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
Eupl1g00131	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00132	Eupl5g00194	.	Nenu7g01007	.	.	.	None	.	.	Vivi8g00439	.	.	.	.	.	.	.	Arla1g02527	.	.	.	.	.	.
Eupl1g00133	.	.	Nenu7g01004	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00134	Eupl5g00199	.	Nenu7g00993	.	.	.	None	Busi1g02785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00135	Eupl5g00200	.	Nenu7g00992	.	.	.	None	.	.	Vivi8g00437	.	.	.	.	.	.	Arla17g00217	.	.	.	.	.	.	.
Eupl1g00136	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00137	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00138	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00139	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00140	.	.	.	.	.	.	None	.	.	Vivi8g00433	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	171431697	171439317	-	evm.model.000176F.100	Arla1g02527	2527
17	13589833	13592998	-	evm.model.000106F.111	Arla17g00217	217
1	79506020	79507093	-	BUSI_002783-RA	Busi1g02785	2785
1	4428059	4429812	+	evm.model.CTG_212.97	Eupl1g00131	131
1	4430420	4438754	-	evm.model.CTG_212.98.1	Eupl1g00132	132
1	4447322	4451708	+	evm.model.CTG_212.99	Eupl1g00133	133
1	4455553	4465356	+	evm.model.CTG_212.100	Eupl1g00134	134
1	4467302	4472986	-	evm.model.CTG_212.101	Eupl1g00135	135
1	4485688	4486095	-	evm.model.CTG_212.102	Eupl1g00136	136
1	4486210	4486806	-	evm.model.CTG_212.103	Eupl1g00137	137
1	4486918	4487298	-	evm.model.CTG_212.104	Eupl1g00138	138
1	4504968	4648416	+	evm.model.CTG_212.105_evm.model.CTG_212.106_evm.model.CTG_212.108	Eupl1g00139	139
1	4724556	4735561	-	evm.model.CTG_212.110	Eupl1g00140	140
5	5233715	5248882	-	evm.model.CTG_83.21	Eupl5g00194	194
5	5327580	5344535	+	evm.model.CTG_83.27.2	Eupl5g00199	199
5	5361135	5365519	-	evm.model.CTG_83.29	Eupl5g00200	200
7	21472576	21474795	+	OF20982.mRNA1	Nenu7g00992	992
7	21486378	21493755	-	OF20983.mRNA1	Nenu7g00993	993
7	21752278	21755137	+	OF20994.mRNA1	Nenu7g01004	1004
7	21812007	21818753	+	OF20997.mRNA1	Nenu7g01007	1007
8	11220311	11226165	+	GSVIVT01025850001	Vivi8g00433	433
8	11294684	11297803	+	GSVIVT01025844001	Vivi8g00437	437
8	11313101	11320356	+	GSVIVT01025842001	Vivi8g00439	439

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