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
Hean1g00291	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00292	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00293	.	.	.	Dapi4g01962	.	Hetu1g00253	.	Hetu3g00248	.	Smso1g03726	Smso28g00422	.	.	.	.	.	.	Stre1g04429	Mimi16g02185	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00296	Cobi2g02405	Bial10g01412	.	.	.	Hetu1g00255	.	.	Amtr12g01649	.	.	.	.	.	.	.	.	Stre1g04430	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00297	Cobi2g02406	Bial10g01413	.	.	.	Hetu1g00266	.	Hetu3g00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00298	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00299	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Hean1g00300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
12	39389364	39390377	+	AtrifAMIRv0_Chr12g0733811	Amtr12g01649	1649
10	14172430	14174101	-	g86757.t1	Bial10g01412	1412
10	14174401	14175596	-	g86756.t1	Bial10g01413	1413
2	72675183	72676903	-	h2tg000016l_1.g4841.t1	Cobi2g02405	2405
2	72690514	72691522	-	h2tg000016l_1.g4840.t1	Cobi2g02406	2406
4	119293713	119294210	-	h1tg000121l.g120154.t1	Dapi4g01962	1962
1	7546091	7548192	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003281	Hean1g00291	291
1	7553520	7554041	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003291	Hean1g00292	292
1	7577850	7580029	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003301	Hean1g00293	293
1	7581094	7584162	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003311	Hean1g00294	294
1	7584164	7585926	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003321	Hean1g00295	295
1	7597287	7598640	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003331	Hean1g00296	296
1	7610291	7612257	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003341	Hean1g00297	297
1	7636476	7639577	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003351	Hean1g00298	298
1	7639277	7640217	+	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003361	Hean1g00299	299
1	7639579	7640498	-	gnl\|WGS:MNCJ\|mrna.Hean1vXRQr2_Chr01g0003371	Hean1g00300	300
1	9808256	9808774	-	>Htub.h1tg000402l.g36.t1	Hetu1g00253	253
1	9822862	9824836	-	>Htub.h1tg000402l.g34.t1	Hetu1g00255	255
1	10345298	10346399	-	>Htub.h1tg000402l.g23.t1	Hetu1g00266	266
3	9940545	9941057	-	>Htub.h1tg000727l.g151.t1	Hetu3g00248	248
3	9954422	9958306	-	>Htub.h1tg000727l.g152.t1	Hetu3g00249	249
16	84996078	84996747	-	KAD3338255.1	Mimi16g02185	2185
1	123854639	123855130	-	KAI3829689.1	Smso1g03726	3726
28	11304473	11304964	+	KAI3682702.1	Smso28g00422	422
1	131182904	131184899	-	Streb.1G044290.1	Stre1g04429	4429
1	131197221	131199451	-	Streb.1G044300.1	Stre1g04430	4430

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