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

Gene Search

Species

Gene ID

Example:

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
Hean1g00451	.	Bial10g02026	Bial22g01562	.	.	Hetu1g01877	.	Hetu3g01649	.	.	Smso28g00665	.	.	.	.	.	.	.	Mimi16g01771	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00454	.	Bial10g02025	Bial22g01560	.	.	.	.	Hetu3g01646	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00455	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00457	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00458	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00459	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00460	Cobi9g01265	.	.	.	.	Hetu1g01863	.	Hetu3g01644	.	Smso1g03316	.	.	.	.	.	.	.	Stre1g04055	Mimi16g01744	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
10	21664587	21667365	+	g86144.t1	Bial10g02025	2025
10	21670903	21682030	+	g86143.t1	Bial10g02026	2026
22	16752026	16754249	+	g112803.t1	Bial22g01560	1560
22	16758332	16764643	+	g112801.t1	Bial22g01562	1562
9	48470457	48472348	-	h2tg000008l_1.g40706.t1	Cobi9g01265	1265
1	13770347	13780505	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005031	Hean1g00451	451
1	13895805	13898430	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005041	Hean1g00452	452
1	14216908	14217999	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005051	Hean1g00453	453
1	14235936	14244529	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005061	Hean1g00454	454
1	15222641	15223515	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005081	Hean1g00455	455
1	15223533	15224660	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005091	Hean1g00456	456
1	15257289	15257892	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005101	Hean1g00457	457
1	15388693	15390636	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005111	Hean1g00458	458
1	15865279	15866929	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005121	Hean1g00459	459
1	15935804	15948302	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005141	Hean1g00460	460
1	109372541	109382334	-	>Htub.h1tg000127l.g351.t1	Hetu1g01863	1863
1	112368672	112372445	+	>Htub.h1tg001853l.g187.t1	Hetu1g01877	1877
3	98581289	98588170	+	>Htub.h1tg002641l.g56.t1	Hetu3g01644	1644
3	99022248	99034897	+	>Htub.h1tg002641l.g58.t1	Hetu3g01646	1646
3	99770111	99773892	+	>Htub.h1tg002641l.g61.t1	Hetu3g01649	1649
16	76695842	76697793	+	KAD3337814.1	Mimi16g01744	1744
16	77124313	77137717	-	KAD3337841.1	Mimi16g01771	1771
1	114462430	114468384	-	KAI3829279.1	Smso1g03316	3316
28	29550639	29554410	+	KAI3682945.1	Smso28g00665	665
1	125448766	125450994	-	Streb.1G040550.1	Stre1g04055	4055

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