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
Eupl14g00980	.	Nenu1g00656	Nenu6g01128	.	.	.	.	.	.	.	Vivi16g00376	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00981	.	.	Nenu6g01125	.	Tesi1g00930	Tesi21g00639	Tesi22g00294	Busi12g00605	.	Vivi15g00385	Vivi16g00383	.	Nin6g00957	.	.	.	.	Arla5g01030	.	.	.	.	.	.
Eupl14g00982	.	.	Nenu6g01124	.	.	.	.	.	Busi8g00435	Vivi15g00384	.	.	Nin6g00958	.	.	.	Arla11g00201	.	.	.	.	.	.	.
Eupl14g00983	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00984	.	Nenu1g00654	Nenu6g01123	.	.	.	Tesi22g00293	.	.	Vivi15g00383	.	.	Nin6g00959	.	.	.	Arla11g00202	.	.	.	.	.	.	.
Eupl14g00985	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00987	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00988	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00989	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
5	28254157	28290459	-	evm.model.000213F.101	Arla5g01030	1030
11	5935565	5953608	+	evm.model.000200F.114	Arla11g00201	201
11	5955430	5956993	-	evm.model.000200F.113	Arla11g00202	202
12	29537436	29588213	+	BUSI_023155-RA	Busi12g00605	605
8	5904580	5913494	+	BUSI_015919-RA	Busi8g00435	435
14	14614606	14617946	-	evm.model.CTG_278.5	Eupl14g00980	980
14	14621223	14649040	-	evm.model.CTG_278.6.1	Eupl14g00981	981
14	14686676	14711094	+	evm.model.CTG_278.9	Eupl14g00982	982
14	14711754	14715539	+	evm.model.CTG_278.10	Eupl14g00983	983
14	14715912	14717216	-	evm.model.CTG_278.11	Eupl14g00984	984
14	14721124	14732030	-	evm.model.CTG_278.12	Eupl14g00985	985
14	14839537	14848786	-	evm.model.CTG_278.22	Eupl14g00986	986
14	14965255	14966040	+	evm.model.CTG_278.26	Eupl14g00987	987
14	15142642	15143154	-	evm.model.CTG_278.35	Eupl14g00988	988
14	15143165	15143944	-	evm.model.CTG_278.36	Eupl14g00989	989
1	18321546	18322489	+	OF00668.mRNA1	Nenu1g00654	654
1	18370792	18373867	+	OF00670.mRNA1	Nenu1g00656	656
6	38327127	38328065	+	OF11021.mRNA1	Nenu6g01123	1123
6	38343656	38378308	-	OF11020.mRNA1	Nenu6g01124	1124
6	38393023	38448078	+	OF11019.mRNA1	Nenu6g01125	1125
6	38459639	38464124	+	OF11016.mRNA1	Nenu6g01128	1128
6	11374033	11416295	-	NinS16410.t1	Nin6g00957	957
6	11436762	11451698	+	NinS16411.t1	Nin6g00958	958
6	11457370	11458909	-	NinS16412.t1	Nin6g00959	959
1	21224763	21286556	+	Tesin01G0097700.1	Tesi1g00930	930
21	13116495	13132252	-	Tesin21G0069100.1	Tesi21g00639	639
22	21174958	21175927	+	Tesin22G0031400.1	Tesi22g00293	293
22	21218427	21240416	+	Tesin22G0031500.1	Tesi22g00294	294
15	13505485	13506854	+	GSVIVT01018180001	Vivi15g00383	383
15	13508099	13513451	-	GSVIVT01018179001	Vivi15g00384	384
15	13514010	13597648	+	GSVIVT01018178001	Vivi15g00385	385
16	10048723	10050591	-	GSVIVT01014048001	Vivi16g00376	376
16	10551996	10598240	-	GSVIVT01018721001	Vivi16g00383	383

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