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
Eupl14g01090	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01091	.	.	.	.	.	.	None	.	.	.	Vivi16g00277	.	.	.	.	.	.	.	.	.	Arla2g00676	.	.	.
Eupl14g01092	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01093	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01094	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01095	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01096	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01097	Eupl8g00822	Nenu1g00549	.	Tesi1g00400	.	Tesi21g00709	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01098	.	Nenu1g00548	.	Tesi1g00401	.	.	None	.	Busi8g00511	.	.	.	.	.	Nin5g00072	.	.	.	.	.	.	.	.	.
Eupl14g01099	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
2	20647074	20647823	+	evm.model.000001F.678	Arla2g00676	676
8	7148424	7154895	+	BUSI_016004-RA	Busi8g00511	511
8	23555994	23556756	-	evm.model.CTG_451.73	Eupl8g00822	822
14	19750618	19752380	-	evm.model.CTG_374.42	Eupl14g01090	1090
14	19815080	19818608	-	evm.model.CTG_374.43	Eupl14g01091	1091
14	19824528	19826733	-	evm.model.CTG_374.44	Eupl14g01092	1092
14	19830960	19842107	-	evm.model.CTG_374.45	Eupl14g01093	1093
14	19949861	19968221	-	evm.model.CTG_374.49	Eupl14g01094	1094
14	19971754	19973924	+	evm.model.CTG_374.52	Eupl14g01095	1095
14	19973975	19977651	+	evm.model.CTG_374.53	Eupl14g01096	1096
14	20110782	20116969	+	evm.model.CTG_403.1	Eupl14g01097	1097
14	20131508	20172875	-	evm.model.CTG_403.2	Eupl14g01098	1098
14	20408876	20416473	+	evm.model.CTG_403.7	Eupl14g01099	1099
1	15508289	15514448	+	OF00562.mRNA1	Nenu1g00548	548
1	15515796	15516489	-	OF00563.mRNA1	Nenu1g00549	549
5	734049	742914	+	NinS12885.t1	Nin5g00072	72
1	7976595	7988610	+	Tesin01G0042600.1	Tesi1g00400	400
1	7989619	8001592	-	Tesin01G0042700.1	Tesi1g00401	401
21	15250079	15250483	+	Tesin21G0076500.1	Tesi21g00709	709
16	5800268	5801224	+	GSVIVT01013874001	Vivi16g00277	277

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