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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
Hean1g00311 Cobi2g02421 Bial10g01421 . Dapi4g01973 . Hetu1g00280 Hetu2g00275 Hetu3g00259 Amtr12g01637 Smso1g03734 Smso28g00413 Taer4g02546 Fro14g01385 Fso1g02251 Ftr2g00549 Fra18g01540 Fli3g00632 Stre1g04450 Mimi16g02193 Hean11g02501 . Bial12g02646 Bial24g02491 . Dapi31g02017 Hetu32g02128 Hetu31g02115 . Amtr07g04529 . Smso20g01622 . . . . . . . .
Hean1g00312 Cobi2g02424 Bial10g01422 . Dapi4g01976 . . . . Amtr12g01636 Smso1g03736 Smso28g00412 . . . . . . Stre1g04453 Mimi16g02194 . . . . . . . . . . . . . . . . . . . .
Hean1g00313 Cobi2g02425 Bial10g01423 . Dapi4g01977 . Hetu1g00282 Hetu2g00277 Hetu3g00262 Amtr12g01633 Smso1g03737 . Taer4g02550 Fro14g01387 . Ftr2g00546 Fra18g01542 Fli3g00631 Stre1g04459 Mimi16g02195 . . . . . . . . . . . . . . . . . . . .
Hean1g00314 . . . Dapi4g01978 . Hetu1g00283 Hetu2g00278 Hetu3g00264 Amtr12g01632 . Smso28g00411 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00315 Cobi2g02426 Bial10g01424 . Dapi4g01979 . Hetu1g00284 Hetu2g00279 Hetu3g00267 Amtr12g01631 . Smso28g00410 . . . . . . Stre1g04460 Mimi16g02196 . . . . . . . . . . . . . . . . . . . .
Hean1g00316 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00317 Cobi2g02429 Bial10g01426 . Dapi4g01980 . Hetu1g00285 Hetu2g00280 Hetu3g00268 Amtr12g01630 Smso1g03738 . Taer4g02553 Fro14g01388 Fso1g02253 Ftr2g00544 Fra18g01543 Fli3g00630 Stre1g04461 Mimi16g02197 Hean11g02498 . Bial12g02648 Bial24g02493 . Dapi31g02014 Hetu32g02122 Hetu31g02112 . Amtr07g04518 . Smso20g01626 . . . . . . . .
Hean1g00318 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00319 Cobi2g02430 Bial10g01427 . Dapi4g01981 . Hetu1g00286 Hetu2g00281 Hetu3g00269 Amtr12g01629 Smso1g03740 . . . . . Fra18g01546 Fli3g00626 Stre1g04462 Mimi16g02198 Hean11g02493 . . . . Dapi31g02013 Hetu32g02115 Hetu31g02108 . . . Smso29g01428 . . . . . . . .
Hean1g00320 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 94910140 94916502 - AtrifAMIRv0_Chr07g0496651 Amtr07g04518 4518
7 95067311 95075237 - AtrifAMIRv0_Chr07g0496761 Amtr07g04529 4529
12 38594771 38598298 - AtrifAMIRv0_Chr12g0733611 Amtr12g01629 1629
12 38612464 38617224 - AtrifAMIRv0_Chr12g0733621 Amtr12g01630 1630
12 38650866 38651972 - AtrifAMIRv0_Chr12g0733631 Amtr12g01631 1631
12 38655111 38657262 - AtrifAMIRv0_Chr12g0733641 Amtr12g01632 1632
12 38675541 38679016 - AtrifAMIRv0_Chr12g0733651 Amtr12g01633 1633
12 38736578 38739840 - AtrifAMIRv0_Chr12g0733681 Amtr12g01636 1636
12 38767291 38772812 - AtrifAMIRv0_Chr12g0733691 Amtr12g01637 1637
10 14276345 14282208 + g86748.t1 Bial10g01421 1421
10 14308823 14312168 + g86747.t1 Bial10g01422 1422
10 14323181 14326587 + g86746.t1 Bial10g01423 1423
10 14329267 14331578 + g86745.t1 Bial10g01424 1424
10 14351479 14357559 + g86743.t1 Bial10g01426 1426
10 14362001 14366177 + g86742.t1 Bial10g01427 1427
12 56706640 56717751 + g35845.t1 Bial12g02646 2646
12 56726457 56728774 + g35847.t1 Bial12g02648 2648
24 55725769 55733831 + g68157.t1 Bial24g02491 2491
24 55745571 55747880 + g68159.t1 Bial24g02493 2493
2 73117649 73123077 + h2tg000016l_1.g4825.t1 Cobi2g02421 2421
