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

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Species

Gene ID

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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
Eupl14g00920	.	.	Nenu6g01152	.	Tesi1g00944	.	.	Busi12g00528	.	.	Vivi16g00415	.	.	Nin9g02308	.	.	.	.	.	.	Arla2g00005	.	.	.
Eupl14g00921	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00922	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00924	.	Nenu1g00688	.	.	.	Tesi21g00624	.	Busi12g00531	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00925	.	Nenu1g00686	Nenu6g01150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g00926	.	Nenu1g00685	Nenu6g01149	.	.	.	Tesi22g00311	.	.	.	.	Vivi2g00535	.	.	.	.	.	.	.	.	.	Arla7g00030	.	.
Eupl14g00927	.	.	Nenu6g01148	Tesi1g00369	.	.	.	.	.	.	.	Vivi2g00536	.	.	.	.	.	.	.	.	.	Arla7g00029	.	.
Eupl14g00928	.	.	.	.	.	Tesi21g00625	.	.	.	Vivi15g00414	.	.	.	.	.	.	Arla11g00194	.	.	.	.	.	.	.
Eupl14g00929	.	Nenu1g00684	Nenu6g01147	Tesi1g00370	.	.	.	Busi12g00612	Busi8g00412	.	.	.	Nin6g00927	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
2	117112	123107	-	evm.model.000353F.11	Arla2g00005	5
7	615365	621567	+	evm.model.000016F.786	Arla7g00029	29
7	653010	655116	+	evm.model.000016F.784	Arla7g00030	30
11	5688505	5691245	-	evm.model.000200F.125	Arla11g00194	194
12	28568873	28572189	+	BUSI_023082-RA	Busi12g00528	528
12	28503157	28514055	+	BUSI_023078-RA	Busi12g00531	531
12	29771375	29772151	+	BUSI_023163-RA	Busi12g00612	612
8	5618840	5620969	-	BUSI_015899-RA	Busi8g00412	412
14	13121140	13127375	-	evm.model.CTG_330.15.4	Eupl14g00920	920
14	13128346	13133150	-	evm.model.CTG_330.14	Eupl14g00921	921
14	13148534	13150472	+	evm.model.CTG_330.13	Eupl14g00922	922
14	13153037	13154759	+	evm.model.CTG_330.12	Eupl14g00923	923
14	13160294	13191313	-	evm.model.CTG_330.11	Eupl14g00924	924
14	13204365	13212246	-	evm.model.CTG_330.10	Eupl14g00925	925
14	13225614	13227584	-	evm.model.CTG_330.9	Eupl14g00926	926
14	13232328	13238722	-	evm.model.CTG_330.8	Eupl14g00927	927
14	13242555	13244620	-	evm.model.CTG_330.7	Eupl14g00928	928
14	13247866	13250312	-	evm.model.CTG_330.6	Eupl14g00929	929
1	19201868	19223562	+	OF00698.mRNA1	Nenu1g00684	684
1	19228930	19230408	+	OF00699.mRNA1	Nenu1g00685	685
1	19249563	19250718	+	OF00700.mRNA1	Nenu1g00686	686
1	19305705	19306894	+	OF19842.mRNA1	Nenu1g00688	688
6	39135416	39138862	+	OF10997.mRNA1	Nenu6g01147	1147
6	39143484	39153646	+	OF10996.mRNA1	Nenu6g01148	1148
6	39172357	39173802	+	OF10995.mRNA1	Nenu6g01149	1149
6	39192303	39193451	+	OF10994.mRNA1	Nenu6g01150	1150
6	39214800	39221159	+	OF10992.mRNA1	Nenu6g01152	1152
6	10922961	10925066	-	NinS16380.t1	Nin6g00927	927
9	34743892	34750331	+	NinS26758.t1	Nin9g02308	2308
1	7218994	7223467	-	Tesin01G0039300.1	Tesi1g00369	369
1	7225579	7228440	-	Tesin01G0039400.1	Tesi1g00370	370
1	21618210	21625170	+	Tesin01G0099100.1	Tesi1g00944	944
21	12800287	12806752	-	Tesin21G0067600.1	Tesi21g00624	624
21	12838894	12841553	-	Tesin21G0067700.1	Tesi21g00625	625
22	21708416	21709621	+	Tesin22G0033600.1	Tesi22g00311	311
2	5263175	5284039	-	GSVIVT01001318001	Vivi2g00535	535
2	5284594	5287233	-	GSVIVT01001319001	Vivi2g00536	536
15	14297501	14300135	-	GSVIVT01027686001	Vivi15g00414	414
16	11534090	11543377	+	GSVIVT01018660001	Vivi16g00415	415

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