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
Eupl14g01330	.	.	.	.	.	.	None	.	.	.	.	.	.	Nin9g02279	.	.	.	.	.	.	.	.	.	.
Eupl14g01331	.	.	.	.	.	.	None	.	.	.	.	.	.	Nin9g02280	.	.	.	.	.	.	.	.	.	.
Eupl14g01332	.	.	.	.	.	.	None	.	Busi8g00592	.	.	.	.	Nin9g02281	.	.	.	.	.	.	.	.	.	.
Eupl14g01333	.	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01334	.	.	.	.	.	.	None	.	Busi8g00594	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01335	Eupl8g00779	.	.	.	.	.	None	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01336	.	.	.	.	.	.	None	.	Busi8g00595	.	.	.	.	.	Nin5g01699	.	.	.	.	.	.	.	.	.
Eupl14g01337	.	.	.	.	.	.	None	.	.	.	.	.	.	Nin9g02282	.	.	.	.	.	.	.	.	.	.
Eupl14g01338	.	.	.	.	.	.	None	.	.	.	.	.	.	Nin9g02283	.	.	.	.	.	.	.	.	.	.
Eupl14g01339	.	.	.	.	.	.	None	.	Busi8g00599	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
8	8041176	8051462	-	BUSI_016075-RA	Busi8g00592	592
8	8168058	8171186	+	BUSI_016087-RA	Busi8g00594	594
8	8085635	8092365	+	BUSI_016078-RA	Busi8g00595	595
8	8098623	8104895	-	BUSI_016080-RA	Busi8g00599	599
8	20389052	20390007	+	evm.model.CTG_92.13	Eupl8g00779	779
14	30849195	30860009	+	evm.model.CTG_394.23	Eupl14g01330	1330
14	30893097	30897738	+	evm.model.CTG_394.22	Eupl14g01331	1331
14	30900991	30915457	-	evm.model.CTG_394.21	Eupl14g01332	1332
14	30971061	30986611	+	evm.model.CTG_394.20	Eupl14g01333	1333
14	31027344	31041715	+	evm.model.CTG_394.19	Eupl14g01334	1334
14	31059831	31060959	+	evm.model.CTG_394.18	Eupl14g01335	1335
14	31095574	31104824	+	evm.model.CTG_394.16	Eupl14g01336	1336
14	31107991	31120768	+	evm.model.CTG_394.15.4	Eupl14g01337	1337
14	31127096	31127964	+	evm.model.CTG_394.14	Eupl14g01338	1338
14	31130025	31159081	-	evm.model.CTG_394.13.1	Eupl14g01339	1339
5	33944485	33952372	-	NinS14512.t1	Nin5g01699	1699
9	34518396	34523549	+	NinS26729.t1	Nin9g02279	2279
9	34524772	34530862	+	NinS26730.t1	Nin9g02280	2280
9	34533667	34539928	-	NinS26731.t1	Nin9g02281	2281
9	34543874	34551132	+	NinS26732.t1	Nin9g02282	2282
9	34551618	34552502	+	NinS26733.t1	Nin9g02283	2283

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