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
Eupl1g00021	.	.	.	.	.	.	.	Busi1g02671	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00022	Eupl5g00041	.	.	Tesi7g01053	.	.	Tesi13g00812	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00023	Eupl5g00044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00024	.	.	.	Tesi7g01051	.	.	Tesi13g00811	.	.	.	Vivi6g00888	Vivi13g00857	Nin7g02529	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00025	Eupl5g00053	.	.	.	.	.	.	Busi1g02660	.	.	Vivi6g00891	.	.	.	.	.	.	.	Arla3g00704	.	.	.	.	.
Eupl1g00026	.	.	.	.	.	.	.	Busi1g02652	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00029	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
3	40532132	40552550	+	evm.model.000008F.323	Arla3g00704	704
1	65485306	65487421	+	BUSI_002654-RA	Busi1g02652	2652
1	65718342	65721638	-	BUSI_002660-RA	Busi1g02660	2660
1	66397590	66398273	+	BUSI_002672-RA	Busi1g02671	2671
1	888641	890097	+	evm.model.CTG_111.24.1	Eupl1g00021	21
1	894604	897369	+	evm.model.CTG_111.25	Eupl1g00022	22
1	905237	911651	-	evm.model.CTG_111.26	Eupl1g00023	23
1	924731	954433	+	evm.model.CTG_111.27	Eupl1g00024	24
1	965922	981029	+	evm.model.CTG_111.28	Eupl1g00025	25
1	983372	985795	-	evm.model.CTG_111.29	Eupl1g00026	26
1	996739	997322	+	evm.model.CTG_111.30	Eupl1g00027	27
1	1007102	1012786	-	evm.model.CTG_111.31.2	Eupl1g00028	28
1	1033508	1049148	+	evm.model.CTG_111.32	Eupl1g00029	29
1	1049387	1074215	+	evm.model.CTG_111.33	Eupl1g00030	30
5	921617	928618	+	evm.model.CTG_219.170	Eupl5g00041	41
5	953659	954140	-	evm.model.CTG_219.166	Eupl5g00044	44
5	1124023	1129890	+	evm.model.CTG_219.157	Eupl5g00053	53
7	41867783	41879973	+	NinS20992.t1	Nin7g02529	2529
7	24689972	24748207	-	Tesin07G0110600.1	Tesi7g01051	1051
7	24828961	24834372	-	Tesin07G0110800.1	Tesi7g01053	1053
13	21750591	21789253	-	Tesin13G0086200.1	Tesi13g00811	811
13	21816315	21821351	+	Tesin13G0086300.1	Tesi13g00812	812
6	13426165	13465008	-	GSVIVT01037454001	Vivi6g00888	888
6	13535686	13571827	+	GSVIVT01037449001	Vivi6g00891	891
13	16040740	16066729	+	GSVIVT01027348001	Vivi13g00857	857

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