Hierarchical alignments with the <em>Euptelea pleiosperma</em> genome as reference

Gene Search

Species

Gene ID

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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
Eupl1g00221	.	.	.	.	.	Tesi12g00100	.	.	.	.	.	.	.	Nin6g01432	.	.	.	.	.	.	.	.	.	.
Eupl1g00222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00223	.	.	.	.	.	.	.	.	.	Vivi8g01272	.	.	.	.	.	.	Arla17g00451	.	.	.	.	.	.	.
Eupl1g00224	.	.	.	.	.	Tesi12g00098	.	.	Busi2g00745	Vivi8g01274	.	.	.	.	.	.	.	Arla1g02344	.	.	.	.	.	.
Eupl1g00225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00227	.	.	.	.	.	.	.	.	.	.	.	.	.	Nin6g01433	.	.	.	.	.	.	.	.	.	.
Eupl1g00228	.	.	.	Tesi7g01464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl1g00229	.	.	.	Tesi7g01463	.	.	.	.	.	.	.	.	.	Nin6g01442	.	.	.	.	.	.	.	.	.	.
Eupl1g00230	.	.	.	.	Tesi11g01445	.	.	.	Busi2g00753	Vivi8g01277	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	164873049	164885399	-	evm.model.000173F.84	Arla1g02344	2344
17	38625575	38632530	+	evm.model.000103F.149	Arla17g00451	451
2	23350043	23357481	+	BUSI_003603-RA	Busi2g00745	745
2	23363864	23365653	-	BUSI_003604-RA	Busi2g00753	753
1	7123557	7124498	+	evm.model.CTG_82.74	Eupl1g00221	221
1	7125703	7126041	+	evm.model.CTG_82.73	Eupl1g00222	222
1	7169675	7190182	+	evm.model.CTG_82.68	Eupl1g00223	223
1	7194992	7214148	+	evm.model.CTG_82.67	Eupl1g00224	224
1	7262115	7262402	+	evm.model.CTG_82.63	Eupl1g00225	225
1	7262480	7263166	+	evm.model.CTG_82.62	Eupl1g00226	226
1	7271052	7272240	+	evm.model.CTG_82.61	Eupl1g00227	227
1	7273532	7274726	+	evm.model.CTG_82.60	Eupl1g00228	228
1	7280025	7280942	+	evm.model.CTG_82.59	Eupl1g00229	229
1	7323074	7325154	-	evm.model.CTG_82.57.1	Eupl1g00230	230
6	23767942	23769456	-	NinS16885.t1	Nin6g01432	1432
6	23807582	23808318	+	NinS16886.t1	Nin6g01433	1433
6	24009487	24010249	+	NinS16895.t1	Nin6g01442	1442
7	44800435	44814700	-	Tesin07G0153100.1	Tesi7g01463	1463
7	44820645	44821502	+	Tesin07G0153200.1	Tesi7g01464	1464
11	42603228	42604977	+	Tesin11G0149700.1	Tesi11g01445	1445
12	3066842	3073169	-	Tesin12G0010400.1	Tesi12g00098	98
12	3118953	3119945	-	Tesin12G0010600.1	Tesi12g00100	100
8	20258173	20262901	+	GSVIVT01033493001	Vivi8g01272	1272
8	20273743	20284076	+	GSVIVT01033491001	Vivi8g01274	1274
8	20328149	20328910	-	GSVIVT01033486001	Vivi8g01277	1277

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