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
Vvi3g1183 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1184 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1185 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1186 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1187 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00877 Bva14g01049 . . Cca08g01213 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto13g2513 . . . . . . . . . . . . . . . . . .
Vvi3g1188 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g01050 . . Cca08g01216 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto13g2514 . . . . . . . . . . . . . . . . . .
Vvi3g1189 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1190 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1191 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1192 . . . . . . . . Aev04g0796 . Ahy20g0795 . Aip10g00795 . . . . . . . . . . . . . Bva13g00879 Bva14g01053 . . . . . . Dod03g0188 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g4036 Mal7g3817 . . . . . . . Mtr4g3184 . . . . . . . Psa7g2298 . . . . . . . . . . . . . . . . . . . Sto2g2749 Sto13g2516 Tpr3g1638 . . . Tsu02g01600 . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi3g1183 Chr3 16640517 16642082 -
Vvi Vvi3g1184 Chr3 16649674 16650636 +
Vvi Vvi3g1185 Chr3 16654192 16654779 +
Vvi Vvi3g1186 Chr3 16694359 16697045 -
Vvi Vvi3g1187 Chr3 16716769 16718607 -
Bva Bva13g00877 Chr13 4097563 4099680 +
Bva Bva14g01049 Chr14 5033070 5034660 +
Cca Cca08g01213 Chr08 35431122 35438353 -
Sto Sto13g2513 Chr13 31337405 31338975 +
Vvi Vvi3g1188 Chr3 16773485 16775172 -
Bva Bva14g01050 Chr14 5037847 5039561 +
Cca Cca08g01216 Chr08 35527242 35532940 +
Sto Sto13g2514 Chr13 31350529 31352086 +
Vvi Vvi3g1189 Chr3 16869839 16870351 +
Vvi Vvi3g1190 Chr3 16880277 16880561 -
Vvi Vvi3g1191 Chr3 16931731 16941361 -
Vvi Vvi3g1192 Chr3 16956480 16957403 +
Aev Aev04g0796 Chr04 4875948 4876865 -
Ahy Ahy20g0795 Chr20 10085373 10086598 -
Aip Aip10g00795 Chr10 9632506 9633729 -
Bva Bva13g00879 Chr13 4111703 4112869 +
Bva Bva14g01053 Chr14 5050610 5052225 +
Dod Dod03g0188 Chr03 2013792 2015966 +
Lja Lja4g4036 Chr4 73491568 73492872 -
Mal Mal7g3817 Chr7 103980154 103981068 -
Mtr Mtr4g3184 Chr4 45288140 45289369 -
Psa Psa7g2298 Chr7 163258568 163259659 -
Sto Sto2g2749 Chr2 41202596 41203507 +
Sto Sto13g2516 Chr13 31374219 31375124 +
Tpr Tpr3g1638 Chr3 14570869 14572139 +
Tsu Tsu02g01600 Chr02 14064086 14065326 +