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
Vvi16g1059 . . . . . Adu09g02317 . . . Aev09g2165 . Ahy19g3597 . Aip09g04056 . . . . . . . Arst9g03058 . . . . . . . . . . . . . Dod06g0860 . . . . Gma10g02175 . . . Gso10g2044 . . . . . . . Lal12g0072 . . . . . . . . Lapu7g01978 . Lasa6g04013 . . . . . . . . . Lja5g0686 Mal1g2123 . . Mepo4g04182 . Mesa1g04561 . . Mtr1g3683 . . Phac7g01178 . Phco6g02403 . . Psa6g4447 . . Pste4g02763 . . . . . Pumo3g01059 . Pvu7g0797 . Rops6g02654 . . . Spst10g00904 . . . . Tpr1g0820 . . Trre1g05312 Tsu01g04350 . . . . Vifa3g02837 . Vimu3g02972 . Viun7g03165 . Vivi1g04476 . .
Vvi16g1060 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco5g00826 Phco6g02402 . . . . . Pste4g02753 . . . . . Pumo3g01060 Pvu4g1098 Pvu7g0798 . Rops6g02652 . . . Spst10g00903 . . . . . . . . . . . . . . . Vimu3g02971 . Viun7g03164 Vivi2g06967 . . .
Vvi16g1061 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1062 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5721 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1063 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1064 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1065 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5723 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1066 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pte3g00255 . . . . . Pvu9g0566 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1068 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Phco Phco5g00826 Chr5 10155178 10158349 +
Pvu Pvu4g1098 Chr4 32456455 32460001 -
Vivi Vivi2g06967 Chr2 210931927 210935897 +
Vvi Vvi16g1059 Chr16 18970721 18978184 +
Adu Adu09g02317 Chr09 110107870 110114007 -
Aev Aev09g2165 Chr09 24595927 24596553 -
Ahy Ahy19g3597 Chr19 158560207 158564989 +
Aip Aip09g04056 Chr09 146809174 146852991 +
Arst Arst9g03058 Chr9 108005824 108012033 -
Dod Dod06g0860 Chr06 10690406 10692292 +
Gma Gma10g02175 Chr10 49298689 49329723 -
Gso Gso10g2044 Chr10 47445860 47451834 -
Lal Lal12g0072 Chr12 465660 471339 +
Lapu Lapu7g01978 Chr7 36023623 36037165 -
Lasa Lasa6g04013 Chr6 611802575 611803235 -
Lja Lja5g0686 Chr5 6163380 6175231 +
Mal Mal1g2123 Chr1 27753314 27757490 +
Mepo Mepo4g04182 Chr4 51742773 51749096 -
Mesa Mesa1g04561 Chr1 71533586 71539783 -
Mtr Mtr1g3683 Chr1 48515777 48522502 -
Phac Phac7g01178 Chr7 7558733 7570711 +
Phco Phco6g02403 Chr6 45411834 45418781 -
Psa Psa6g4447 Chr6 390881098 390884916 -
Pste Pste4g02763 Chr4 19485244 19494451 -
Pumo Pumo3g01059 Chr3 16387321 16389125 +
Pvu Pvu7g0797 Chr7 7235893 7243008 +
Rops Rops6g02654 Chr6 47793162 47801078 -
Spst Spst10g00904 Chr10 9854871 9861780 -
Tpr Tpr1g0820 Chr1 6853748 6859561 +
Trre Trre1g05312 Chr1 59027567 59032667 -
Tsu Tsu01g04350 Chr01 51437840 51443564 -
Vifa Vifa3g02837 Chr3 797081188 797086760 -
Vimu Vimu3g02972 Chr3 43802222 43804274 -
Viun Viun7g03165 Chr7 34251061 34258719 -
Vivi Vivi1g04476 Chr1 95287017 95293247 +
Vvi Vvi16g1060 Chr16 18986474 18989410 -
Phco Phco5g00826 Chr5 10155178 10158349 +
Phco Phco6g02402 Chr6 45404555 45407257 +
Pste Pste4g02753 Chr4 19453680 19455170 +
Pumo Pumo3g01060 Chr3 16529193 16532574 -
Pvu Pvu4g1098 Chr4 32456455 32460001 -
Pvu Pvu7g0798 Chr7 7246370 7249027 -
Rops Rops6g02652 Chr6 47771476 47772099 +
Spst Spst10g00903 Chr10 9850573 9853194 +
Vimu Vimu3g02971 Chr3 43795606 43798236 +
Viun Viun7g03164 Chr7 34246911 34250217 +
Vivi Vivi2g06967 Chr2 210931927 210935897 +
Vvi Vvi16g1061 Chr16 18992913 18993788 -
Vvi Vvi16g1062 Chr16 19003897 19004865 -
Lja Lja1g5721 Chr1 101442789 101444281 -
Vvi Vvi16g1063 Chr16 19005966 19006693 -
Vvi Vvi16g1064 Chr16 19015882 19016504 +
Vvi Vvi16g1065 Chr16 19038205 19039503 +
Lja Lja1g5723 Chr1 101650210 101652706 -
Vvi Vvi16g1066 Chr16 19045739 19045972 -
Vvi Vvi16g1067 Chr16 19047647 19073254 -
Pte Pte3g00255 Chr3 2175685 2177868 +
Pvu Pvu9g0566 Chr9 10175183 10182071 -
Vvi Vvi16g1068 Chr16 19073617 19073787 -