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
Eupl1g00201	Eupl5g00326	.	Nenu7g00130	Tesi7g01492	.	.	None	Busi1g01653	.	.	Vivi6g00095	.	Nin7g02107	.	.	.	.	.	.	Arla10g01141	.	.	.	.
Eupl1g00202	Eupl5g00327	.	Nenu7g00132	Tesi7g01490	.	.	None	Busi1g01654	.	.	Vivi6g00097	.	Nin7g02105	.	.	.	.	.	.	.	Arla9g00231	.	.	.
Eupl1g00203	.	Nenu2g03899	.	.	Tesi11g01459	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00204	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00205	.	Nenu2g03898	.	.	Tesi11g01458	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00206	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00207	.	.	.	.	.	.	None	.	Busi2g00749	.	Vivi6g00116	.	Nin7g01302	Nin6g01427	.	.	.	.	.	.	.	.	.	.
Eupl1g00208	.	.	.	.	.	.	None	Busi1g01708	.	Vivi8g01268	.	.	.	.	.	.	Arla17g00448	.	.	.	.	.	.	.
Eupl1g00209	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00210	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
9	3885584	3886276	+	evm.model.000163F.13	Arla9g00231	231
10	68976600	68977486	+	evm.model.000160F.53	Arla10g01141	1141
17	38518581	38528217	+	evm.model.000103F.146	Arla17g00448	448
1	38270143	38270727	+	BUSI_001657-RA	Busi1g01653	1653
1	38274762	38275343	+	BUSI_001658-RA	Busi1g01654	1654
1	38903157	38908160	-	BUSI_001707-RA	Busi1g01708	1708
2	23289895	23293841	+	BUSI_003598-RA	Busi2g00749	749
1	6421184	6421886	-	evm.model.CTG_212.191	Eupl1g00201	201
1	6433570	6434157	-	evm.model.CTG_212.192	Eupl1g00202	202
1	6477741	6478697	+	evm.model.CTG_381.11	Eupl1g00203	203
1	6481319	6483675	-	evm.model.CTG_381.10	Eupl1g00204	204
1	6500216	6501692	+	evm.model.CTG_381.9	Eupl1g00205	205
1	6561414	6565425	+	evm.model.CTG_82.96	Eupl1g00206	206
1	6691577	6823403	+	evm.model.CTG_82.93.1	Eupl1g00207	207
1	6865782	6892822	+	evm.model.CTG_82.88	Eupl1g00208	208
1	6898153	6899984	+	evm.model.CTG_82.86	Eupl1g00209	209
1	6910679	6912312	-	evm.model.CTG_82.85	Eupl1g00210	210
5	9562046	9562635	+	evm.model.CTG_110.94	Eupl5g00326	326
5	9584833	9585560	+	evm.model.CTG_110.95	Eupl5g00327	327
2	105946129	105947052	+	OF23317.mRNA1	Nenu2g03898	3898
2	105959681	105960631	+	OF23316.mRNA1	Nenu2g03899	3899
7	2353289	2353887	+	OF12281.mRNA1	Nenu7g00130	130
7	2371638	2372246	+	OF12283.mRNA1	Nenu7g00132	132
6	23656992	23699983	+	NinS16880.t1	Nin6g01427	1427
7	28867500	28875308	-	NinS19765.t1	Nin7g01302	1302
7	38043866	38045375	-	NinS20568.t1	Nin7g02105	2105
7	38047763	38048777	-	NinS20570.t1	Nin7g02107	2107
7	45688666	45689241	-	Tesin07G0156100.1	Tesi7g01490	1490
7	45721625	45725333	-	Tesin07G0156300.1	Tesi7g01492	1492
11	42863440	42864339	+	Tesin11G0151100.1	Tesi11g01458	1458
11	42880527	42881459	+	Tesin11G0151200.1	Tesi11g01459	1459
6	1094444	1095244	+	GSVIVT01025397001	Vivi6g00095	95
6	1125322	1126160	+	GSVIVT01025394001	Vivi6g00097	97
6	1347067	1350208	+	GSVIVT01025371001	Vivi6g00116	116
8	20234672	20241344	+	GSVIVT01033498001	Vivi8g01268	1268

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