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Asteraceae Genomic Research Platform

Gene Search

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Example:

Hierarchical alignments with the Euptelea pleiosperma genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Euptelea pleiosperma as a reference, and by comparing homologous gene locus maps and Ks values between Euptelea pleiosperma and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 25×25,104 macro-matrices.


Select Eupl_1 Eupl_2 Nenu_1 Nenu_2 Tesi_1 Tesi_2 Tesi_3 Tesi_4 Busi_1 Busi_2 Vivi_1 Vivi_2 Vivi_3 Nin_1 Nin_2 Nin_3 Arla_1 Arla_2 Arla_3 Arla_4 Arla_5 Arla_6 Arla_7 Arla_8 Arla_9
Eupl14g01010 . Nenu1g00645 Nenu6g01117 . . . Tesi22g00289 Busi12g00598 Busi8g00452 Vivi15g00366 . . Nin6g00969 . . . . . . . . . . .
Eupl14g01011 . Nenu1g00643 Nenu6g01116 . . Tesi21g00645 . Busi12g00596 . . . . . . . . . . . . . . . .
Eupl14g01012 . Nenu1g00642 Nenu6g01115 . . Tesi21g00646 . . . . . . . . . . . . . . . . . .
Eupl14g01013 . Nenu1g00640 Nenu6g01114 Tesi1g00380 Tesi1g00924 Tesi21g00647 Tesi22g00288 . Busi8g00453 . . . . . . . . . . . . . . .
Eupl14g01014 . Nenu1g00639 Nenu6g01113 . . . Tesi22g00285 . . . . . . . . . . . . . . . . .
Eupl14g01015 . Nenu1g00638 Nenu6g01112 . . . Tesi22g00284 Busi12g00582 . . . . . Nin9g02301 . . . . . . . . . .
Eupl14g01016 . . Nenu6g01111 . . Tesi21g00648 Tesi22g00283 . . . Vivi16g00404 . . Nin9g02302 . . . . . Arla3g03375 . . . .
Eupl14g01017 . . Nenu6g01108 . . Tesi21g00650 . Busi12g00581 . . . . . . . . . . . . . . . .
Eupl14g01018 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01019 . . Nenu6g01106 . . . Tesi22g00280 . . . . . . . Nin5g01523 . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
3 135195887 135197027 - evm.model.000120F.265 Arla3g03375 3375
12 29355310 29359847 + BUSI_023142-RA Busi12g00581 581
12 29365771 29366720 + BUSI_023144-RA Busi12g00582 582
12 29460685 29463722 + BUSI_023149-RA Busi12g00596 596
12 29473060 29474777 + BUSI_023150-RA Busi12g00598 598
8 5990597 5991840 - BUSI_015929-RA Busi8g00452 452
8 6015711 6025876 - BUSI_015931-RA Busi8g00453 453
14 16045232 16047062 - evm.model.CTG_446.32 Eupl14g01010 1010
14 16130523 16140762 - evm.model.CTG_446.34 Eupl14g01011 1011
14 16159913 16175550 + evm.model.CTG_446.36 Eupl14g01012 1012
14 16178140 16198768 - evm.model.CTG_446.37.12 Eupl14g01013 1013
14 16231004 16242185 - evm.model.CTG_446.38 Eupl14g01014 1014
14 16441981 16443787 + evm.model.CTG_446.42 Eupl14g01015 1015
14 16446710 16447950 - evm.model.CTG_446.43 Eupl14g01016 1016
14 16450400 16456817 - evm.model.CTG_446.44 Eupl14g01017 1017
14 16479028 16480731 + evm.model.CTG_446.46 Eupl14g01018 1018
14 16495519 16533026 - evm.model.CTG_446.47 Eupl14g01019 1019
1 17912137 17913189 + OF00652.mRNA1 Nenu1g00638 638
1 17914932 17954458 + OF00653.mRNA1 Nenu1g00639 639
1 17974691 18016233 + OF00654.mRNA1 Nenu1g00640 640
1 18047778 18057433 - OF00656.mRNA1 Nenu1g00642 642
1 18070077 18071659 + OF00657.mRNA1 Nenu1g00643 643
1 18086224 18087685 + OF00659.mRNA1 Nenu1g00645 645
6 37874666 37911631 + OF11038.mRNA1 Nenu6g01106 1106
6 37930572 37935003 + OF11036.mRNA1 Nenu6g01108 1108
6 37966583 37967562 + OF11033.mRNA1 Nenu6g01111 1111
6 37968993 37970360 - OF11032.mRNA1 Nenu6g01112 1112
6 37985807 38035899 + OF11031.mRNA1 Nenu6g01113 1113
6 38049063 38078389 + OF11030.mRNA1 Nenu6g01114 1114
6 38090615 38159435 - OF11029.mRNA1 Nenu6g01115 1115
6 38172032 38182464 + OF11028.mRNA1 Nenu6g01116 1116
6 38218315 38219628 + OF11027.mRNA1 Nenu6g01117 1117
5 23590316 23597007 + NinS14336.t1 Nin5g01523 1523
6 11644510 11647965 - NinS16422.t1 Nin6g00969 969
9 34702523 34703867 - NinS26751.t1 Nin9g02301 2301
9 34705197 34712776 + NinS26752.t1 Nin9g02302 2302
1 7531889 7568144 - Tesin01G0040500.1 Tesi1g00380 380
1 21024237 21030956 + Tesin01G0097100.1 Tesi1g00924 924
21 13446939 13457421 - Tesin21G0069800.1 Tesi21g00645 645
21 13490162 13507945 + Tesin21G0069900.1 Tesi21g00646 646
21 13511169 13547992 - Tesin21G0070000.1 Tesi21g00647 647
21 13572194 13573795 - Tesin21G0070100.1 Tesi21g00648 648
21 13622935 13631575 - Tesin21G0070300.1 Tesi21g00650 650
22 20786281 20804402 - Tesin22G0029900.1 Tesi22g00280 280
22 20855122 20859871 + Tesin22G0030300.1 Tesi22g00283 283
22 20877488 20880469 - Tesin22G0030400.1 Tesi22g00284 284
22 20919309 20949731 + Tesin22G0030500.1 Tesi22g00285 285
22 21056492 21089683 + Tesin22G0030800.1 Tesi22g00288 288
22 21106798 21108233 + Tesin22G0030900.1 Tesi22g00289 289
15 13245041 13249262 + GSVIVT01018205001 Vivi15g00366 366
16 11247840 11248951 - GSVIVT01018678001 Vivi16g00404 404
       
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