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
Vvi16g0829 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g3606 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0830 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g3607 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0831 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0832 . . . . . . . . . . . . . . . . . . . . . Arst5g01527 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g01518 . . . . . . . Pvu2g0406 . Rops1g02332 . Seca10g00181 . . . . . . . . . . . . . Vian10g00138 . Vifa1g08144 . . . Viun2g02777 . Vivi2g04068 . .
Vvi16g0833 . . . . . . . . . . . . . . . . . . . . . Arst5g01526 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g02650 . . . . . . . . . . . . . . . . . . Mtr1g3609 . . . . . . . . . . . . . . . . . . Pvu2g0405 . . . . . Spst2g00167 . . . . . . . Trre9g03990 . . . . . . . Vimu7g02323 . . . Vivi2g04067 . .
Vvi16g0834 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu2g0404 . . . . . . . . . . . . . . . . . . . . . . . . . Vivi2g04066 . .
Vvi16g0835 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g02651 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g01524 . . . . . . . Pvu2g0403 . . . . . Spst2g00168 . . . . . . . Trre9g00192 . . . . . . . Vimu7g02324 . . . . . .
Vvi16g0836 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0837 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g01530 . . . . . . . Pvu2g0402 . . . . . . . . . . . . . . . . . . . . . . . . . Vivi2g04064 . .
Vvi16g0838 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g02652 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g01141 . . . . . . . Pvu2g0401 . . . . . Spst2g00169 . . . . . . . Trre9g00193 . . . . . . . Vimu7g02325 . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi16g0829 Chr16 16276570 16278105 +
Mtr Mtr1g3606 Chr1 47771139 47772663 +
Vvi Vvi16g0830 Chr16 16286924 16287913 -
Mtr Mtr1g3607 Chr1 47775786 47777288 +
Vvi Vvi16g0831 Chr16 16289537 16290762 -
Vvi Vvi16g0832 Chr16 16335697 16337233 +
Arst Arst5g01527 Chr5 17213460 17215044 +
Pste Pste1g01518 Chr1 4737679 4738876 +
Pvu Pvu2g0406 Chr2 3775079 3776552 -
Rops Rops1g02332 Chr1 45569768 45571943 -
Seca Seca10g00181 Chr10 1666152 1668060 +
Vian Vian10g00138 Chr10 1171865 1173136 +
Vifa Vifa1g08144 Chr1 1271166922 1271168197 -
Viun Viun2g02777 Chr2 32714921 32716389 -
Vivi Vivi2g04068 Chr2 153628328 153634550 -
Vvi Vvi16g0833 Chr16 16343202 16344516 -
Arst Arst5g01526 Chr5 17188941 17190659 -
Lasa Lasa2g02650 Chr2 507203146 507204416 +
Mtr Mtr1g3609 Chr1 47784186 47785777 +
Pvu Pvu2g0405 Chr2 3771797 3772252 +
Spst Spst2g00167 Chr2 1298905 1300184 +
Trre Trre9g03990 Chr9 48009144 48011160 -
Vimu Vimu7g02323 Chr7 20022684 20023959 +
Vivi Vivi2g04067 Chr2 153607780 153609236 -
Vvi Vvi16g0834 Chr16 16346580 16347949 -
Pvu Pvu2g0404 Chr2 3770982 3771589 +
Vivi Vivi2g04066 Chr2 153594923 153596473 -
Vvi Vvi16g0835 Chr16 16350059 16351428 -
Lasa Lasa2g02651 Chr2 507212770 507214027 +
Pste Pste1g01524 Chr1 4753738 4755271 +
Pvu Pvu2g0403 Chr2 3765494 3767075 +
Spst Spst2g00168 Chr2 1314587 1315866 +
Trre Trre9g00192 Chr9 1475890 1477169 +
Vimu Vimu7g02324 Chr7 20027184 20028107 +
Vvi Vvi16g0836 Chr16 16352823 16365956 -
Vvi Vvi16g0837 Chr16 16366907 16368410 -
Pste Pste1g01530 Chr1 4780028 4781586 +
Pvu Pvu2g0402 Chr2 3757437 3758400 -
Vivi Vivi2g04064 Chr2 153572350 153573819 -
Vvi Vvi16g0838 Chr16 16386013 16387529 -
Lasa Lasa2g02652 Chr2 507228780 507230090 +
Pste Pste1g01141 Chr1 3678122 3683695 -
Pvu Pvu2g0401 Chr2 3756821 3757326 -
Spst Spst2g00169 Chr2 1322455 1323734 +
Trre Trre9g00193 Chr9 1479940 1481262 +
Vimu Vimu7g02325 Chr7 20029959 20032094 +