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
Hean1g00411	.	.	.	.	.	.	Hetu2g00421	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00413	.	.	.	.	.	.	Hetu2g00420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00414	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00415	Cobi9g01285	Bial10g02044	Bial22g01583	.	.	.	.	.	.	Smso1g01138	Smso28g00677	.	.	.	.	.	.	Stre1g03987	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00416	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00417	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00418	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00419	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00420	Cobi9g01284	Bial10g02043	Bial22g01582	.	.	Hetu1g01913	.	Hetu3g01692	.	Smso1g01140	.	.	.	.	.	.	.	Stre1g04000	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
10	21873879	21877645	-	g86126.t1	Bial10g02043	2043
10	21885863	21889580	-	g86125.t1	Bial10g02044	2044
22	16983004	16986770	-	g112781.t1	Bial22g01582	1582
22	16994988	16998705	-	g112780.t1	Bial22g01583	1583
9	49038901	49041816	-	h2tg000008l_1.g40725.t1	Cobi9g01284	1284
9	49115082	49118650	-	h2tg000008l_1.g40726.t1	Cobi9g01285	1285
1	11884347	11887869	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004601	Hean1g00411	411
1	11890217	11896411	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004611	Hean1g00412	412
1	11942163	11946417	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004621	Hean1g00413	413
1	11960678	11962069	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004631	Hean1g00414	414
1	11966811	11973142	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004641	Hean1g00415	415
1	11983857	11985906	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004651	Hean1g00416	416
1	11986577	11987334	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004661	Hean1g00417	417
1	11996291	11997164	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004671	Hean1g00418	418
1	12011638	12017423	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004681	Hean1g00419	419
1	12310345	12313278	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004691	Hean1g00420	420
1	115430973	115433432	-	>Htub.h1tg001853l.g225.t1	Hetu1g01913	1913
2	19425730	19428872	-	>Htub.h2tg000910l.g248.t1	Hetu2g00420	420
2	19524836	19528695	-	>Htub.h2tg000910l.g247.t1	Hetu2g00421	421
3	103340928	103343361	-	>Htub.h1tg002641l.g105.t1	Hetu3g01692	1692
1	23342063	23347854	+	KAI3827101.1	Smso1g01138	1138
1	23381580	23390182	+	KAI3827103.1	Smso1g01140	1140
28	33684353	33691737	-	KAI3682957.1	Smso28g00677	677
1	124666318	124669866	-	Streb.1G039870.1	Stre1g03987	3987
1	124798048	124802825	-	Streb.1G040000.1	Stre1g04000	4000

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