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
Vvi1g1201 . . . . . . . . . . Ahy15g2017 . Aip05g02229 . . . Amo15g1172 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1202 . . . . . . . . Aev05g2004 . Ahy15g2018 . Aip05g02230 . . . Amo15g1174 . . . . . . . . . . . . . . . . . . . . . . . Gma02g01209 . . . Gso2g1091 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1330 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1203 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1204 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1205 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1206 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1207 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca06g00070 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g3985 . . . . . . . . . . . . . . . . Ssu2g1027 . . . . . . . . . . . . . . . . . . . . .
Vvi1g1208 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1209 . . . . . . . . . Aev03g2374 . Ahy13g4350 . Aip03g04826 . . . Amo13g5406 . . . . . . . . Bva01g00968 . Car06g02164 . . . . . . Dod04g1899 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g1997 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1210 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1201 Chr1 16686199 16690231 -
Ahy Ahy15g2017 Chr15 113174693 113175940 -
Aip Aip05g02229 Chr05 104166605 104174448 -
Amo Amo15g1172 Chr15 92791337 92795582 -
Vvi Vvi1g1202 Chr1 16692430 16716319 -
Aev Aev05g2004 Chr05 18950729 18953941 -
Ahy Ahy15g2018 Chr15 113287798 113293992 -
Aip Aip05g02230 Chr05 104301383 104307680 -
Amo Amo15g1174 Chr15 92900654 92907143 -
Gma Gma02g01209 Chr02 14083290 14088819 +
Gso Gso2g1091 Chr2 13728380 13733954 +
Lja Lja2g1330 Chr2 12711561 12716582 +
Vvi Vvi1g1203 Chr1 16740079 16741536 -
Vvi Vvi1g1204 Chr1 16750830 16751702 +
Vvi Vvi1g1205 Chr1 16795363 16796344 +
Vvi Vvi1g1206 Chr1 16801194 16801244 -
Vvi Vvi1g1207 Chr1 16879668 16893825 +
Cca Cca06g00070 Chr06 1732640 1739720 -
Psa Psa7g3985 Chr7 329940551 329944656 +
Ssu Ssu2g1027 Chr2 48358912 48367892 +
Vvi Vvi1g1208 Chr1 16894974 16897023 +
Vvi Vvi1g1209 Chr1 16897789 16902150 -
Aev Aev03g2374 Chr03 25146407 25148859 +
Ahy Ahy13g4350 Chr13 143182507 143187849 +
Aip Aip03g04826 Chr03 132531048 132534882 +
Amo Amo13g5406 Chr13 154726707 154741826 +
Bva Bva01g00968 Chr01 7492856 7498260 -
Car Car06g02164 Chr06 22104339 22114663 +
Dod Dod04g1899 Chr04 42043530 42052401 +
Psa Psa7g1997 Chr7 145474652 145477896 +
Vvi Vvi1g1210 Chr1 16917135 16917977 -