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.
The relevant gene ids can be obtained from the Asteraceae blast and match under the Tools module. This link is Asteraceae blast and match.

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
Eupl1g00061	Eupl5g00096	Nenu2g04006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00062	Eupl5g00098	.	.	.	.	.	.	Busi1g02642	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00063	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00064	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00065	.	.	.	.	.	.	.	Busi1g02843	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00066	.	.	.	Tesi7g01021	.	.	Tesi13g00764	Busi1g02640	.	Vivi8g00086	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00067	Eupl5g00099	.	.	Tesi7g01020	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00068	Eupl5g00102	.	.	Tesi7g01019	.	.	Tesi13g00763	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00070	Eupl5g00106	.	.	.	.	.	Tesi13g00762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	63020247	63026197	-	BUSI_002641-RA	Busi1g02640	2640
1	63087762	63094312	+	BUSI_002642-RA	Busi1g02642	2642
1	84632363	84639454	+	BUSI_002844-RA	Busi1g02843	2843
1	2069101	2070853	+	evm.model.CTG_111.73	Eupl1g00061	61
1	2072598	2082586	-	evm.model.CTG_111.74	Eupl1g00062	62
1	2112111	2215747	+	evm.model.CTG_212.2	Eupl1g00063	63
1	2225086	2226139	+	evm.model.CTG_212.3	Eupl1g00064	64
1	2234737	2235974	+	evm.model.CTG_212.4	Eupl1g00065	65
1	2238250	2248776	-	evm.model.CTG_212.5	Eupl1g00066	66
1	2256836	2307332	+	evm.model.CTG_212.7_evm.model.CTG_212.9	Eupl1g00067	67
1	2325010	2327375	-	evm.model.CTG_212.10	Eupl1g00068	68
1	2347254	2363613	-	evm.model.CTG_212.11	Eupl1g00069	69
1	2373719	2380255	+	evm.model.CTG_212.13	Eupl1g00070	70
5	2232327	2234298	+	evm.model.CTG_219.104	Eupl5g00096	96
5	2245694	2256818	-	evm.model.CTG_219.102	Eupl5g00098	98
5	2282266	2309782	+	evm.model.CTG_219.101	Eupl5g00099	99
5	2342620	2345204	-	evm.model.CTG_219.98	Eupl5g00102	102
5	2410476	2417781	+	evm.model.CTG_219.93	Eupl5g00106	106
2	108161487	108162847	-	OF23209.mRNA1	Nenu2g04006	4006
7	23334885	23336932	+	Tesin07G0107300.1	Tesi7g01019	1019
7	23372821	23399238	-	Tesin07G0107400.1	Tesi7g01020	1020
7	23403330	23411755	+	Tesin07G0107500.1	Tesi7g01021	1021
13	19870080	19878438	-	Tesin13G0081100.1	Tesi13g00762	762
13	19907028	19909302	+	Tesin13G0081200.1	Tesi13g00763	763
13	19927236	19963701	+	Tesin13G0081300.1	Tesi13g00764	764
8	1784493	1796232	-	GSVIVT01029939001	Vivi8g00086	86

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