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

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
Eupl1g00001	.	.	.	Tesi7g01082	.	.	Tesi13g00858	.	.	.	.	Vivi13g00858	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00005	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00007	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00008	Eupl5g00026	.	.	Tesi7g01081	.	.	Tesi13g00857	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00009	.	.	.	Tesi7g01080	.	.	.	Busi1g02686	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	67655888	67663002	-	BUSI_002687-RA	Busi1g02686	2686
1	85784	86597	+	evm.model.CTG_364.1	Eupl1g00001	1
1	88783	112356	-	evm.model.CTG_364.2	Eupl1g00002	2
1	114832	170130	-	evm.model.CTG_364.3	Eupl1g00003	3
1	249615	250631	+	evm.model.CTG_364.6	Eupl1g00004	4
1	464629	466589	+	evm.model.CTG_111.1	Eupl1g00005	5
1	508600	511719	+	evm.model.CTG_111.3	Eupl1g00006	6
1	518229	532646	+	evm.model.CTG_111.6	Eupl1g00007	7
1	549292	595211	+	evm.model.CTG_111.7	Eupl1g00008	8
1	600618	632854	-	evm.model.CTG_111.8	Eupl1g00009	9
1	650991	661938	+	evm.model.CTG_111.10	Eupl1g00010	10
5	529936	562627	+	evm.model.CTG_219.187	Eupl5g00026	26
7	27825084	27837721	+	Tesin07G0114000.1	Tesi7g01080	1080
7	27851466	27854230	-	Tesin07G0114100.1	Tesi7g01081	1081
7	28563933	28586323	-	Tesin07G0114200.1	Tesi7g01082	1082
13	24819716	24820758	-	Tesin13G0090800.1	Tesi13g00857	857
13	24980984	24981821	-	Tesin13G0090900.1	Tesi13g00858	858
13	16080429	16082642	+	GSVIVT01027347001	Vivi13g00858	858

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