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
Eupl14g01110	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01111	.	Nenu1g00545	Nenu6g01039	.	.	Tesi21g00712	None	.	Busi8g00509	Vivi15g00314	.	.	Nin6g01068	.	.	.	Arla11g00245	.	.	.	.	.	.	.
Eupl14g01112	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01113	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01114	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01115	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01116	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01117	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01118	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01119	.	Nenu1g00541	Nenu6g01035	.	.	Tesi21g00716	None	.	Busi8g00503	Vivi15g00313	.	.	Nin6g01069	.	Nin5g00079	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
11	8375579	8393710	+	evm.model.000200F.6	Arla11g00245	245
8	6943372	6944958	-	BUSI_015988-RA	Busi8g00503	503
8	7060189	7080301	-	BUSI_015994-RA	Busi8g00509	509
14	20722019	20725071	-	evm.model.CTG_403.31	Eupl14g01110	1110
14	20726671	20772194	+	evm.model.CTG_403.32	Eupl14g01111	1111
14	20774947	20778264	+	evm.model.CTG_403.33	Eupl14g01112	1112
14	20784928	20785200	-	evm.model.CTG_403.34	Eupl14g01113	1113
14	20785712	20786107	-	evm.model.CTG_403.35	Eupl14g01114	1114
14	20801337	20801769	-	evm.model.CTG_403.37	Eupl14g01115	1115
14	20836080	20839570	+	evm.model.CTG_403.38	Eupl14g01116	1116
14	20845873	20849544	+	evm.model.CTG_403.39	Eupl14g01117	1117
14	20849711	20850262	-	evm.model.CTG_403.40	Eupl14g01118	1118
14	20882601	20883833	+	evm.model.CTG_403.43	Eupl14g01119	1119
1	15185269	15186549	-	OF00555.mRNA1	Nenu1g00541	541
1	15389814	15433545	+	OF00559.mRNA1	Nenu1g00545	545
6	36075291	36076466	-	OF11109.mRNA1	Nenu6g01035	1035
6	36265370	36309749	+	OF11105.mRNA1	Nenu6g01039	1039
5	824976	826570	+	NinS12892.t1	Nin5g00079	79
6	13588304	13624222	+	NinS16521.t1	Nin6g01068	1068
6	13704204	13705965	-	NinS16522.t1	Nin6g01069	1069
21	15382943	15443715	+	Tesin21G0076800.1	Tesi21g00712	712
21	15622749	15640061	+	Tesin21G0077200.1	Tesi21g00716	716
15	12041523	12042599	+	GSVIVT01018281001	Vivi15g00313	313
15	12061756	12101151	-	GSVIVT01018280001	Vivi15g00314	314

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