Hierarchical alignments with the <em>Euptelea pleiosperma</em> genome as reference

Gene Search

Species

Gene ID

Example:

Or, Query Sequence

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.

Query Sequence

Or, Gene ID

Species

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
Eupl14g01160	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01161	.	.	.	Tesi1g00424	.	.	None	.	Busi8g01164	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01162	Eupl8g00910	Nenu1g00488	Nenu6g00993	Tesi1g00425	.	.	None	Busi12g00354	Busi8g01163	.	.	.	.	.	Nin5g00112	.	.	.	.	.	.	.	.	.
Eupl14g01163	.	Nenu1g00485	.	.	.	.	None	.	Busi8g01161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01164	.	.	Nenu6g00988	Tesi1g00426	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01165	Eupl8g00915	Nenu1g00484	Nenu6g00987	.	Tesi1g00858	Tesi21g00740	None	.	.	.	.	.	.	.	Nin5g00113	.	.	.	.	.	.	.	.	.
Eupl14g01166	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01167	.	Nenu1g00478	.	.	.	.	None	.	.	.	.	.	.	.	Nin5g00119	.	.	.	.	.	.	.	.	.
Eupl14g01168	.	.	Nenu6g00984	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01169	.	.	.	.	Tesi1g00845	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
12	17422563	17426599	+	BUSI_022903-RA	Busi12g00354	354
8	18419196	18449602	+	BUSI_016645-RA	Busi8g01161	1161
8	18468133	18469616	+	BUSI_016648-RA	Busi8g01163	1163
8	18470204	18476832	-	BUSI_016649-RA	Busi8g01164	1164
8	25634620	25635935	+	evm.model.CTG_282.65	Eupl8g00910	910
8	25763667	25766768	+	evm.model.CTG_282.73	Eupl8g00915	915
14	24506846	24511771	+	evm.model.CTG_104.21	Eupl14g01160	1160
14	24516766	24537822	+	evm.model.CTG_104.22	Eupl14g01161	1161
14	24569231	24576351	+	evm.model.CTG_104.23	Eupl14g01162	1162
14	24597689	24742519	-	evm.model.CTG_104.27	Eupl14g01163	1163
14	24847950	24925544	+	evm.model.CTG_104.31	Eupl14g01164	1164
14	24953202	24956378	+	evm.model.CTG_104.32	Eupl14g01165	1165
14	24971915	25016154	-	evm.model.CTG_104.33	Eupl14g01166	1166
14	25030963	25045422	-	evm.model.CTG_104.34	Eupl14g01167	1167
14	25060168	25064251	-	evm.model.CTG_104.36	Eupl14g01168	1168
14	25084936	25099407	+	evm.model.CTG_104.39	Eupl14g01169	1169
1	13325861	13336311	+	OF09780.mRNA1	Nenu1g00478	478
1	13414351	13417122	-	OF09786.mRNA1	Nenu1g00484	484
1	13484386	13601737	+	OF09787.mRNA1	Nenu1g00485	485
1	13645592	13647834	-	OF09790.mRNA1	Nenu1g00488	488
6	35196067	35201570	+	OF11160.mRNA1	Nenu6g00984	984
6	35254413	35257940	-	OF11157.mRNA1	Nenu6g00987	987
6	35275647	35295160	-	OF11156.mRNA1	Nenu6g00988	988
6	35351277	35353508	-	OF11151.mRNA1	Nenu6g00993	993
5	1072345	1075513	-	NinS12925.t1	Nin5g00112	112
5	1080145	1083520	+	NinS12926.t1	Nin5g00113	113
5	1115722	1122361	-	NinS12932.t1	Nin5g00119	119
1	8508934	8512569	+	Tesin01G0045200.1	Tesi1g00424	424
1	8514800	8520570	+	Tesin01G0045300.1	Tesi1g00425	425
1	8523805	8539208	+	Tesin01G0045400.1	Tesi1g00426	426
1	18950573	18959827	+	Tesin01G0089100.1	Tesi1g00845	845
1	19262195	19264955	-	Tesin01G0090500.1	Tesi1g00858	858
21	16425805	16429570	-	Tesin21G0080100.1	Tesi21g00740	740

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