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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
Hean1g00641 . . . . . . . . . Smso1g03432 Smso28g00589 . Fro14g01094 Fso1g01728 Ftr2g01238 Fra18g01467 Fli3g01029 . . . . . . . . . . . . . . . . . . . . . .
Hean1g00642 Cobi2g02079 Bial10g01149 Bial22g00755 Dapi4g01664 Dapi20g01595 . . . Amtr02g08766 Smso1g03433 Smso28g00588 Taer4g01889 Fro14g01097 Fso1g01739 Ftr2g01224 Fra18g01403 Fli3g01024 Stre1g04143 Mimi16g01896 . . . . . . . . . . . . . . . . . . . .
Hean1g00643 Cobi2g02080 Bial10g01150 Bial22g00756 Dapi4g01665 Dapi20g01596 Hetu1g01607 Hetu2g01385 Hetu3g01401 Amtr02g08765 Smso1g03434 Smso28g00587 Taer4g01888 Fro14g01098 Fso1g01740 Ftr2g01223 Fra18g01402 Fli3g01023 Stre1g04144 Mimi16g01897 . . . . . . . . . . . . . . . . . . . .
Hean1g00644 Cobi2g02087 Bial10g01153 Bial22g00758 . Dapi20g01598 Hetu1g01605 Hetu2g01382 Hetu3g01400 Amtr02g08764 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00645 . . . . . . . . . Smso1g03435 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00646 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00647 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00648 . . . Dapi4g01667 Dapi20g01599 Hetu1g01598 Hetu2g01380 Hetu3g01399 Amtr02g08762 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00649 Cobi2g02091 Bial10g01155 Bial22g00761 Dapi4g01669 Dapi20g01602 Hetu1g01597 Hetu2g01373 Hetu3g01395 Amtr02g08759 . . . Fro14g01100 Fso1g01742 Ftr2g01215 Fra18g01397 Fli3g01020 Stre1g04145 . . . . . . . . . . . . . . . . . . . . .
Hean1g00650 Cobi2g02092 Bial10g01156 Bial22g00762 Dapi4g01670 Dapi20g01603 Hetu1g01596 Hetu2g01372 Hetu3g01394 Amtr02g08758 Smso1g03436 Smso28g00583 . . . . . . Stre1g04146 . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 170569706 170571946 + AtrifAMIRv0_Chr02g0183541 Amtr02g08758 8758
2 170573637 170574116 - AtrifAMIRv0_Chr02g0183551 Amtr02g08759 8759
2 170593187 170601367 + AtrifAMIRv0_Chr02g0183581 Amtr02g08762 8762
2 170659881 170663255 + AtrifAMIRv0_Chr02g0183601 Amtr02g08764 8764
2 170675731 170680955 + AtrifAMIRv0_Chr02g0183611 Amtr02g08765 8765
2 170681173 170682944 - AtrifAMIRv0_Chr02g0183621 Amtr02g08766 8766
10 11476357 11478203 + g87020.t1 Bial10g01149 1149
10 11478368 11483000 - g87019.t1 Bial10g01150 1150
10 11501094 11503770 - g87016.t1 Bial10g01153 1153
10 11537564 11539233 + g87014.t1 Bial10g01155 1155
10 11539423 11541714 - g87013.t1 Bial10g01156 1156
22 7240521 7242372 + g147279.t1 Bial22g00755 755
22 7242541 7247096 - g147278.t1 Bial22g00756 756
22 7266875 7269576 - g147276.t1 Bial22g00758 758
22 7301203 7301682 + g147273.t1 Bial22g00761 761
22 7303008 7305293 - g147272.t1 Bial22g00762 762
2 64514390 64515977 + h2tg000016l_1.g5167.t1 Cobi2g02079 2079
2 64516149 64521247 - h2tg000016l_1.g5166.t1 Cobi2g02080 2080
2 64701696 64705525 - h2tg000016l_1.g5159.t1 Cobi2g02087 2087
2 64789039 64789518 + h2tg000016l_1.g5155.t1 Cobi2g02091 2091
2 64803124 64805873 + h2tg000016l_1.g5154.t1 Cobi2g02092 2092
4 102805497 102807048 + h2tg000160l.g57249.t1 Dapi4g01664 1664
4 102807279 102811373 - h2tg000160l.g57250.t1 Dapi4g01665 1665
4 102944475 102949516 - h2tg000160l.g57252.t1 Dapi4g01667 1667
4 103261790 103262269 + h2tg000160l.g57254.t1 Dapi4g01669 1669
4 103265710 103267980 - h2tg000160l.g57255.t1 Dapi4g01670 1670
20 94500081 94501655 + h2tg000075l.g16965.t1 Dapi20g01595 1595
20 94501886 94505935 - h2tg000075l.g16966.t1 Dapi20g01596 1596
20 94613396 94616123 - h2tg000075l.g16968.t1 Dapi20g01598 1598
20 94653199 94657330 - h2tg000075l.g16969.t1 Dapi20g01599 1599
20 95030047 95030526 + h2tg000075l.g16972.t1 Dapi20g01602 1602
20 95034243 95036534 - h2tg000075l.g16973.t1 Dapi20g01603 1603
3 31588402 31588881 - FliAMIRv0_Chr03g0082891 Fli3g01020 1020
3 31881392 31885442 + FliAMIRv0_Chr03g0082921 Fli3g01023 1023
3 31885655 31887788 - FliAMIRv0_Chr03g0082931 Fli3g01024 1024
3 32323829 32325514 + FliAMIRv0_Chr03g0082981 Fli3g01029 1029
