Hierarchical alignments with the <em>Helianthus annuus</em> genome as reference

Gene Search

Species

Gene ID

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Or, Query Sequence

Example:

Hierarchical alignments with the Helianthus annuus genome as reference

Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Helianthus annuus as a reference, and by comparing homologous gene locus maps and Ks values between Helianthus annuus and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 40×70, 843 macro-matrices.

Query Sequence

Or, Gene ID

Species

Hean_1	Cobi_1	Bial_1	Bial_2	Dapi_1	Dapi_2	Hetu_1	Hetu_2	Hetu_3	Amtr_1	Smso_1	Smso_2	Taer_1	Fro_1	Fso_1	Ftr_1	Fra_1	Fli_1	Stre_1	Mimi_1	Hean_2	Cobi_2	Bial_3	Bial_4	Dapi_3	Dapi_4	Hetu_4	Hetu_5	Hetu_6	Amtr_2	Smso_3	Smso_4	Taer_2	Fro_2	Fso_2	Ftr_2	Fra_2	Fli_2	Stre_2	Mimi_2
Hean17g04541	.	.	.	.	.	.	Hetu51g03878	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04542	.	.	.	.	.	.	Hetu51g03877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04543	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04544	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04545	.	.	.	.	.	.	.	Hetu49g03816	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04548	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04549	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean17g04550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
17	194427055	194427608	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831501	Hean17g04541	4541
17	194528043	194529115	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831511	Hean17g04542	4542
17	194596543	194599104	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831521	Hean17g04543	4543
17	194636178	194638303	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831531	Hean17g04544	4544
17	194644653	194644931	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831541	Hean17g04545	4545
17	194644948	194645936	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831551	Hean17g04546	4546
17	194646171	194646485	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831561	Hean17g04547	4547
17	194648122	194650880	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831571	Hean17g04548	4548
17	194648152	194648779	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831581	Hean17g04549	4549
17	194654195	194659430	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr17g0831591	Hean17g04550	4550
49	220597876	220599747	-	>Htub.h1tg001001l.g547.t1	Hetu49g03816	3816
51	226669369	226670003	-	>Htub.h1tg000558l.g107.t1	Hetu51g03877	3877
51	226677085	226682335	-	>Htub.h1tg000558l.g108.t1	Hetu51g03878	3878

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