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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
Eupl14g00880 . . Nenu6g01187 . . . Tesi22g00327 . . . . . . . Nin5g01640 . . . . . . . . .
Eupl14g00881 . Nenu1g00722 Nenu6g01186 . . . Tesi22g00326 . Busi8g00384 . . . . . Nin5g01637 . . . . . . . . .
Eupl14g00882 . Nenu1g00721 Nenu6g01185 Tesi1g00361 Tesi1g00955 Tesi21g00613 . . Busi8g00385 . . . Nin6g00899 . Nin5g01546 . . . . . . . . .
Eupl14g00883 . Nenu1g00720 Nenu6g01184 . Tesi1g00954 . . . . . . . . . . . . . . . . . . .
Eupl14g00884 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00885 . Nenu1g00718 . . . . . . . . . Vivi2g00507 Nin6g00901 . . . . . . . . . . Arla9g01075
Eupl14g00886 . Nenu1g00717 Nenu6g01182 . . . . . . . . Vivi2g00515 . . . . . . . . . Arla7g00051 . Arla9g01060
Eupl14g00887 . Nenu1g00716 Nenu6g01181 . . Tesi21g00615 Tesi22g00325 Busi12g00629 Busi8g00393 . . Vivi2g00516 Nin6g00903 . Nin5g01609 . . . . . . Arla7g00049 . Arla9g01059
Eupl14g00888 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00889 . . . . . Tesi21g00616 Tesi22g00324 Busi12g00626 . . . Vivi2g00517 . . Nin5g01608 . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 1051216 1051806 - evm.model.000016F.760 Arla7g00049 49
7 1059574 1059966 - evm.model.000016F.758 Arla7g00051 51
9 25009592 25010166 - evm.model.000004F.49 Arla9g01059 1059
9 25033466 25037329 + evm.model.000004F.47 Arla9g01060 1060
9 26106406 26109978 + evm.model.000004F.7 Arla9g01075 1075
12 30025939 30029167 + BUSI_023175-RA Busi12g00626 626
12 30032038 30032426 + BUSI_023176-RA Busi12g00629 629
8 5289325 5308641 + BUSI_015869-RA Busi8g00384 384
8 5311649 5318194 + BUSI_015870-RA Busi8g00385 385
8 5398923 5399465 - BUSI_015877-RA Busi8g00393 393
14 12376269 12385180 + evm.model.CTG_303.217.1 Eupl14g00880 880
14 12400548 12419452 + evm.model.CTG_303.218 Eupl14g00881 881
14 12426266 12445479 + evm.model.CTG_303.219 Eupl14g00882 882
14 12446947 12447531 - evm.model.CTG_303.220 Eupl14g00883 883
14 12457500 12462836 - evm.model.CTG_303.221 Eupl14g00884 884
14 12484141 12493258 - evm.model.CTG_303.223 Eupl14g00885 885
14 12501581 12502275 + evm.model.CTG_303.224 Eupl14g00886 886
14 12522305 12522685 - evm.model.CTG_303.225 Eupl14g00887 887
14 12529645 12530538 - evm.model.CTG_303.226 Eupl14g00888 888
14 12541793 12543025 - evm.model.CTG_303.227 Eupl14g00889 889
1 19877856 19878254 + OF19814.mRNA1 Nenu1g00716 716
1 19889758 19890168 - OF19813.mRNA1 Nenu1g00717 717
1 19925905 19933052 + OF19812.mRNA1 Nenu1g00718 718
1 19971677 19972267 + OF19810.mRNA1 Nenu1g00720 720
1 19973427 19997748 - OF19809.mRNA1 Nenu1g00721 721
1 20029011 20058469 - OF19808.mRNA1 Nenu1g00722 722
6 39653332 39653712 + OF10963.mRNA1 Nenu6g01181 1181
6 39661255 39661665 - OF10962.mRNA1 Nenu6g01182 1182
6 39697318 39697899 + OF10960.mRNA1 Nenu6g01184 1184
6 39699685 39713840 - OF10959.mRNA1 Nenu6g01185 1185
6 39722597 39733253 - OF10958.mRNA1 Nenu6g01186 1186
6 39775757 39776410 - OF10957.mRNA1 Nenu6g01187 1187
5 24731746 24764641 - NinS14359.t1 Nin5g01546 1546
5 28311507 28313083 + NinS14421.t1 Nin5g01608 1608
5 28424354 28429811 - NinS14422.t1 Nin5g01609 1609
5 30872189 30887482 - NinS14450.t1 Nin5g01637 1637
5 31063802 31070149 - NinS14453.t1 Nin5g01640 1640
6 10355513 10361726 + NinS16352.t1 Nin6g00899 899
6 10367701 10371728 - NinS16354.t1 Nin6g00901 901
6 10391002 10391889 + NinS16356.t1 Nin6g00903 903
1 7002741 7003678 + Tesin01G0038500.1 Tesi1g00361 361
1 21848359 21852067 + Tesin01G0100200.1 Tesi1g00954 954
1 21853523 21877991 - Tesin01G0100300.1 Tesi1g00955 955
21 12522286 12525159 + Tesin21G0066500.1 Tesi21g00613 613
21 12578460 12593218 + Tesin21G0066700.1 Tesi21g00615 615
21 12611659 12634363 - Tesin21G0066800.1 Tesi21g00616 616
22 22056981 22057634 + Tesin22G0035000.1 Tesi22g00324 324
22 22075710 22076075 + Tesin22G0035100.1 Tesi22g00325 325
22 22114112 22118613 - Tesin22G0035200.1 Tesi22g00326 326
22 22153062 22153727 - Tesin22G0035300.1 Tesi22g00327 327
2 4974657 4978139 - GSVIVT01001284001 Vivi2g00507 507
2 5125430 5126116 - GSVIVT01001296001 Vivi2g00515 515
2 5131036 5131778 + GSVIVT01001297001 Vivi2g00516 516
2 5134356 5135658 - GSVIVT01001298001 Vivi2g00517 517
       
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