Hierarchical alignments with the V. vinifera genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Fabaceae genomes. We used P. vulgaris as a reference, and by comparing homologous gene locus maps and Ks values between P. vulgaris and other Fabaceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We created two hierarchical lists of homologous genes using P. vulgaris as a reference.
  The relevant gene ids can be obtained from the Fabaceae blast and match under the Tools module. This link is Fabaceae blast and match.
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Select Download Tree Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi1g0191 . . . . . . . . . . . . . . . . . . . Apr3g1570 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0192 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g01674 Bva11g00130 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02958 . . . . . . . . . . . . . . . . . . . . . . . Phco4g01812 . . . . . . . . . . . . . Pvu2g0977 . . . . . Spst3g02258 . . . . . . . . . . . . . . . Vimu11g02608 . . . . . . .
Vvi1g0193 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g2043 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0194 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0195 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g01675 Bva11g00132 Car06g02140 . Cca06g00047 . . . . . . . . . . . . . . . . . . Lal22g0649 . . . . . . . . . . . . . . . . . . . . . . . . Mal1g4543 . . . . . . . Mtr1g1199 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1009 . . . Tpr1g2811 . . . Tsu01g01320 . . . . . . . . . . . . .
Vvi1g0196 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g01676 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0197 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0198 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g00877 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0199 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g00878 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0200 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g01678 . Car06g02142 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0191 Chr1 1723811 1725664 +
Apr Apr3g1570 Chr3 30744694 30747555 +
Vvi Vvi1g0192 Chr1 1727470 1732839 -
Bva Bva08g01674 Chr08 9115668 9123970 -
Bva Bva11g00130 Chr11 3552768 3561529 -
Lasa Lasa7g02958 Chr7 562868002 562869360 +
Phco Phco4g01812 Chr4 34789228 34791944 -
Pvu Pvu2g0977 Chr2 17134773 17136639 -
Spst Spst3g02258 Chr3 65402593 65418241 -
Vimu Vimu11g02608 Chr11 46323305 46325683 -
Vvi Vvi1g0193 Chr1 1743180 1745761 +
Psa Psa7g2043 Chr7 149468892 149471463 -
Vvi Vvi1g0194 Chr1 1746297 1746677 +
Vvi Vvi1g0195 Chr1 1748732 1751009 +
Bva Bva08g01675 Chr08 9132767 9136145 +
Bva Bva11g00132 Chr11 3580686 3583347 +
Car Car06g02140 Chr06 21833365 21836823 +
Cca Cca06g00047 Chr06 1050768 1054679 +
Lal Lal22g0649 Chr22 4610065 4623830 -
Mal Mal1g4543 Chr1 105432133 105434510 -
Mtr Mtr1g1199 Chr1 14190391 14193168 +
Ssu Ssu2g1009 Chr2 47686600 47692469 +
Tpr Tpr1g2811 Chr1 32236918 32239271 +
Tsu Tsu01g01320 Chr01 12521397 12523548 -
Vvi Vvi1g0196 Chr1 1751782 1756010 -
Bva Bva08g01676 Chr08 9136387 9140631 -
Vvi Vvi1g0197 Chr1 1764146 1765188 +
Vvi Vvi1g0198 Chr1 1767904 1769983 +
Bva Bva01g00877 Chr01 6279471 6283426 -
Vvi Vvi1g0199 Chr1 1773222 1775929 +
Bva Bva01g00878 Chr01 6279638 6280204 -
Vvi Vvi1g0200 Chr1 1779187 1780886 +
Bva Bva08g01678 Chr08 9165716 9168286 +
Car Car06g02142 Chr06 21844308 21856152 +
Lasa Lasa7g02958 Chr7 562868002 562869360 +
Phco Phco4g01812 Chr4 34789228 34791944 -
Pvu Pvu2g0977 Chr2 17134773 17136639 -
Spst Spst3g02258 Chr3 65402593 65418241 -
Vimu Vimu11g02608 Chr11 46323305 46325683 -