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
Hean1g00561	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00564	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00565	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00566	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00567	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00568	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00569	.	Bial10g01119	.	Dapi4g01621	Dapi20g01535	Hetu1g01678	Hetu2g01457	Hetu3g01472	.	Smso1g03397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00570	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
10	11238780	11240091	+	g87050.t1	Bial10g01119	1119
4	99291598	99292887	+	h2tg000160l.g57206.t1	Dapi4g01621	1621
20	90984011	90985154	+	h2tg000075l.g16905.t1	Dapi20g01535	1535
1	28906658	28910872	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006371	Hean1g00561	561
1	28912896	28913817	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006381	Hean1g00562	562
1	28968299	28971981	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006391	Hean1g00563	563
1	29247430	29249020	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006401	Hean1g00564	564
1	29251326	29254839	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006421	Hean1g00565	565
1	29256438	29258329	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006431	Hean1g00566	566
1	29338299	29339724	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006441	Hean1g00567	567
1	29340030	29342009	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006451	Hean1g00568	568
1	29342347	29343110	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006461	Hean1g00569	569
1	29361473	29369876	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0006471	Hean1g00570	570
1	92089883	92091707	+	>Htub.h1tg001922l.g408.t1	Hetu1g01678	1678
2	82314577	82316479	+	>Htub.h1tg000330l.g306.t1	Hetu2g01457	1457
3	79815866	79817766	+	>Htub.h1tg000150l.g17.t1	Hetu3g01472	1472
1	116709220	116710307	+	KAI3829360.1	Smso1g03397	3397

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