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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
Eupl14g01130 Eupl8g00840 Nenu1g00535 Nenu6g01029 Tesi1g00406 Tesi1g00881 Tesi21g00719 None . . Vivi15g00308 . . Nin6g01082 . . Arla13g00408 Arla11g00258 . . . . . . .
Eupl14g01131 . Nenu1g00531 Nenu6g01028 . . Tesi21g00721 None Busi12g00337 . Vivi15g00307 Vivi16g00273 . Nin6g01083 . Nin5g00083 . . . . . . . . .
Eupl14g01132 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01133 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01134 Eupl8g00851 Nenu1g00529 . Tesi1g00409 . . None . Busi8g00495 . . . . . Nin5g00092 . . . . . . . . .
Eupl14g01135 Eupl8g00852 Nenu1g00528 Nenu6g01020 . . Tesi21g00724 None Busi12g00340 Busi8g00491 Vivi15g00306 . . Nin6g01094 . . . . . . . . . . .
Eupl14g01136 . Nenu1g00527 Nenu6g01018 Tesi1g00410 . Tesi21g00725 None . . . . . . . . . . . . . . . . .
Eupl14g01137 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01138 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01139 . . . . . . None . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
11 8724011 8728569 - evm.model.000128F.14 Arla11g00258 258
13 37171953 37179144 - evm.model.000141F.64 Arla13g00408 408
12 16374236 16377570 - BUSI_022887-RA Busi12g00337 337
12 16404202 16405230 + BUSI_022889-RA Busi12g00340 340
8 6724852 6726362 - BUSI_015976-RA Busi8g00491 491
8 6728939 6734698 - BUSI_015977-RA Busi8g00495 495
8 24014277 24019759 + evm.model.CTG_429.25 Eupl8g00840 840
8 24275628 24295155 + evm.model.CTG_429.11 Eupl8g00851 851
8 24300188 24301463 + evm.model.CTG_429.10 Eupl8g00852 852
14 22182205 22189269 + evm.model.CTG_403.81.3 Eupl14g01130 1130
14 22191612 22205928 - evm.model.CTG_403.82.1 Eupl14g01131 1131
14 22439030 22441044 - evm.model.CTG_403.85 Eupl14g01132 1132
14 22444732 22465759 + evm.model.CTG_403.87 Eupl14g01133 1133
14 22615852 22627479 + evm.model.CTG_403.91 Eupl14g01134 1134
14 22631718 22633940 + evm.model.CTG_403.92 Eupl14g01135 1135
14 22639828 22643357 + evm.model.CTG_403.93 Eupl14g01136 1136
14 22694285 22696047 + evm.model.CTG_403.94 Eupl14g01137 1137
14 22800949 22804195 - evm.model.CTG_403.99 Eupl14g01138 1138
14 22818436 22827829 + evm.model.CTG_403.101 Eupl14g01139 1139
1 14744399 14745719 - OF00541.mRNA1 Nenu1g00527 527
1 14760574 14762240 - OF00542.mRNA1 Nenu1g00528 528
1 14767609 14790229 - OF00543.mRNA1 Nenu1g00529 529
1 14824434 14828422 + OF00545.mRNA1 Nenu1g00531 531
1 14867378 14871397 - OF00549.mRNA1 Nenu1g00535 535
6 35806863 35810947 - OF11126.mRNA1 Nenu6g01018 1018
6 35840385 35840987 - OF11124.mRNA1 Nenu6g01020 1020
6 35900865 35908549 + OF11116.mRNA1 Nenu6g01028 1028
6 35910462 35914606 - OF11115.mRNA1 Nenu6g01029 1029
5 849443 854541 - NinS12896.t1 Nin5g00083 83
5 894361 900649 - NinS12905.t1 Nin5g00092 92
6 14084159 14095135 + NinS16535.t1 Nin6g01082 1082
6 14095953 14103753 - NinS16536.t1 Nin6g01083 1083
6 14406110 14407885 + NinS16547.t1 Nin6g01094 1094
1 8171545 8178380 + Tesin01G0043200.1 Tesi1g00406 406
1 8201787 8215698 + Tesin01G0043500.1 Tesi1g00409 409
1 8222518 8230401 + Tesin01G0043600.1 Tesi1g00410 410
1 19864860 19875588 - Tesin01G0092800.1 Tesi1g00881 881
21 15834863 15839372 + Tesin21G0077500.1 Tesi21g00719 719
21 15843353 15853156 - Tesin21G0077700.1 Tesi21g00721 721
21 15905585 15908132 + Tesin21G0078000.1 Tesi21g00724 724
21 15917400 15920753 + Tesin21G0078100.1 Tesi21g00725 725
15 11676702 11677926 - GSVIVT01018292001 Vivi15g00306 306
15 11695555 11698149 + GSVIVT01018291001 Vivi15g00307 307
15 11698737 11704533 - GSVIVT01018290001 Vivi15g00308 308
16 5694429 5703035 + GSVIVT01013868001 Vivi16g00273 273
       
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