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
Eupl14g01120	Eupl8g00839	Nenu1g00540	Nenu6g01033	Tesi1g00404	.	Tesi21g00717	None	.	Busi8g00502	Vivi15g00312	.	.	Nin6g01073	.	.	.	.	Arla5g00930	.	.	.	.	.	.
Eupl14g01121	.	Nenu1g00539	Nenu6g01031	Tesi1g00405	Tesi1g00882	.	None	.	Busi8g00501	.	Vivi16g00275	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01122	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01123	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01124	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01125	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01126	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01127	.	Nenu1g00537	.	.	.	Tesi21g00718	None	.	.	Vivi15g00311	.	.	Nin6g01074	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01128	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01129	.	Nenu1g00536	.	.	.	.	None	.	Busi8g00500	Vivi15g00309	.	.	Nin6g01075	.	.	.	.	Arla5g00929	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
5	24626913	24661332	-	evm.model.000083F.37	Arla5g00929	929
5	24712508	24714147	+	evm.model.000083F.35	Arla5g00930	930
8	6801812	6829481	-	BUSI_015982-RA	Busi8g00500	500
8	6842307	6849333	-	BUSI_015984-RA	Busi8g00501	501
8	6966758	6968125	-	BUSI_015989-RA	Busi8g00502	502
8	23937959	23939185	+	evm.model.CTG_429.32	Eupl8g00839	839
14	20970753	20972732	+	evm.model.CTG_403.45	Eupl14g01120	1120
14	21415077	21417813	+	evm.model.CTG_403.52	Eupl14g01121	1121
14	21421178	21421726	+	evm.model.CTG_403.53	Eupl14g01122	1122
14	21455215	21460057	+	evm.model.CTG_403.54	Eupl14g01123	1123
14	21496889	21499508	+	evm.model.CTG_403.57	Eupl14g01124	1124
14	21536531	21548299	+	evm.model.CTG_403.60	Eupl14g01125	1125
14	21634849	21635399	+	evm.model.CTG_403.62	Eupl14g01126	1126
14	21724040	21801148	-	evm.model.CTG_403.67	Eupl14g01127	1127
14	21846525	21848044	+	evm.model.CTG_403.69.1	Eupl14g01128	1128
14	21944070	22064169	+	evm.model.CTG_403.76	Eupl14g01129	1129
1	14883298	15085863	-	OF00550.mRNA1	Nenu1g00536	536
1	15099156	15108352	+	OF00551.mRNA1	Nenu1g00537	537
1	15120373	15121948	-	OF00553.mRNA1	Nenu1g00539	539
1	15125897	15127465	-	OF00554.mRNA1	Nenu1g00540	540
6	35965313	35967933	-	OF11113.mRNA1	Nenu6g01031	1031
6	35998874	36000490	-	OF11111.mRNA1	Nenu6g01033	1033
6	13853553	13853963	-	NinS16526.t1	Nin6g01073	1073
6	13894553	13905620	-	NinS16527.t1	Nin6g01074	1074
6	13922738	13978739	+	NinS16528.t1	Nin6g01075	1075
1	8057687	8058952	+	Tesin01G0043000.1	Tesi1g00404	404
1	8083313	8086229	+	Tesin01G0043100.1	Tesi1g00405	405
1	19878059	19881575	-	Tesin01G0092900.1	Tesi1g00882	882
21	15718827	15720404	+	Tesin21G0077300.1	Tesi21g00717	717
21	15778596	15801239	-	Tesin21G0077400.1	Tesi21g00718	718
15	11737840	11853020	-	GSVIVT01018288001	Vivi15g00309	309
15	11889168	11951334	+	GSVIVT01018284001	Vivi15g00311	311
15	11991331	11992413	+	GSVIVT01018283001	Vivi15g00312	312
16	5714744	5715529	-	GSVIVT01013871001	Vivi16g00275	275

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