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
Eupl1g00121	Eupl5g00186	.	Nenu7g01023	.	.	.	None	.	.	Vivi8g00444	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00122	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00123	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00124	Eupl5g00188	.	Nenu7g01021	Tesi7g01115	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00125	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00126	.	.	.	.	.	.	None	.	.	.	.	.	Nin7g02507	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00127	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00128	Eupl5g00189	.	Nenu7g01020	.	.	.	None	.	.	Vivi8g00443	.	.	.	.	.	Arla10g01326	.	.	.	.	.	.	.	.
Eupl1g00129	Eupl5g00190	.	Nenu7g01019	.	.	.	None	Busi1g02826	.	Vivi8g00442	.	.	.	.	.	.	Arla17g00242	.	.	.	.	.	.	.
Eupl1g00130	.	.	Nenu7g01010	.	.	.	None	Busi1g02825	.	Vivi8g00441	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
10	73472093	73478793	+	evm.model.000039F.630	Arla10g01326	1326
17	15976241	15985983	+	evm.model.000106F.28	Arla17g00242	242
1	82083364	82084375	-	BUSI_002825-RA	Busi1g02825	2825
1	82360581	82376212	+	BUSI_002826-RA	Busi1g02826	2826
1	4235585	4252089	-	evm.model.CTG_212.81	Eupl1g00121	121
1	4276895	4289681	+	evm.model.CTG_212.83	Eupl1g00122	122
1	4293174	4295063	-	evm.model.CTG_212.84	Eupl1g00123	123
1	4301619	4308936	+	evm.model.CTG_212.85	Eupl1g00124	124
1	4320759	4330023	-	evm.model.CTG_212.86	Eupl1g00125	125
1	4337818	4341609	+	evm.model.CTG_212.87	Eupl1g00126	126
1	4364473	4365234	+	evm.model.CTG_212.92	Eupl1g00127	127
1	4374009	4380212	+	evm.model.CTG_212.93	Eupl1g00128	128
1	4382424	4393499	-	evm.model.CTG_212.94	Eupl1g00129	129
1	4420279	4424704	-	evm.model.CTG_212.96	Eupl1g00130	130
5	4981946	5017489	-	evm.model.CTG_83.10	Eupl5g00186	186
5	5062156	5064120	+	evm.model.CTG_83.15	Eupl5g00188	188
5	5064421	5085174	+	evm.model.CTG_83.16	Eupl5g00189	189
5	5086877	5099544	-	evm.model.CTG_83.17	Eupl5g00190	190
7	21914847	21916991	+	OF21000.mRNA1	Nenu7g01010	1010
7	22025471	22042677	+	OF21009.mRNA1	Nenu7g01019	1019
7	22048779	22056438	-	OF21010.mRNA1	Nenu7g01020	1020
7	22099183	22101147	-	OF21011.mRNA1	Nenu7g01021	1021
7	22115741	22149165	+	OF21013.mRNA1	Nenu7g01023	1023
7	41607141	41611782	-	NinS20970.t1	Nin7g02507	2507
7	31176563	31178542	+	Tesin07G0117500.1	Tesi7g01115	1115
8	11323614	11328620	-	GSVIVT01025840001	Vivi8g00441	441
8	11340473	11353811	+	GSVIVT01025839001	Vivi8g00442	442
8	11367701	11377205	-	GSVIVT01025837001	Vivi8g00443	443
8	11382526	11393658	+	GSVIVT01025835001	Vivi8g00444	444

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