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.
The relevant gene ids can be obtained from the Asteraceae blast and match under the Tools module. This link is Asteraceae blast and match.

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
Hean1g00101	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00107	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
1	2220143	2223481	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001161	Hean1g00101	101
1	2234527	2238467	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001171	Hean1g00102	102
1	2238420	2239368	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001181	Hean1g00103	103
1	2240338	2240508	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001191	Hean1g00104	104
1	2244581	2244772	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001201	Hean1g00105	105
1	2245129	2245416	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001211	Hean1g00106	106
1	2245439	2245597	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001221	Hean1g00107	107
1	2248175	2263543	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001231	Hean1g00108	108
1	2255417	2257352	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001241	Hean1g00109	109
1	2263940	2265861	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0001251	Hean1g00110	110

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