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
Hean1g00391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00392	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00393	.	.	.	.	.	.	.	Hetu3g00365	.	.	.	.	.	.	.	.	.	.	Mimi16g01793	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00394	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00395	.	Bial10g01465	.	Dapi4g02025	.	Hetu1g00377	Hetu2g00338	.	.	.	.	Taer4g02607	Fro14g01430	Fso1g02311	Ftr2g00480	Fra18g01585	Fli3g00571	.	Mimi16g02269	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00396	.	.	.	.	.	Hetu1g00378	.	.	.	.	.	.	.	.	.	.	.	.	Mimi16g02270	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00398	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00399	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00400	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
10	14861579	14861880	+	g86704.t1	Bial10g01465	1465
4	122108115	122108421	+	h1tg000140l.g125042.t1	Dapi4g02025	2025
3	14088077	14088687	-	FliAMIRv0_Chr03g0078401	Fli3g00571	571
18	61259527	61259816	+	FraAMIRv0_Chr18g0357821	Fra18g01585	1585
14	22614645	22614933	+	FroAMIRv0_Chr14g0255841	Fro14g01430	1430
1	64920645	64920933	+	FsoAMIRv0_Chr01g0023101	Fso1g02311	2311
2	7603773	7604061	-	FtrAMIRv0_Chr02g0033471	Ftr2g00480	480
1	11236602	11239010	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004381	Hean1g00391	391
1	11239139	11241639	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004391	Hean1g00392	392
1	11275050	11278170	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004411	Hean1g00393	393
1	11305095	11305836	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004421	Hean1g00394	394
1	11325948	11326492	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004431	Hean1g00395	395
1	11332804	11333031	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004441	Hean1g00396	396
1	11339745	11340057	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004451	Hean1g00397	397
1	11340098	11341359	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004461	Hean1g00398	398
1	11344626	11345906	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004471	Hean1g00399	399
1	11345922	11351035	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0004481	Hean1g00400	400
1	16926615	16927005	+	>Htub.h1tg001740l.g130.t1	Hetu1g00377	377
1	16946394	16946755	+	>Htub.h1tg001740l.g131.t1	Hetu1g00378	378
2	13859338	13859766	+	>Htub.h2tg001774l.g132.t1	Hetu2g00338	338
3	16923838	16926740	+	>Htub.h1tg001489l.g42.t1	Hetu3g00365	365
16	77524574	77526900	-	KAD3337863.1	Mimi16g01793	1793
16	86680577	86700892	-	KAD3338339.1	Mimi16g02269	2269
16	86742645	86743200	-	KAD3338340.1	Mimi16g02270	2270
4	57103786	57104667	+	>KAK1428384.1	Taer4g02607	2607

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