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
Vvi3g0383 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0758 . . . . . . . . . . . . . . . . . . .
Vvi3g0384 . . . . . . . . Aev03g0251 . Ahy20g1610 . Aip10g01882 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0385 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2324 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0757 Sto10g0143 . . . . . . . . . . . . . . . . . .
Vvi3g0386 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0387 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0388 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal9g0674 . . . . . . . . . . . . Lasa4g01139 . . . . . . . . Lja1g2322 . . . . Mepo1g03513 . Mesa29g04028 . . . . . Phac11g02744 . Phco9g02215 . . . . . Pste1g04307 . . . . . . . Pvu11g2187 . Rops3g02696 . Seca4g09877 . Spst11g00183 . . Sto2g0755 Sto10g0145 . . . Trre15g01422 . . . Vian5g00090 . Vifa4g00842 . Vimu5g00140 . Viun11g00106 . Vivi7g04730 . .
Vvi3g0389 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0390 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car08g00002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa4g01141 . . . . . . . . Lja1g2320 . . . . Mepo1g03511 . Mesa29g04025 . . . . . Phac11g02742 . Phco9g02213 . . . . . Pste1g04309 . . . . . . . Pvu11g2185 . Rops3g02695 . Seca4g09875 . Spst11g00181 . . Sto2g0753 Sto10g0147 . . . Trre15g01426 . . . Vian5g00093 . Vifa4g00839 . Vimu5g00142 . Viun11g00109 . Vivi7g04734 . .
Vvi3g0391 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2319 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0148 . . . . . . . . . . . . . . . . . .
Vvi3g0392 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0383 Chr3 3158762 3164698 +
Sto Sto2g0758 Chr2 6504861 6507962 -
Vvi Vvi3g0384 Chr3 3165769 3173790 -
Aev Aev03g0251 Chr03 1938622 1939866 +
Ahy Ahy20g1610 Chr20 60403717 60406014 -
Aip Aip10g01882 Chr10 57332769 57334564 -
Vvi Vvi3g0385 Chr3 3176558 3180995 -
Lja Lja1g2324 Chr1 26923315 26926615 +
Sto Sto2g0757 Chr2 6498316 6502355 +
Sto Sto10g0143 Chr10 1133600 1140666 -
Vvi Vvi3g0386 Chr3 3181821 3183254 +
Vvi Vvi3g0387 Chr3 3186504 3187205 -
Vvi Vvi3g0388 Chr3 3189387 3192458 -
Lal Lal9g0674 Chr9 4640118 4646138 +
Lasa Lasa4g01139 Chr4 81229487 81231937 -
Lja Lja1g2322 Chr1 26909461 26913313 +
Mepo Mepo1g03513 Chr1 40755342 40760793 +
Mesa Mesa29g04028 Chr29 65879060 65882749 +
Phac Phac11g02744 Chr11 38565712 38570990 +
Phco Phco9g02215 Chr9 47526435 47529058 +
Pste Pste1g04307 Chr1 27992599 27995861 -
Pvu Pvu11g2187 Chr11 49240308 49245366 +
Rops Rops3g02696 Chr3 57227907 57234075 +
Seca Seca4g09877 Chr4 231442159 231448278 +
Spst Spst11g00183 Chr11 7209300 7211950 +
Sto Sto2g0755 Chr2 6483297 6486146 +
Sto Sto10g0145 Chr10 1146248 1150800 -
Trre Trre15g01422 Chr15 11102765 11105961 -
Vian Vian5g00090 Chr5 1571791 1574219 -
Vifa Vifa4g00842 Chr4 249192616 249194759 +
Vimu Vimu5g00140 Chr5 1136784 1139218 -
Viun Viun11g00106 Chr11 678971 683670 -
Vivi Vivi7g04730 Chr7 120876878 120880515 -
Vvi Vvi3g0389 Chr3 3201650 3202921 -
Vvi Vvi3g0390 Chr3 3205743 3213915 -
Car Car08g00002 Chr08 45133 58265 +
Lasa Lasa4g01141 Chr4 82317379 82328820 -
Lja Lja1g2320 Chr1 26888099 26892536 +
Mepo Mepo1g03511 Chr1 40710105 40718844 +
Mesa Mesa29g04025 Chr29 65751701 65759343 +
Phac Phac11g02742 Chr11 38537228 38544892 +
Phco Phco9g02213 Chr9 47503614 47510590 +
Pste Pste1g04309 Chr1 28051599 28059752 -
Pvu Pvu11g2185 Chr11 49213974 49221634 +
Rops Rops3g02695 Chr3 57194195 57202226 +
Seca Seca4g09875 Chr4 231390544 231405134 +
Spst Spst11g00181 Chr11 7189218 7191875 +
Sto Sto2g0753 Chr2 6449719 6455329 +
Sto Sto10g0147 Chr10 1159423 1164894 -
Trre Trre15g01426 Chr15 11130561 11136108 -
Vian Vian5g00093 Chr5 1607290 1614244 -
Vifa Vifa4g00839 Chr4 248251585 248257041 +
Vimu Vimu5g00142 Chr5 1172699 1179982 -
Viun Viun11g00109 Chr11 706570 714346 -
Vivi Vivi7g04734 Chr7 121056029 121061185 -
Vvi Vvi3g0391 Chr3 3219636 3221351 +
Lja Lja1g2319 Chr1 26881143 26884436 -
Sto Sto10g0148 Chr10 1166899 1168641 +
Vvi Vvi3g0392 Chr3 3222219 3223546 +
Aev Aev03g0251 Chr03 1938622 1939866 +
Ahy Ahy20g1610 Chr20 60403717 60406014 -
Aip Aip10g01882 Chr10 57332769 57334564 -