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
Vvi1g0211 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0212 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g00928 . Car06g02153 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g2794 . . . . . . . Mtr1g3455 . . . . . . . Psa6g4152 . . . . . . . . . . . . . . . . . . . . . Tpr1g1053 . . . Tsu01g04079 . . . . . . . . . . . . .
Vvi1g0213 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0214 . . . . . . Aed11g1021 . . . . . . . . . . . . . . . . . . . Bva01g00937 . Car02g00932 . Cca06g00071 . . . . . . . . . . . . . . . . . . Lal22g1018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0215 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0216 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0217 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g00939 . Car06g02154 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g4054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0218 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g00945 . Car06g02158 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0220 . Acco12g1074 . Accr10g00954 . . . . . . . . . . . Alju12g1022 . . Apr7g1311 . . . . . . Bisa01g2675 Bva01g01827 . . . Cca06g00455 . . Dere13g1583 . . . Enph14g1373 . Glsi09g1429 Gma02g01171 . . . Gso2g1061 . . . Lal6g0734 . . . . . Lan11g0745 . . . . . . . . . . . . . Lele53g0688 Lele54g0694 Lele55g0800 . Lja2g1343 . . . . . . . . Mibi10g0961 . . . . . Phco8g03079 . Prci5g1244 . . . . . . . . . . . Pvu3g0356 . . . . . . . . Sto11g0788 . . . . . . . . . . . . Vimu7g04163 . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0211 Chr1 1931545 1932533 +
Vvi Vvi1g0212 Chr1 1932644 1958275 +
Bva Bva01g00928 Chr01 7047313 7073641 -
Car Car06g02153 Chr06 21935822 21951421 +
Mal Mal1g2794 Chr1 39603037 39606905 +
Mtr Mtr1g3455 Chr1 45917701 45921921 +
Psa Psa6g4152 Chr6 365966772 365971087 -
Tpr Tpr1g1053 Chr1 9301139 9305220 -
Tsu Tsu01g04079 Chr01 48667089 48672203 +
Vvi Vvi1g0213 Chr1 1959323 1964386 +
Vvi Vvi1g0214 Chr1 1967827 1970932 +
Aed Aed11g1021 Chr11 16038214 16042293 -
Bva Bva01g00937 Chr01 7191005 7194556 +
Car Car02g00932 Chr02 15519786 15521779 +
Cca Cca06g00071 Chr06 1767820 1772276 +
Lal Lal22g1018 Chr22 8868345 8872117 +
Vvi Vvi1g0215 Chr1 1973859 1978367 +
Vvi Vvi1g0216 Chr1 1989837 1993774 +
Vvi Vvi1g0217 Chr1 2007333 2038877 -
Bva Bva01g00939 Chr01 7199167 7216641 -
Car Car06g02154 Chr06 21952787 21971858 -
Psa Psa7g4054 Chr7 333461076 333491988 +
Vvi Vvi1g0218 Chr1 2042316 2061630 -
Bva Bva01g00945 Chr01 7260098 7273607 -
Car Car06g02158 Chr06 22044577 22055708 -
Vvi Vvi1g0219 Chr1 2075903 2076512 +
Vvi Vvi1g0220 Chr1 2080886 2083868 -
Acco Acco12g1074 Chr12 11535647 11537941 -
Accr Accr10g00954 Chr10 29749139 29751406 +
Alju Alju12g1022 Chr12 30459393 30461708 +
Apr Apr7g1311 Chr7 20190923 20195079 +
Bisa Bisa01g2675 Chr01 52416123 52419600 +
Bva Bva01g01827 Chr01 18873656 18876729 +
Cca Cca06g00455 Chr06 13980775 13986458 -
Dere Dere13g1583 Chr13 21554393 21558971 -
Enph Enph14g1373 Chr14 15792429 15795669 -
Glsi Glsi09g1429 Chr09 10720345 10723188 -
Gma Gma02g01171 Chr02 13137140 13141943 -
Gso Gso2g1061 Chr2 12924089 12928914 -
Lal Lal6g0734 Chr6 4895721 4899480 +
Lan Lan11g0745 Chr11 6725162 6728704 +
Lele Lele53g0688 Chr53 17020374 17022647 +
Lele Lele54g0694 Chr54 13866842 13870397 +
Lele Lele55g0800 Chr55 5412418 5414683 -
Lja Lja2g1343 Chr2 12839897 12843095 -
Mibi Mibi10g0961 Chr10 27713009 27715337 +
Phco Phco8g03079 Chr8 45165762 45171074 -
Prci Prci5g1244 Chr5 31611328 31614023 +
Pvu Pvu3g0356 Chr3 3429913 3435583 +
Sto Sto11g0788 Chr11 8763327 8766107 +
Vimu Vimu7g04163 Chr7 40277725 40280525 -
Psa Psa6g4152 Chr6 365966772 365971087 -