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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
Eupl1g00141 . . . . . . None . . Vivi8g00432 . . . . . . . . . . . . . .
Eupl1g00142 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00143 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00144 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00145 . Nenu2g03094 . Tesi7g01275 . . None . . . . . . . . . . . . . . . . .
Eupl1g00146 . Nenu2g03918 Nenu7g00946 Tesi7g01502 . . None . . . Vivi6g00928 . Nin7g02120 . . . . . . . . . . .
Eupl1g00147 Eupl5g00226 . Nenu7g00944 . . . None Busi1g00133 . Vivi8g00428 . . . . . . . . . . . . . .
Eupl1g00148 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00149 Eupl5g00227 . Nenu7g00943 . Tesi11g01467 . None Busi1g00124 . Vivi8g00427 . . . . . . . . . . . . . .
Eupl1g00150 . . . . . . None . . . . . . Nin6g01381 . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 5212589 5218398 + BUSI_000129-RA Busi1g00124 124
1 5316318 5321355 - BUSI_000133-RA Busi1g00133 133
1 4737420 4754904 - evm.model.CTG_212.111 Eupl1g00141 141
1 4765661 4766059 + evm.model.CTG_212.113 Eupl1g00142 142
1 4778052 4789228 - evm.model.CTG_212.114.1 Eupl1g00143 143
1 4795956 4813429 - evm.model.CTG_212.115 Eupl1g00144 144
1 4822980 4829355 - evm.model.CTG_212.116 Eupl1g00145 145
1 4835232 4838294 + evm.model.CTG_212.117.1 Eupl1g00146 146
1 4840158 4844422 + evm.model.CTG_212.118 Eupl1g00147 147
1 4848634 4849518 - evm.model.CTG_212.120 Eupl1g00148 148
1 4862644 4977528 - evm.model.CTG_212.122.1 Eupl1g00149 149
1 5012028 5022077 + evm.model.CTG_212.124 Eupl1g00150 150
5 6108939 6116112 + evm.model.CTG_83.65 Eupl5g00226 226
5 6118051 6222156 - evm.model.CTG_83.66 Eupl5g00227 227
2 72742174 72786513 - OF24506.mRNA1 Nenu2g03094 3094
2 106302329 106302916 + OF23297.mRNA1 Nenu2g03918 3918
7 20505904 20610650 + OF20933.mRNA1 Nenu7g00943 943
7 20620543 20623466 + OF20934.mRNA1 Nenu7g00944 944
7 20642389 20644836 + OF20936.mRNA1 Nenu7g00946 946
6 22558414 22569959 - NinS16834.t1 Nin6g01381 1381
7 38140343 38142966 + NinS20583.t1 Nin7g02120 2120
7 39657949 39671295 + Tesin07G0133800.1 Tesi7g01275 1275
7 45904877 45915238 - Tesin07G0157300.1 Tesi7g01502 1502
11 43080805 43092427 - Tesin11G0152000.1 Tesi11g01467 1467
6 14388028 14390287 - GSVIVT01037397001 Vivi6g00928 928
8 11146972 11202402 + GSVIVT01025856001 Vivi8g00427 427
8 11202754 11205672 - GSVIVT01025855001 Vivi8g00428 428
8 11217900 11220263 + GSVIVT01025851001 Vivi8g00432 432
       
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