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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
Hean1g00661 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00662 . Bial10g01159 . . . Hetu1g01589 Hetu2g01364 Hetu3g01389 Amtr02g08736 . Smso28g00578 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00663 Cobi2g02098 Bial10g01160 Bial22g00764 Dapi4g01679 Dapi20g01612 Hetu1g01588 Hetu2g01363 Hetu3g01388 Amtr02g08735 . . . Fro14g01107 Fso1g01755 Ftr2g01200 Fra18g01389 Fli3g01012 Stre1g04152 . . . . . . . . . . . . . . . . . . . . .
Hean1g00664 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00665 Cobi2g02099 Bial10g01162 . Dapi4g01680 Dapi20g01613 Hetu1g01587 . . Amtr02g08731 Smso1g03444 Smso28g00577 . Fro14g01108 Fso1g01757 Ftr2g01196 Fra18g01388 Fli3g01009 Stre1g04154 . . . . . . . . . . . . . . . . . . . . .
Hean1g00666 . . Bial22g00765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00667 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00668 . . . . Dapi20g01614 Hetu1g01586 Hetu2g01359 Hetu3g01385 Amtr02g08730 Smso1g03446 . . Fro14g01109 Fso1g01759 Ftr2g01193 Fra18g01906 Fli3g01008 Stre1g04157 Mimi16g01902 Hean11g02835 Cobi6g00950 . Bial24g02665 . Dapi31g02160 Hetu32g02410 Hetu31g02399 Hetu33g02318 Amtr07g06056 Smso1g03446 . Taer4g00626 Fro13g01464 Fso12g02028 Ftr6g02431 Fra13g01324 Fli9g01526 Stre1g04157 .
Hean1g00669 . Bial10g01164 Bial22g00766 Dapi4g01683 Dapi20g01618 Hetu1g01584 Hetu2g01357 Hetu3g01383 Amtr02g08721 Smso1g03449 . . Fro14g01111 . Ftr2g01188 Fra18g01900 Fli3g01005 Stre1g04159 Mimi16g01904 Hean11g02836 Cobi6g00949 Bial12g02820 . Dapi4g01683 Dapi31g02161 Hetu32g02411 Hetu31g02400 Hetu33g02319 Amtr07g06055 Smso1g03449 Smso20g01747 Taer4g00625 Fro13g01465 Fso12g02029 Ftr6g02432 Fra13g01323 Fli9g01527 Stre1g04159 .
Hean1g00670 . Bial10g01165 . Dapi4g01684 Dapi20g01619 Hetu1g01583 Hetu2g01356 Hetu3g01382 Amtr02g08715 Smso1g03451 Smso28g00573 . Fro14g01113 Fso1g01782 Ftr2g01185 Fra18g01898 Fli3g01001 Stre1g04163 Mimi16g01906 . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 169123195 169126625 - AtrifAMIRv0_Chr02g0183111 Amtr02g08715 8715
2 169407380 169408902 - AtrifAMIRv0_Chr02g0183171 Amtr02g08721 8721
2 169576307 169579247 - AtrifAMIRv0_Chr02g0183261 Amtr02g08730 8730
2 169581657 169585386 + AtrifAMIRv0_Chr02g0183271 Amtr02g08731 8731
2 169621714 169625985 + AtrifAMIRv0_Chr02g0183311 Amtr02g08735 8735
2 169629040 169633691 + AtrifAMIRv0_Chr02g0183321 Amtr02g08736 8736
7 126863561 126864903 - AtrifAMIRv0_Chr07g0512021 Amtr07g06055 6055
7 126873573 126876975 - AtrifAMIRv0_Chr07g0512031 Amtr07g06056 6056
10 11565805 11569112 - g87010.t1 Bial10g01159 1159
10 11571502 11572379 - g87009.t1 Bial10g01160 1160
10 11575265 11578036 - g87007.t1 Bial10g01162 1162
10 11585807 11591930 + g87005.t1 Bial10g01164 1164
10 11593224 11596621 + g87004.t1 Bial10g01165 1165
12 58275966 58277621 + g36019.t1 Bial12g02820 2820
22 7319620 7322934 - g147270.t1 Bial22g00764 764
22 7325197 7328267 - g147269.t1 Bial22g00765 765
22 7334178 7335780 + g147268.t1 Bial22g00766 766
24 57400654 57403618 + g68331.t1 Bial24g02665 2665
2 64900464 64903712 + h2tg000016l_1.g5148.t1 Cobi2g02098 2098
2 64921308 64926549 + h2tg000016l_1.g5147.t1 Cobi2g02099 2099
6 7635888 7638265 - h2tg000031l_1.g19262.t1 Cobi6g00949 949
