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

Gene Search

Species

Gene ID

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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
Eupl14g01170	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01171	.	.	.	.	.	.	Tesi22g00212	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01172	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01173	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01174	.	.	.	.	.	.	Tesi22g00221	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01175	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01176	.	.	.	.	.	.	.	.	Busi8g01151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01178	.	.	.	.	.	.	.	.	.	.	Vivi16g00258	.	.	.	.	.	.	.	.	Arla3g03324	.	.	.	.
Eupl14g01179	.	.	.	.	.	.	Tesi22g00230	Busi12g00387	Busi8g01148	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
3	134179630	134182761	-	evm.model.000120F.181	Arla3g03324	3324
12	18667955	18668777	+	BUSI_022938-RA	Busi12g00387	387
8	18080652	18081567	-	BUSI_016635-RA	Busi8g01148	1148
8	18130539	18153710	+	BUSI_016639-RA	Busi8g01151	1151
14	25126586	25208258	+	evm.model.CTG_104.40	Eupl14g01170	1170
14	25254670	25283154	+	evm.model.CTG_104.41	Eupl14g01171	1171
14	25293081	25298209	+	evm.model.CTG_104.43	Eupl14g01172	1172
14	25299833	25310479	-	evm.model.CTG_104.44.1	Eupl14g01173	1173
14	25360575	25470218	+	evm.model.CTG_104.47	Eupl14g01174	1174
14	25518701	25520249	+	evm.model.CTG_104.49	Eupl14g01175	1175
14	25524569	25588923	-	evm.model.CTG_104.50.1	Eupl14g01176	1176
14	25607907	25608368	-	evm.model.CTG_104.52	Eupl14g01177	1177
14	25609705	25616849	-	evm.model.CTG_104.53	Eupl14g01178	1178
14	25653810	25654966	+	evm.model.CTG_104.55	Eupl14g01179	1179
22	18364627	18384397	-	Tesin22G0022700.1	Tesi22g00212	212
22	18849661	18898735	+	Tesin22G0023700.1	Tesi22g00221	221
22	19178265	19179201	+	Tesin22G0024600.1	Tesi22g00230	230
16	5159344	5162487	+	GSVIVT01013845001	Vivi16g00258	258

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