2 73182914 73187358 + h2tg000016l_1.g4822.t1 Cobi2g02424 2424
2 73210439 73213669 + h2tg000016l_1.g4821.t1 Cobi2g02425 2425
2 73232928 73234527 + h2tg000016l_1.g4820.t1 Cobi2g02426 2426
2 73250124 73255761 + h2tg000016l_1.g4817.t1 Cobi2g02429 2429
2 73298483 73303113 + h2tg000016l_1.g4816.t1 Cobi2g02430 2430
4 119695061 119701143 + h1tg000121l.g120143.t1 Dapi4g01973 1973
4 119756039 119759913 + h1tg000121l.g120140.t1 Dapi4g01976 1976
4 119801128 119804997 + h1tg000121l.g120139.t1 Dapi4g01977 1977
4 119820146 119821914 + h1tg000121l.g120138.t1 Dapi4g01978 1978
4 119863638 119865751 + h1tg000121l.g120137.t1 Dapi4g01979 1979
4 119887533 119893642 + h1tg000121l.g120136.t1 Dapi4g01980 1980
4 119922316 119927359 + h1tg000121l.g120135.t1 Dapi4g01981 1981
31 99227729 99233834 - h2tg000063l.g12098.t1 Dapi31g02013 2013
31 99249235 99259178 - h2tg000063l.g12099.t1 Dapi31g02014 2014
31 99331334 99340185 - h2tg000063l.g12102.t1 Dapi31g02017 2017
3 16152134 16153580 - FliAMIRv0_Chr03g0078951 Fli3g00626 626
3 16337505 16344964 - FliAMIRv0_Chr03g0078991 Fli3g00630 630
3 16385390 16390507 - FliAMIRv0_Chr03g0079001 Fli3g00631 631
3 16480086 16485947 - FliAMIRv0_Chr03g0079011 Fli3g00632 632
18 60404633 60410490 + FraAMIRv0_Chr18g0357371 Fra18g01540 1540
18 60445882 60449998 + FraAMIRv0_Chr18g0357391 Fra18g01542 1542
18 60455652 60462912 + FraAMIRv0_Chr18g0357401 Fra18g01543 1543
18 60481429 60485811 + FraAMIRv0_Chr18g0357431 Fra18g01546 1546
14 21887720 21893569 + FroAMIRv0_Chr14g0255391 Fro14g01385 1385
14 21923547 21927202 + FroAMIRv0_Chr14g0255411 Fro14g01387 1387
14 21935756 21945600 + FroAMIRv0_Chr14g0255421 Fro14g01388 1388
1 63690415 63693609 + FsoAMIRv0_Chr01g0022501 Fso1g02251 2251
1 63745864 63752536 + FsoAMIRv0_Chr01g0022521 Fso1g02253 2253
2 9718972 9727309 - FtrAMIRv0_Chr02g0034111 Ftr2g00544 544
2 9738623 9742469 - FtrAMIRv0_Chr02g0034131 Ftr2g00546 546
2 9776395 9776661 - FtrAMIRv0_Chr02g0034161 Ftr2g00549 549
1 8309961 8316777 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003501 Hean1g00311 311
1 8377003 8384163 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003521 Hean1g00312 312
1 8434546 8439541 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003531 Hean1g00313 313
1 8442161 8444739 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003541 Hean1g00314 314
1 8509656 8510954 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003551 Hean1g00315 315
1 8519431 8520368 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003561 Hean1g00316 316
1 8525738 8531701 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003571 Hean1g00317 317
1 8553341 8556896 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003581 Hean1g00318 318
1 8560239 8566729 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003591 Hean1g00319 319
1 8614929 8617648 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003601 Hean1g00320 320
11 108539134 108545560 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495681 Hean11g02493 2493
11 108799019 108805924 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495731 Hean11g02498 2498