6 7642623 7644658 - h2tg000031l_1.g19263.t1 Cobi6g00950 950
4 103922956 103928134 - h2tg000160l.g57264.t1 Dapi4g01679 1679
4 104061632 104076186 - h2tg000160l.g57265.t1 Dapi4g01680 1680
4 104178172 104179508 + h2tg000160l.g57268.t1 Dapi4g01683 1683
4 104242227 104244895 + h2tg000160l.g57269.t1 Dapi4g01684 1684
20 95602160 95608495 - h2tg000075l.g16982.t1 Dapi20g01612 1612
20 95655388 95659784 - h2tg000075l.g16983.t1 Dapi20g01613 1613
20 95662783 95666826 + h2tg000075l.g16984.t1 Dapi20g01614 1614
20 95748290 95749712 + h2tg000075l.g16988.t1 Dapi20g01618 1618
20 95831263 95833980 + h2tg000075l.g16989.t1 Dapi20g01619 1619
31 105835819 105841429 + h2tg000063l.g12245.t1 Dapi31g02160 2160
31 105845192 105846862 + h2tg000063l.g12246.t1 Dapi31g02161 2161
3 30148763 30151401 - FliAMIRv0_Chr03g0082701 Fli3g01001 1001
3 30304286 30304618 - FliAMIRv0_Chr03g0082741 Fli3g01005 1005
3 30457560 30460247 - FliAMIRv0_Chr03g0082771 Fli3g01008 1008
3 30535705 30538777 + FliAMIRv0_Chr03g0082781 Fli3g01009 1009
3 30932561 30959060 + FliAMIRv0_Chr03g0082811 Fli3g01012 1012
9 74076000 74078709 + FliAMIRv0_Chr09g0222921 Fli9g01526 1526
9 74082851 74084283 + FliAMIRv0_Chr09g0222931 Fli9g01527 1527
13 41525121 41526828 - FraAMIRv0_Chr13g0266311 Fra13g01323 1323
13 41531870 41534713 - FraAMIRv0_Chr13g0266321 Fra13g01324 1324
18 52047061 52049922 + FraAMIRv0_Chr18g0355851 Fra18g01388 1388
18 52057486 52071515 + FraAMIRv0_Chr18g0355861 Fra18g01389 1389
18 72803032 72805592 + FraAMIRv0_Chr18g0360951 Fra18g01898 1898
18 72895758 72898127 - FraAMIRv0_Chr18g0360971 Fra18g01900 1900
18 72950035 72952644 - FraAMIRv0_Chr18g0361031 Fra18g01906 1906
13 24011326 24014013 + FroAMIRv0_Chr13g0236461 Fro13g01464 1464
13 24017633 24019271 + FroAMIRv0_Chr13g0236471 Fro13g01465 1465
14 17515072 17525239 - FroAMIRv0_Chr14g0252611 Fro14g01107 1107
14 17532769 17535819 - FroAMIRv0_Chr14g0252621 Fro14g01108 1108
14 17544687 17547450 + FroAMIRv0_Chr14g0252631 Fro14g01109 1109
14 17590764 17592788 + FroAMIRv0_Chr14g0252651 Fro14g01111 1111
14 17602017 17604644 + FroAMIRv0_Chr14g0252671 Fro14g01113 1113
1 50976169 50991182 - FsoAMIRv0_Chr01g0017541 Fso1g01755 1755
1 51089514 51092696 - FsoAMIRv0_Chr01g0017561 Fso1g01757 1757
1 51118724 51121220 + FsoAMIRv0_Chr01g0017581 Fso1g01759 1759
1 51702262 51704906 - FsoAMIRv0_Chr01g0017811 Fso1g01782 1782
12 59150591 59153338 + FsoAMIRv0_Chr12g0309921 Fso12g02028 2028
12 59159287 59160967 + FsoAMIRv0_Chr12g0309931 Fso12g02029 2029
2 31227358 31230539 - FtrAMIRv0_Chr02g0040521 Ftr2g01185 1185
2 31324537 31326779 - FtrAMIRv0_Chr02g0040551 Ftr2g01188 1188
2 31598861 31601443 - FtrAMIRv0_Chr02g0040601 Ftr2g01193 1193
2 31649390 31652397 + FtrAMIRv0_Chr02g0040631 Ftr2g01196 1196
2 31730113 31731196 + FtrAMIRv0_Chr02g0040671 Ftr2g01200 1200
6 91694383 91697111 + FtrAMIRv0_Chr06g0185791 Ftr6g02431 2431
6 91703574 91705330 + FtrAMIRv0_Chr06g0185801 Ftr6g02432 2432
1 33843908 33845006 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007491 Hean1g00661 661
1 33957507 33961930 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007501 Hean1g00662 662
1 33980278 33989582 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007511 Hean1g00663 663
1 34009170 34012181 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007521 Hean1g00664 664
