2tg000795l.g152.t1 Hetu2g00312 312
2 20008485 20012098 - >Htub.h2tg000831l.g78.t1 Hetu2g00429 429
3 12882778 12892478 + >Htub.h1tg001937l.g59.t1 Hetu3g00306 306
3 12904685 12905926 - >Htub.h1tg001937l.g56.t1 Hetu3g00309 309
3 12913253 12917223 - >Htub.h1tg001937l.g54.t1 Hetu3g00311 311
3 12938324 12943185 + >Htub.h1tg001937l.g53.t1 Hetu3g00312 312
3 12975943 12981348 - >Htub.h1tg001937l.g48.t1 Hetu3g00317 317
3 13018688 13020191 + >Htub.h1tg001937l.g47.t1 Hetu3g00318 318
31 118578742 118585319 - >Htub.h1tg001293l.g160.t1 Hetu31g02085 2085
32 119666254 119672810 - >Htub.h1tg003119l.g177.t1 Hetu32g02095 2095
16 85918290 85919672 - KAD3338292.1 Mimi16g02222 2222
16 85928770 85936768 + KAD3338293.1 Mimi16g02223 2223
16 85938088 85944745 - KAD3338294.1 Mimi16g02224 2224
16 85964533 85972580 - KAD3338298.1 Mimi16g02228 2228
16 85974500 85978582 + KAD3338299.1 Mimi16g02229 2229
16 85982041 85982702 - KAD3338300.1 Mimi16g02230 2230
16 86001651 86009274 - KAD3338301.1 Mimi16g02231 2231
16 86012916 86013945 + KAD3338302.1 Mimi16g02232 2232
1 124767405 124775178 - KAI3829717.1 Smso1g03754 3754
1 124783447 124792412 + KAI3829718.1 Smso1g03755 3755
1 124804575 124809434 - KAI3829720.1 Smso1g03757 3757
1 124843033 124846593 - KAI3829721.1 Smso1g03758 3758
1 124847865 124851782 + KAI3829722.1 Smso1g03759 3759
1 124852767 124853821 - KAI3829723.1 Smso1g03760 3760
1 124873082 124880310 - KAI3829724.1 Smso1g03761 3761
1 124887566 124890116 + KAI3829725.1 Smso1g03762 3762
28 10054414 10061881 - KAI3682670.1 Smso28g00390 390
28 10173756 10177450 - KAI3682671.1 Smso28g00391 391
28 10179970 10183472 + KAI3682672.1 Smso28g00392 392
28 10193347 10197259 + KAI3682673.1 Smso28g00393 393
28 10214032 10216257 + KAI3682674.1 Smso28g00394 394
29 39700161 39713318 + KAI3676434.1 Smso29g01440 1440
1 132407334 132409271 - Streb.1G044770.1 Stre1g04477 4477
1 132414257 132421634 + Streb.1G044780.1 Stre1g04478 4478
1 132421898 132425931 - Streb.1G044790.1 Stre1g04479 4479
1 132427111 132430673 - Streb.1G044800.1 Stre1g04480 4480
1 132432045 132434782 + Streb.1G044810.1 Stre1g04481 4481
1 132435423 132436213 - Streb.1G044820.1 Stre1g04482 4482
1 132438518 132443146 - Streb.1G044830.1 Stre1g04483 4483
1 132446737 132447448 + Streb.1G044840.1 Stre1g04484 4484
4 56802303 56804177 - >KAK1428361.1 Taer4g02584 2584
4 56810895 56817623 + >KAK1428363.1 Taer4g02586 2586
4 56818918 56822188 - >KAK1428364.1 Taer4g02587 2587
4 56835632 56839364 - >KAK1428365.1 Taer4g02588 2588
4 56841511 56845423 + >KAK1428366.1 Taer4g02589 2589
4 56860716 56861671 - >KAK1428367.1 Taer4g02590 2590
4 56908579 56909482 + >KAK1428372.1 Taer4g02595 2595
       
DecoBrowse