AGRP Logo

AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
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.
  The relevant gene ids can be obtained from the Asteraceae blast and match under the Tools module. This link is Asteraceae blast and match.


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
Eupl1g00071 Eupl5g00108 . . Tesi7g01018 Tesi11g00992 . None . . . . . . . . . . . . . . . . .
Eupl1g00072 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00073 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00074 Eupl5g00111 . . . . . None . . . . . Nin7g02528 . . . . . . . . . . .
Eupl1g00075 Eupl5g00114 . . . . . None . . . . . Nin7g02527 . . . . . . . . . . .
Eupl1g00076 Eupl5g00115 Nenu2g03997 . . . . None . . . . . Nin7g02526 . . . . . . . . . . .
Eupl1g00077 Eupl5g00116 . . . . . None . . . . . Nin7g02525 . . . . . . . . . . .
Eupl1g00078 . . . . . . None . . . . . Nin7g02522 . . . . . . . . . . .
Eupl1g00079 Eupl5g00124 . . Tesi7g01022 . . None . . Vivi8g00084 Vivi6g00897 . . . . . . . . . . . . .
Eupl1g00080 . . . . . . None . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 2399160 2402920 - evm.model.CTG_212.15 Eupl1g00071 71
1 2429556 2430994 + evm.model.CTG_212.16 Eupl1g00072 72
1 2479998 2497841 + evm.model.CTG_212.17 Eupl1g00073 73
1 2518378 2536660 + evm.model.CTG_212.18 Eupl1g00074 74
1 2558908 2595061 + evm.model.CTG_212.19 Eupl1g00075 75
1 2599603 2600258 + evm.model.CTG_212.20 Eupl1g00076 76
1 2600858 2603163 - evm.model.CTG_212.21.1 Eupl1g00077 77
1 2654454 2698634 - evm.model.CTG_212.23 Eupl1g00078 78
1 2709547 2717405 - evm.model.CTG_212.24 Eupl1g00079 79
1 2736016 2740285 + evm.model.CTG_212.26 Eupl1g00080 80
5 2460325 2463652 - evm.model.CTG_219.91 Eupl5g00108 108
5 2712797 2714620 + evm.model.CTG_219.86 Eupl5g00111 111
5 2773711 2814125 + evm.model.CTG_219.82.3 Eupl5g00114 114
5 2822337 2826596 + evm.model.CTG_219.81 Eupl5g00115 115
5 2828032 2830485 - evm.model.CTG_219.80 Eupl5g00116 116
5 3153973 3167413 + evm.model.CTG_219.67 Eupl5g00124 124
2 108030239 108033864 + OF23218.mRNA1 Nenu2g03997 3997
7 41802141 41808589 + NinS20985.t1 Nin7g02522 2522
7 41825728 41828429 + NinS20988.t1 Nin7g02525 2525
7 41834750 41838098 - NinS20989.t1 Nin7g02526 2526
7 41842745 41855978 - NinS20990.t1 Nin7g02527 2527
7 41859118 41860968 - NinS20991.t1 Nin7g02528 2528
7 23227488 23231822 + Tesin07G0107200.1 Tesi7g01018 1018
7 23415919 23429226 + Tesin07G0107600.1 Tesi7g01022 1022
11 22318672 22322340 - Tesin11G0103300.1 Tesi11g00992 992
6 13684774 13698955 + GSVIVT01037441001 Vivi6g00897 897
8 1761043 1769183 - GSVIVT01029937001 Vivi8g00084 84
       
DecoBrowse