18 52404314 52404793 - FraAMIRv0_Chr18g0355941 Fra18g01397 1397
18 52483522 52487558 + FraAMIRv0_Chr18g0355991 Fra18g01402 1402
18 52487765 52489696 - FraAMIRv0_Chr18g0356001 Fra18g01403 1403
18 58562013 58565503 - FraAMIRv0_Chr18g0356641 Fra18g01467 1467
14 17312786 17316332 - FroAMIRv0_Chr14g0252481 Fro14g01094 1094
14 17359208 17361228 + FroAMIRv0_Chr14g0252511 Fro14g01097 1097
14 17361434 17365466 - FroAMIRv0_Chr14g0252521 Fro14g01098 1098
14 17398478 17398957 + FroAMIRv0_Chr14g0252541 Fro14g01100 1100
1 50098081 50099790 - FsoAMIRv0_Chr01g0017271 Fso1g01728 1728
1 50362423 50364416 + FsoAMIRv0_Chr01g0017381 Fso1g01739 1739
1 50364623 50368657 - FsoAMIRv0_Chr01g0017391 Fso1g01740 1740
1 50517106 50517585 + FsoAMIRv0_Chr01g0017411 Fso1g01742 1742
2 32164707 32165186 - FtrAMIRv0_Chr02g0040821 Ftr2g01215 1215
2 32406700 32408376 + FtrAMIRv0_Chr02g0040901 Ftr2g01223 1223
2 32408583 32410497 - FtrAMIRv0_Chr02g0040911 Ftr2g01224 1224
2 32883943 32886307 + FtrAMIRv0_Chr02g0041051 Ftr2g01238 1238
1 32811803 32822381 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007241 Hean1g00641 641
1 32951299 32954103 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007251 Hean1g00642 642
1 32953487 32959911 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007261 Hean1g00643 643
1 33005439 33016303 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007271 Hean1g00644 644
1 33141339 33166605 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007291 Hean1g00645 645
1 33147777 33148958 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007301 Hean1g00646 646
1 33158914 33159553 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007311 Hean1g00647 647
1 33167379 33170481 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007321 Hean1g00648 648
1 33548359 33548838 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007331 Hean1g00649 649
1 33581292 33584073 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0007341 Hean1g00650 650
1 86641121 86643379 + >Htub.h1tg001922l.g319.t1 Hetu1g01596 1596
1 86645938 86646417 - >Htub.h1tg001922l.g320.t1 Hetu1g01597 1597
1 86790220 86797802 + >Htub.h1tg001922l.g321.t1 Hetu1g01598 1598
1 87029584 87040208 + >Htub.h1tg001922l.g328.t1 Hetu1g01605 1605
1 87105114 87109593 + >Htub.h1tg001922l.g330.t1 Hetu1g01607 1607
2 77061162 77063420 + >Htub.h1tg000330l.g399.t1 Hetu2g01372 1372
2 77075492 77075971 - >Htub.h1tg000330l.g398.t1 Hetu2g01373 1373
2 77293641 77306057 + >Htub.h1tg000330l.g390.t1 Hetu2g01380 1380
2 77525622 77535606 + >Htub.h1tg000330l.g388.t1 Hetu2g01382 1382
2 77631795 77636278 + >Htub.h1tg000330l.g385.t1 Hetu2g01385 1385
3 75977714 75979972 + >Htub.h1tg000150l.g99.t1 Hetu3g01394 1394
3 75982869 75983348 - >Htub.h1tg000150l.g98.t1 Hetu3g01395 1395
3 76080664 76088164 + >Htub.h1tg000150l.g94.t1 Hetu3g01399 1399
3 76212276 76222341 + >Htub.h1tg000150l.g93.t1 Hetu3g01400 1400
3 76257280 76261741 + >Htub.h1tg000150l.g92.t1 Hetu3g01401 1401
16 79294169 79296867 + KAD3337966.1 Mimi16g01896 1896
16 79297068 79303089 - KAD3337967.1 Mimi16g01897 1897
1 117455209 117459039 - KAI3829395.1 Smso1g03432 3432
1 117485161 117487489 + KAI3829396.1 Smso1g03433 3433
1 117487690 117492599 - KAI3829397.1 Smso1g03434 3434
1 117517914 117522947 - KAI3829398.1 Smso1g03435 3435
1 117542590 117544851 - KAI3829399.1 Smso1g03436 3436
28 19847562 19849808 + KAI3682863.1 Smso28g00583 583
28 19921347 19925421 + KAI3682867.1 Smso28g00587 587
28 19926675 19927874 - KAI3682868.1 Smso28g00588 588
28 19946429 19952505 + KAI3682869.1 Smso28g00589 589
1 126561127 126563507 + Streb.1G041430.1 Stre1g04143 4143
1 126563668 126569363 - Streb.1G041440.1 Stre1g04144 4144
1 126572096 126572636 + Streb.1G041450.1 Stre1g04145 4145
1 126573953 126576408 - Streb.1G041460.1 Stre1g04146 4146
4 18927007 18931615 + >KAK1427803.1 Taer4g01888 1888
4 18931837 18933627 - >KAK1427804.1 Taer4g01889 1889
       
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