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
Eupl14g01270	Eupl8g00818	.	.	.	.	.	None	.	Busi8g00546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01271	Eupl8g00817	.	.	.	.	.	None	.	Busi8g00548	.	.	.	.	Nin9g02242	.	.	.	.	.	.	.	.	.	.
Eupl14g01272	Eupl8g00815	.	.	.	.	.	None	.	Busi8g00549	.	.	.	.	Nin9g02245	.	.	.	.	.	.	.	.	.	.
Eupl14g01273	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01274	.	.	.	.	.	.	None	.	.	.	.	.	.	.	Nin5g00407	.	.	.	.	.	.	.	.	.
Eupl14g01275	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01276	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01277	.	.	.	.	.	.	None	.	.	.	.	.	.	.	Nin5g01746	.	.	.	.	.	.	.	.	.
Eupl14g01278	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01279	.	.	.	.	.	.	None	.	.	.	.	.	.	Nin9g02246	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
8	7500809	7518060	+	BUSI_016030-RA	Busi8g00546	546
8	7529719	7532572	+	BUSI_016032-RA	Busi8g00548	548
8	7521511	7522272	-	BUSI_016031-RA	Busi8g00549	549
8	23391758	23393616	-	evm.model.CTG_451.65	Eupl8g00815	815
8	23427487	23428894	+	evm.model.CTG_451.67	Eupl8g00817	817
8	23429299	23474146	-	evm.model.CTG_451.68	Eupl8g00818	818
14	28779775	28832071	+	evm.model.CTG_394.118_evm.model.CTG_394.117	Eupl14g01270	1270
14	28834437	28835713	-	evm.model.CTG_394.116	Eupl14g01271	1271
14	28877923	28879554	+	evm.model.CTG_394.115	Eupl14g01272	1272
14	28888058	28893818	-	evm.model.CTG_394.114	Eupl14g01273	1273
14	28904546	28915359	-	evm.model.CTG_394.113	Eupl14g01274	1274
14	28967543	28981907	+	evm.model.CTG_394.109	Eupl14g01275	1275
14	28993853	28995432	-	evm.model.CTG_394.108	Eupl14g01276	1276
14	29004466	29017381	+	evm.model.CTG_394.107	Eupl14g01277	1277
14	29071170	29072568	-	evm.model.CTG_394.106	Eupl14g01278	1278
14	29086543	29130352	-	evm.model.CTG_394.105	Eupl14g01279	1279
5	4834469	4851833	+	NinS13220.t1	Nin5g00407	407
5	35223529	35230687	-	NinS14559.t1	Nin5g01746	1746
9	34194426	34196279	-	NinS26692.t1	Nin9g02242	2242
9	34227082	34227698	+	NinS26695.t1	Nin9g02245	2245
9	34245139	34264221	-	NinS26696.t1	Nin9g02246	2246

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