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
Eupl1g00211	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00212	.	.	.	.	.	Tesi12g00102	Tesi13g01152	.	Busi2g00748	.	Vivi6g00115	.	Nin7g01301	Nin6g01428	.	.	.	.	.	.	.	.	.	.
Eupl1g00213	.	.	.	.	.	.	.	Busi1g00002	.	Vivi8g01270	.	.	.	.	.	Arla3g01087	Arla17g00450	Arla1g02346	.	.	.	.	.	.
Eupl1g00214	.	.	.	.	.	.	.	.	Busi2g00746	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00215	Eupl5g00330	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00216	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00217	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00220	.	.	.	.	.	Tesi12g00101	.	Busi1g01701	Busi2g00750	Vivi8g01271	.	.	Nin7g01255	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	164891505	164894770	+	evm.model.000173F.86	Arla1g02346	2346
3	76147680	76148724	-	evm.model.000025F.110	Arla3g01087	1087
17	38563514	38567261	+	evm.model.000103F.148	Arla17g00450	450
1	71289	73081	-	BUSI_000009-RA	Busi1g00002	2
1	38809086	38810714	+	BUSI_001702-RA	Busi1g01701	1701
2	23305993	23316474	+	BUSI_003599-RA	Busi2g00746	746
2	23246631	23278345	+	BUSI_003597-RA	Busi2g00748	748
2	23318364	23320001	-	BUSI_003600-RA	Busi2g00750	750
1	6912441	6913826	-	evm.model.CTG_82.84	Eupl1g00211	211
1	6953386	7037400	+	evm.model.CTG_82.83	Eupl1g00212	212
1	7059423	7063097	+	evm.model.CTG_82.82	Eupl1g00213	213
1	7068588	7079589	+	evm.model.CTG_82.76	Eupl1g00214	214
1	7068596	7069934	-	evm.model.CTG_82.81	Eupl1g00215	215
1	7071205	7071732	-	evm.model.CTG_82.80	Eupl1g00216	216
1	7071789	7072879	-	evm.model.CTG_82.79	Eupl1g00217	217
1	7073280	7074150	-	evm.model.CTG_82.78	Eupl1g00218	218
1	7074365	7075370	-	evm.model.CTG_82.77	Eupl1g00219	219
1	7082749	7085384	-	evm.model.CTG_82.75.3	Eupl1g00220	220
5	9635538	9636026	+	evm.model.CTG_110.98	Eupl5g00330	330
6	23710176	23736341	+	NinS16881.t1	Nin6g01428	1428
7	28193957	28208408	+	NinS19718.t1	Nin7g01255	1255
7	28865612	28867489	-	NinS19764.t1	Nin7g01301	1301
12	3133339	3137187	+	Tesin12G0010700.1	Tesi12g00101	101
12	3139063	3141448	-	Tesin12G0010800.1	Tesi12g00102	102
13	42811817	42814791	-	Tesin13G0122500.1	Tesi13g01152	1152
6	1288327	1347015	+	GSVIVT01025372001	Vivi6g00115	115
8	20244178	20247931	+	GSVIVT01033496001	Vivi8g01270	1270
8	20249818	20252600	-	GSVIVT01033494001	Vivi8g01271	1271

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