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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
Eupl1g00191 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00192 Eupl5g00312 . Nenu7g00856 Tesi7g01261 . . None . . . . . . . . . . . . . . . . .
Eupl1g00193 . . Nenu7g00855 Tesi7g01260 . . None . . . . . . . . . . . . . . . . .
Eupl1g00194 . . Nenu7g00850 Tesi7g01259 . . None . . . . . . . . . . . . . . . . .
Eupl1g00195 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00196 Eupl5g00320 Nenu2g03916 Nenu7g00121 Tesi7g01500 Tesi11g01466 . None . . . . . Nin7g02119 . . . . . . . . . . .
Eupl1g00197 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00198 . Nenu2g03915 . Tesi7g01498 . . None Busi1g01652 . . . . . . . . . . . . . . . .
Eupl1g00199 Eupl5g00321 Nenu2g03914 Nenu7g00122 Tesi7g01497 Tesi11g01465 . None . Busi2g00693 . Vivi6g00089 . Nin7g02118 . . . . . . . . . . .
Eupl1g00200 Eupl5g00322 Nenu2g03913 Nenu7g00123 Tesi7g01496 Tesi11g01464 . None . Busi2g00696 . . . . . Nin8g02231 . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 38201383 38209853 + BUSI_001652-RA Busi1g01652 1652
2 21620144 21620897 - BUSI_003545-RA Busi2g00693 693
2 21627277 21627720 - BUSI_003546-RA Busi2g00696 696
1 6098231 6098665 - evm.model.CTG_212.174 Eupl1g00191 191
1 6103035 6107768 - evm.model.CTG_212.175 Eupl1g00192 192
1 6133699 6136657 - evm.model.CTG_212.177 Eupl1g00193 193
1 6164747 6173599 + evm.model.CTG_212.180 Eupl1g00194 194
1 6188955 6190635 - evm.model.CTG_212.181 Eupl1g00195 195
1 6192825 6199399 - evm.model.CTG_212.182 Eupl1g00196 196
1 6243551 6244551 + evm.model.CTG_212.183 Eupl1g00197 197
1 6246697 6282929 + evm.model.CTG_212.184 Eupl1g00198 198
1 6283088 6284912 - evm.model.CTG_212.185 Eupl1g00199 199
1 6321557 6335508 - evm.model.CTG_212.186 Eupl1g00200 200
5 9195462 9199121 - evm.model.CTG_110.75 Eupl5g00312 312
5 9387509 9392705 - evm.model.CTG_110.87 Eupl5g00320 320
5 9429611 9430778 - evm.model.CTG_110.88 Eupl5g00321 321
5 9434260 9456354 - evm.model.CTG_110.89 Eupl5g00322 322
2 106190634 106211585 + OF23302.mRNA1 Nenu2g03913 3913
2 106216744 106217550 + OF23301.mRNA1 Nenu2g03914 3914
2 106221449 106265223 - OF23300.mRNA1 Nenu2g03915 3915
2 106280397 106286555 + OF23299.mRNA1 Nenu2g03916 3916
7 2180076 2208493 - OF12272.mRNA1 Nenu7g00121 121
7 2213911 2214687 - OF12273.mRNA1 Nenu7g00122 122
7 2227340 2237769 - OF12274.mRNA1 Nenu7g00123 123
7 17831734 17837671 - OF00508.mRNA1 Nenu7g00850 850
7 17940062 17941339 + OF00513.mRNA1 Nenu7g00855 855
7 17946915 17949281 + OF00514.mRNA1 Nenu7g00856 856
7 38116017 38118556 - NinS20581.t1 Nin7g02118 2118
7 38128969 38129355 + NinS20582.t1 Nin7g02119 2119
8 31114109 31129190 - NinS23663.t1 Nin8g02231 2231
7 38888695 38906518 - Tesin07G0132200.1 Tesi7g01259 1259
7 38928451 38929707 + Tesin07G0132300.1 Tesi7g01260 1260
7 38942832 38945201 + Tesin07G0132400.1 Tesi7g01261 1261
7 45795515 45807850 + Tesin07G0156700.1 Tesi7g01496 1496
7 45811842 45820670 + Tesin07G0156800.1 Tesi7g01497 1497
7 45813570 45844860 - Tesin07G0156900.1 Tesi7g01498 1498
7 45861567 45870809 + Tesin07G0157100.1 Tesi7g01500 1500
11 42988433 43005477 + Tesin11G0151700.1 Tesi11g01464 1464
11 43037330 43038092 + Tesin11G0151800.1 Tesi11g01465 1465
11 43077378 43077866 + Tesin11G0151900.1 Tesi11g01466 1466
6 1013333 1014492 - GSVIVT01025408001 Vivi6g00089 89
       
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