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. 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
Eupl14g00900 . . Nenu6g01163 . Tesi1g00950 . Tesi22g00319 . . . Vivi16g00422 . . Nin9g02313 . . . . . Arla3g03380 Arla2g00001 . . .
Eupl14g00901 . Nenu1g00706 Nenu6g01162 . . . Tesi22g00318 . . Vivi15g00419 . Vivi2g00526 Nin6g00909 . Nin5g01590 . Arla11g00189 . . . . Arla7g00036 . Arla9g01053
Eupl14g00902 . . . . . . . . . Vivi15g00418 . . Nin6g00911 . . . . . . . . . . .
Eupl14g00903 . . . . . . Tesi22g00317 . . . . . . . . . . . . . . . . .
Eupl14g00904 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00905 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00906 . . . . . . . . Busi8g00404 . . Vivi2g00527 . . . . . . . . . Arla7g00035 . Arla9g01051
Eupl14g00907 . . Nenu6g01161 . . . . Busi12g00618 . . . . . . . . . . . . . . . .
Eupl14g00908 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00909 . Nenu1g00704 . . Tesi1g00946 . Tesi22g00316 . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 35830 41316 - evm.model.000353F.3 Arla2g00001 1
3 135284553 135297175 + evm.model.000120F.272 Arla3g03380 3380
7 764880 767078 + evm.model.000016F.779 Arla7g00035 35
7 770043 772013 - evm.model.000016F.777 Arla7g00036 36
9 24738626 24741123 + evm.model.000004F.63 Arla9g01051 1051
9 24754449 24757836 - evm.model.000004F.61 Arla9g01053 1053
11 5544578 5546922 + evm.model.000200F.131 Arla11g00189 189
12 29869523 29890216 + BUSI_023168-RA Busi12g00618 618
8 5452702 5492410 - BUSI_015880-RA Busi8g00404 404
14 12699485 12716868 - evm.model.CTG_303.240.2 Eupl14g00900 900
14 12763128 12768398 + evm.model.CTG_303.242 Eupl14g00901 901
14 12786827 12838304 - evm.model.CTG_303.243 Eupl14g00902 902
14 12857089 12862945 + evm.model.CTG_303.244 Eupl14g00903 903
14 12867212 12868076 + evm.model.CTG_303.245 Eupl14g00904 904
14 12868466 12869399 + evm.model.CTG_303.246 Eupl14g00905 905
14 12870744 12873020 - evm.model.CTG_303.247 Eupl14g00906 906
14 12892848 12907590 - evm.model.CTG_330.29 Eupl14g00907 907
14 12913526 12922723 + evm.model.CTG_330.28 Eupl14g00908 908
14 12926421 12932283 + evm.model.CTG_330.27 Eupl14g00909 909
1 19608811 19608984 - OF19826.mRNA1 Nenu1g00704 704
1 19663063 19664994 - OF19824.mRNA1 Nenu1g00706 706
6 39357988 39391131 + OF10983.mRNA1 Nenu6g01161 1161
6 39415302 39417728 - OF10982.mRNA1 Nenu6g01162 1162
6 39448984 39498753 + OF10981.mRNA1 Nenu6g01163 1163
5 26779496 26782761 - NinS14403.t1 Nin5g01590 1590
6 10490583 10494073 + NinS16362.t1 Nin6g00909 909
6 10526957 10547126 - NinS16364.t1 Nin6g00911 911
9 34797820 34809940 + NinS26763.t1 Nin9g02313 2313
1 21673702 21682536 - Tesin01G0099400.1 Tesi1g00946 946
1 21764743 21782244 + Tesin01G0099800.1 Tesi1g00950 950
22 21814129 21816032 - Tesin22G0034200.1 Tesi22g00316 316
22 21815859 21824365 - Tesin22G0034300.1 Tesi22g00317 317
22 21894574 21896793 - Tesin22G0034400.1 Tesi22g00318 318
22 21942173 21962297 + Tesin22G0034500.1 Tesi22g00319 319
2 5202974 5204512 + GSVIVT01001308001 Vivi2g00526 526
2 5221960 5224224 - GSVIVT01001310001 Vivi2g00527 527
15 14359079 14385440 + GSVIVT01027681001 Vivi15g00418 418
15 14396699 14399661 - GSVIVT01027680001 Vivi15g00419 419
16 11897458 11913092 - GSVIVT01018636001 Vivi16g00422 422
       
DecoBrowse