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
Hean1g00471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00472	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00474	.	.	.	.	.	.	Hetu2g01615	.	.	.	.	.	.	.	.	.	.	Stre1g04058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00475	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00476	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	Stre1g04059	Mimi16g01739	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00477	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00478	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00479	.	.	.	.	.	.	Hetu2g01614	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00480	.	.	.	.	.	.	Hetu2g01610	.	.	Smso1g03321	Smso28g00655	.	.	.	.	.	.	Stre1g04064	Mimi16g01733	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	16708344	16710252	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005251	Hean1g00471	471
1	16719576	16720238	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005261	Hean1g00472	472
1	16772383	16774853	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005271	Hean1g00473	473
1	16777818	16778519	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005281	Hean1g00474	474
1	16784267	16786633	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005291	Hean1g00475	475
1	16789940	16790749	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005301	Hean1g00476	476
1	16802606	16806853	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005321	Hean1g00477	477
1	16822048	16822530	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005331	Hean1g00478	478
1	16877906	16880678	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005341	Hean1g00479	479
1	17130553	17131795	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0005361	Hean1g00480	480
2	95076043	95076786	-	>Htub.h1tg000510l.g18.t1	Hetu2g01610	1610
2	95767349	95770210	-	>Htub.h1tg000510l.g14.t1	Hetu2g01614	1614
2	96232590	96233307	+	>Htub.h1tg000510l.g13.t1	Hetu2g01615	1615
16	76555340	76556089	+	KAD3337803.1	Mimi16g01733	1733
16	76656876	76659629	-	KAD3337809.1	Mimi16g01739	1739
1	114628649	114629386	-	KAI3829284.1	Smso1g03321	3321
28	28260751	28261488	+	KAI3682935.1	Smso28g00655	655
1	125464985	125470083	+	Streb.1G040580.1	Stre1g04058	4058
1	125471036	125473180	+	Streb.1G040590.1	Stre1g04059	4059
1	125553580	125554542	-	Streb.1G040640.1	Stre1g04064	4064

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