1 34018906 34019205 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007531 Hean1g00665 665
1 34019906 34020349 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007541 Hean1g00666 666
1 34097153 34100281 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007551 Hean1g00667 667
1 34208238 34211723 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007561 Hean1g00668 668
1 34255219 34258383 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007581 Hean1g00669 669
1 34323971 34328890 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007601 Hean1g00670 670
11 132049568 132054193 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0499921 Hean11g02835 2835
11 132057582 132060930 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0499931 Hean11g02836 2836
1 85882096 85885302 - >Htub.h1tg002297l.g221.t1 Hetu1g01583 1583
1 85983844 85985389 - >Htub.h1tg002297l.g222.t1 Hetu1g01584 1584
1 86054121 86057003 - >Htub.h1tg002297l.g224.t1 Hetu1g01586 1586
1 86134948 86142535 + >Htub.h1tg002297l.g225.t1 Hetu1g01587 1587
1 86156656 86161398 + >Htub.h1tg002297l.g226.t1 Hetu1g01588 1588
1 86250901 86254725 + >Htub.h1tg002297l.g227.t1 Hetu1g01589 1589
2 75948204 75951403 - >Htub.h1tg000330l.g415.t1 Hetu2g01356 1356
2 76066062 76067539 - >Htub.h1tg000330l.g414.t1 Hetu2g01357 1357
2 76125336 76128210 - >Htub.h1tg000330l.g412.t1 Hetu2g01359 1359
2 76390598 76393588 + >Htub.h1tg000330l.g408.t1 Hetu2g01363 1363
2 76555560 76559149 + >Htub.h1tg000330l.g407.t1 Hetu2g01364 1364
3 75360975 75363850 - >Htub.h1tg000150l.g112.t1 Hetu3g01382 1382
3 75416572 75418118 - >Htub.h1tg000150l.g111.t1 Hetu3g01383 1383
3 75449918 75452800 - >Htub.h1tg000150l.g109.t1 Hetu3g01385 1385
3 75565935 75570979 + >Htub.h1tg000150l.g106.t1 Hetu3g01388 1388
3 75713034 75717358 + >Htub.h1tg000150l.g104.t1 Hetu3g01389 1389
31 140177220 140181305 + >Htub.h1tg000896l.g612.t1 Hetu31g02399 2399
31 140185454 140186828 + >Htub.h1tg000896l.g613.t1 Hetu31g02400 2400
32 142052298 142056497 + >Htub.h1tg001182l.g285.t1 Hetu32g02410 2410
32 142060341 142061715 + >Htub.h1tg001182l.g284.t1 Hetu32g02411 2411
33 133260937 133265022 + >Htub.h1tg000530l.g87.t1 Hetu33g02318 2318
33 133269176 133270550 + >Htub.h1tg000530l.g86.t1 Hetu33g02319 2319
16 79414676 79418367 + KAD3337972.1 Mimi16g01902 1902
16 79440515 79442017 + KAD3337974.1 Mimi16g01904 1904
16 79462639 79470228 + KAD3337976.1 Mimi16g01906 1906
1 117627194 117631629 - KAI3829407.1 Smso1g03444 3444
1 117668101 117671741 + KAI3829409.1 Smso1g03446 3446
1 117684089 117686155 + KAI3829412.1 Smso1g03449 3449
1 117697561 117700197 - KAI3829414.1 Smso1g03451 3451
20 59429834 59431830 + KAI3742743.1 Smso20g01747 1747
28 18966532 18970879 + KAI3682853.1 Smso28g00573 573
28 19309080 19313151 + KAI3682857.1 Smso28g00577 577
28 19330444 19347725 + KAI3682858.1 Smso28g00578 578
1 126637334 126641008 - Streb.1G041520.1 Stre1g04152 4152
1 126643028 126646394 + Streb.1G041540.1 Stre1g04154 4154
1 126684467 126687277 + Streb.1G041570.1 Stre1g04157 4157
1 126691625 126693983 + Streb.1G041590.1 Stre1g04159 4159
1 126864512 126868746 + Streb.1G041630.1 Stre1g04163 4163
4 4805292 4807456 - >KAK1426559.1 Taer4g00625 625
4 4810096 4813485 - >KAK1426560.1 Taer4g00626 626
       
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