11 109702957 109711481 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495771 Hean11g02501 2501
1 10637819 10644019 + >Htub.h1tg000402l.g8.t1 Hetu1g00280 280
1 10762522 10767634 + >Htub.h1tg000402l.g6.t1 Hetu1g00282 282
1 10775181 10777457 + >Htub.h1tg000402l.g5.t1 Hetu1g00283 283
1 10813574 10814672 + >Htub.h1tg000402l.g4.t1 Hetu1g00284 284
1 10849152 10853633 + >Htub.h1tg000402l.g3.t1 Hetu1g00285 285
1 10884199 10889566 + >Htub.h1tg000402l.g2.t1 Hetu1g00286 286
2 9681990 9688236 + >Htub.h2tg001300l.g339.t1 Hetu2g00275 275
2 9829304 9833593 + >Htub.h2tg001300l.g337.t1 Hetu2g00277 277
2 9835929 9838340 + >Htub.h2tg001300l.g336.t1 Hetu2g00278 278
2 9848713 9849514 + >Htub.h2tg001300l.g335.t1 Hetu2g00279 279
2 9925294 9930390 + >Htub.h2tg001300l.g334.t1 Hetu2g00280 280
2 9956079 9961465 + >Htub.h2tg001300l.g333.t1 Hetu2g00281 281
3 10625719 10631987 + >Htub.h1tg003572l.g285.t1 Hetu3g00259 259
3 10761258 10762170 + >Htub.h1tg003572l.g282.t1 Hetu3g00262 262
3 10787996 10791332 + >Htub.h1tg003572l.g280.t1 Hetu3g00264 264
3 10903808 10905054 + >Htub.h1tg003572l.g277.t1 Hetu3g00267 267
3 11003446 11008772 + >Htub.h1tg003572l.g276.t1 Hetu3g00268 268
3 11074227 11079674 + >Htub.h1tg003572l.g275.t1 Hetu3g00269 269
31 119789771 119795643 + >Htub.h1tg001293l.g183.t1 Hetu31g02108 2108
31 120144823 120149448 - >Htub.h1tg001293l.g187.t1 Hetu31g02112 2112
31 120298777 120305994 - >Htub.h1tg001293l.g191.t1 Hetu31g02115 2115
32 121140127 121145911 + >Htub.h1tg000110l.g70.t1 Hetu32g02115 2115
32 121846956 121851585 - >Htub.h1tg000110l.g63.t1 Hetu32g02122 2122
32 122083466 122090259 - >Htub.h1tg000110l.g56.t1 Hetu32g02128 2128
16 85194070 85200130 + KAD3338263.1 Mimi16g02193 2193
16 85228423 85232659 + KAD3338264.1 Mimi16g02194 2194
16 85252158 85256332 + KAD3338265.1 Mimi16g02195 2195
16 85283328 85287715 + KAD3338266.1 Mimi16g02196 2196
16 85291944 85299881 + KAD3338267.1 Mimi16g02197 2197
16 85321841 85327415 + KAD3338268.1 Mimi16g02198 2198
1 124085910 124092793 + KAI3829697.1 Smso1g03734 3734
1 124131068 124135112 + KAI3829699.1 Smso1g03736 3736
1 124141398 124145210 + KAI3829700.1 Smso1g03737 3737
1 124160002 124167549 + KAI3829701.1 Smso1g03738 3738
1 124182539 124187775 + KAI3829703.1 Smso1g03740 3740
20 53686744 53693280 + KAI3742618.1 Smso20g01622 1622
20 53865732 53871662 + KAI3742622.1 Smso20g01626 1626
28 10899678 10901625 - KAI3682690.1 Smso28g00410 410
28 10910314 10912388 - KAI3682691.1 Smso28g00411 411
28 10951321 10956077 - KAI3682692.1 Smso28g00412 412
28 11034178 11039484 - KAI3682693.1 Smso28g00413 413
29 39433013 39438573 + KAI3676422.1 Smso29g01428 1428
1 131644407 131653861 + Streb.1G044500.1 Stre1g04450 4450
1 131681596 131684811 + Streb.1G044530.1 Stre1g04453 4453
1 131831825 131837426 + Streb.1G044590.1 Stre1g04459 4459
1 131842629 131845123 + Streb.1G044600.1 Stre1g04460 4460
1 131863088 131869444 + Streb.1G044610.1 Stre1g04461 4461
1 131875269 131882317 + Streb.1G044620.1 Stre1g04462 4462
4 56166885 56174843 + >KAK1428323.1 Taer4g02546 2546
4 56232690 56236549 + >KAK1428327.1 Taer4g02550 2550
4 56254445 56259751 + >KAK1428330.1 Taer4g02553 2553
       
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