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
Eupl1g00161	.	.	Nenu7g00905	Tesi7g01122	.	.	None	Busi1g00054	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00162	Eupl5g00263	Nenu2g03102	Nenu7g00902	Tesi7g01126	.	Tesi12g00106	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00163	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00164	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00165	.	.	Nenu7g00899	.	.	.	None	Busi1g00051	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00166	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00167	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00168	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00169	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00170	Eupl5g00287	Nenu2g03103	Nenu7g00882	.	Tesi11g01054	.	None	.	.	.	.	.	.	Nin6g01389	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	1964577	1973592	-	BUSI_000051-RA	Busi1g00051	51
1	2117948	2129251	-	BUSI_000054-RA	Busi1g00054	54
1	5285034	5299742	+	evm.model.CTG_212.135	Eupl1g00161	161
1	5302711	5314503	-	evm.model.CTG_212.136	Eupl1g00162	162
1	5350736	5356214	+	evm.model.CTG_212.138	Eupl1g00163	163
1	5363203	5364321	-	evm.model.CTG_212.139	Eupl1g00164	164
1	5364454	5383103	-	evm.model.CTG_212.140	Eupl1g00165	165
1	5398348	5412131	+	evm.model.CTG_212.141	Eupl1g00166	166
1	5428362	5435695	-	evm.model.CTG_212.142	Eupl1g00167	167
1	5440039	5537673	-	evm.model.CTG_212.146_evm.model.CTG_212.143	Eupl1g00168	168
1	5471576	5472458	-	evm.model.CTG_212.145	Eupl1g00169	169
1	5586690	5591607	+	evm.model.CTG_212.149	Eupl1g00170	170
5	7294344	7298963	-	evm.model.CTG_411.12	Eupl5g00263	263
5	8615162	8629509	+	evm.model.CTG_110.44	Eupl5g00287	287
2	73242040	73243986	-	OF24514.mRNA1	Nenu2g03102	3102
2	73305277	73323903	-	OF24515.mRNA1	Nenu2g03103	3103
7	18704481	18705031	-	OF20872.mRNA1	Nenu7g00882	882
7	19482572	19491636	-	OF20889.mRNA1	Nenu7g00899	899
7	19569805	19571760	+	OF20892.mRNA1	Nenu7g00902	902
7	19612543	19673372	-	OF20895.mRNA1	Nenu7g00905	905
6	22713205	22724992	-	NinS16842.t1	Nin6g01389	1389
7	31980032	31995920	+	Tesin07G0118400.1	Tesi7g01122	1122
7	32223867	32225825	-	Tesin07G0118800.1	Tesi7g01126	1126
11	25588250	25599228	-	Tesin11G0109600.1	Tesi11g01054	1054
12	3433269	3434420	-	Tesin12G0011300.1	Tesi12g00106	106

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