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AGRP

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
Eupl14g00870 . . . Tesi1g00359 . Tesi21g00610 . Busi12g00630 . . . . . . . . . . . . . . . .
Eupl14g00871 . Nenu1g00727 Nenu6g01193 . Tesi1g00960 Tesi21g00611 Tesi22g00332 Busi12g00489 . . . . Nin6g00898 . . . . . . . . . . .
Eupl14g00872 . Nenu1g00726 Nenu6g01192 . Tesi1g00958 . Tesi22g00331 . . . Vivi16g00425 . . . . . . . . Arla3g03381 . . . .
Eupl14g00873 . . Nenu6g01191 Tesi1g00360 . . . . Busi8g00369 . . . . . . . . . . . . . . .
Eupl14g00874 . Nenu1g00725 Nenu6g01190 . Tesi1g00957 . Tesi22g00330 . Busi8g00371 . . . . . . . . . . . . . . .
Eupl14g00875 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00876 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00877 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00878 . Nenu1g00724 Nenu6g01189 . . . Tesi22g00329 . Busi8g00372 . . . . . Nin5g01644 . . . . . . . . .
Eupl14g00879 . Nenu1g00723 Nenu6g01188 . . Tesi21g00612 Tesi22g00328 . Busi8g00375 . . . . . Nin5g01643 . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
3 135300330 135302858 - evm.model.000120F.273 Arla3g03381 3381
12 23272713 23275860 - BUSI_023039-RA Busi12g00489 489
12 30154379 30165462 + BUSI_023183-RA Busi12g00630 630
8 5095619 5100944 - BUSI_015850-RA Busi8g00369 369
8 5234878 5238561 + BUSI_015862-RA Busi8g00371 371
8 5244815 5249825 + BUSI_015863-RA Busi8g00372 372
8 5256593 5257444 - BUSI_015864-RA Busi8g00375 375
14 12111631 12126645 - evm.model.CTG_303.205 Eupl14g00870 870
14 12148142 12149735 + evm.model.CTG_303.207 Eupl14g00871 871
14 12161453 12165814 - evm.model.CTG_303.208 Eupl14g00872 872
14 12186259 12200472 - evm.model.CTG_303.209 Eupl14g00873 873
14 12213864 12219356 + evm.model.CTG_303.210 Eupl14g00874 874
14 12228695 12232882 + evm.model.CTG_303.211 Eupl14g00875 875
14 12248160 12255944 + evm.model.CTG_303.213 Eupl14g00876 876
14 12256023 12259104 - evm.model.CTG_303.214 Eupl14g00877 877
14 12293683 12328958 + evm.model.CTG_303.215 Eupl14g00878 878
14 12342312 12343515 - evm.model.CTG_303.216 Eupl14g00879 879
1 20112624 20113505 + OF19807.mRNA1 Nenu1g00723 723
1 20118936 20135303 - OF19806.mRNA1 Nenu1g00724 724
1 20179513 20182688 - OF19805.mRNA1 Nenu1g00725 725
1 20247945 20250182 + OF19804.mRNA1 Nenu1g00726 726
1 20272466 20273581 - OF19803.mRNA1 Nenu1g00727 727
6 39792231 39793115 + OF10956.mRNA1 Nenu6g01188 1188
6 39808031 39819595 - OF10955.mRNA1 Nenu6g01189 1189
6 39844297 39849345 - OF10954.mRNA1 Nenu6g01190 1190
6 39865514 39873866 + OF10953.mRNA1 Nenu6g01191 1191
6 39902294 39903855 + OF10952.mRNA1 Nenu6g01192 1192
6 39920385 39925679 - OF10951.mRNA1 Nenu6g01193 1193
5 31383804 31393650 + NinS14456.t1 Nin5g01643 1643
5 31417218 31463718 - NinS14457.t1 Nin5g01644 1644
6 10335611 10338002 + NinS16351.t1 Nin6g00898 898
1 6976597 6991257 - Tesin01G0038300.1 Tesi1g00359 359
1 6994376 6998851 - Tesin01G0038400.1 Tesi1g00360 360
1 21897351 21909454 - Tesin01G0100500.1 Tesi1g00957 957
1 21922983 21926481 + Tesin01G0100700.1 Tesi1g00958 958
1 21969413 21971309 - Tesin01G0100900.1 Tesi1g00960 960
21 12408846 12419028 - Tesin21G0066100.1 Tesi21g00610 610
21 12438971 12440457 + Tesin21G0066200.1 Tesi21g00611 611
21 12492493 12493377 - Tesin21G0066400.1 Tesi21g00612 612
22 22162876 22163739 + Tesin22G0035500.1 Tesi22g00328 328
22 22181268 22201954 - Tesin22G0035600.1 Tesi22g00329 329
22 22266151 22267670 - Tesin22G0035700.1 Tesi22g00330 330
22 22280810 22285190 + Tesin22G0035900.1 Tesi22g00331 331
22 22303766 22304920 - Tesin22G0036000.1 Tesi22g00332 332
16 11982872 11990729 + GSVIVT01018630001 Vivi16g00425 425
       
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