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
Vvi4g0574 . . . . . . . . . Aev08g0553 . Ahy20g2072 . Aip10g02434 . . . Amo20g2672 . . . . . . . . . . . . . . . . . Dod09g1858 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0575 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0576 . . . . . . . . . Aev08g0555 . Ahy20g2069 . Aip10g02427 . . . Amo20g2665 . . . . . . . . . . . . . . . . . Dod09g1856 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phac2g02956 . . . . . . . . . . . . . . . Pvu2g1840 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0577 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0578 . . . . . . . . . Aev08g0554 . Ahy20g2071 . Aip10g02433 . . . Amo20g2670 . . . . . . . . . . . . . . . . . Dod09g1857 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0579 . . . . . . . . . Aev08g0556 . Ahy20g2068 . Aip10g02426 . . . Amo20g2664 . Apr7g0373 . . . . . . . . . . . . . . . Dod09g1855 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0580 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal8g1572 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0581 . . . . . Adu03g04498 . . . Aev08g0557 . Ahy20g2067 . Aip10g02425 . . . Amo20g2663 . . . Arst3g05949 . . . . . . . . . . . . . Dod09g1854 . . . . Gma14g00952 . . . Gso14g0905 . . . . . . . Lal8g1571 . . . . . . . . . . . . . . . . . . . . . . . . Mepo2g03829 . Mesa13g01313 . . . . . . . Phco4g02061 . . . . . Pste3g02675 . . . . . Pumo6g01293 . Pvu2g1823 . Rops2g01393 . Seca12g05661 . Spst3g00116 . . . . . . . . . . . . . Vifa2g02492 . . . Viun3g02321 . . . .
Vvi4g0582 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0583 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu03g04498 Chr03 134324981 134327256 +
Arst Arst3g05949 Chr3 133088274 133090929 +
Mepo Mepo2g03829 Chr2 47533438 47536484 +
Mesa Mesa13g01313 Chr13 15643554 15646260 -
Phco Phco4g02061 Chr4 40824924 40829039 -
Pste Pste3g02675 Chr3 19669166 19676864 +
Pumo Pumo6g01293 Chr6 17192853 17197745 -
Pvu Pvu2g1823 Chr2 32829922 32834360 -
Rops Rops2g01393 Chr2 19867652 19871915 -
Seca Seca12g05661 Chr12 148166641 148167174 +
Spst Spst3g00116 Chr3 2079447 2083480 +
Vifa Vifa2g02492 Chr2 654524403 654526894 -
Viun Viun3g02321 Chr3 20692708 20697093 -
Vvi Vvi4g0574 Chr4 5421564 5423851 -
Aev Aev08g0553 Chr08 3138561 3140354 -
Ahy Ahy20g2072 Chr20 117122927 117125230 +
Aip Aip10g02434 Chr10 109813710 109815158 +
Amo Amo20g2672 Chr20 123943907 123946258 +
Dod Dod09g1858 Chr09 40196605 40198317 +
Vvi Vvi4g0575 Chr4 5443704 5446333 -
Vvi Vvi4g0576 Chr4 5460029 5460850 -
Aev Aev08g0555 Chr08 3152438 3155203 +
Ahy Ahy20g2069 Chr20 116621148 116622879 -
Aip Aip10g02427 Chr10 109363480 109365349 -
Amo Amo20g2665 Chr20 123389013 123391379 -
Dod Dod09g1856 Chr09 40173942 40175604 -
Phac Phac2g02956 Chr2 31368519 31369370 +
Pvu Pvu2g1840 Chr2 33086066 33086893 -
Vvi Vvi4g0577 Chr4 5478408 5482393 +
Vvi Vvi4g0578 Chr4 5486284 5510310 +
Aev Aev08g0554 Chr08 3143252 3149217 -
Ahy Ahy20g2071 Chr20 117096664 117102471 +
Aip Aip10g02433 Chr10 109783825 109789408 +
Amo Amo20g2670 Chr20 123893063 123898671 +
Dod Dod09g1857 Chr09 40185567 40192570 +
Vvi Vvi4g0579 Chr4 5521515 5591381 +
Aev Aev08g0556 Chr08 3157848 3173093 +
Ahy Ahy20g2068 Chr20 116606381 116619776 -
Aip Aip10g02426 Chr10 109348409 109362229 -
Amo Amo20g2664 Chr20 123374843 123389398 -
Apr Apr7g0373 Chr7 9655734 9665000 +
Dod Dod09g1855 Chr09 40154463 40171757 -
Vvi Vvi4g0580 Chr4 5596166 5598770 +
Lal Lal8g1572 Chr8 20035452 20038310 -
Vvi Vvi4g0581 Chr4 5601743 5606426 -
Adu Adu03g04498 Chr03 134324981 134327256 +
Aev Aev08g0557 Chr08 3175967 3179157 -
Ahy Ahy20g2067 Chr20 116577088 116581027 +
Aip Aip10g02425 Chr10 109299615 109303587 +
Amo Amo20g2663 Chr20 123345575 123349789 +
Arst Arst3g05949 Chr3 133088274 133090929 +
Dod Dod09g1854 Chr09 40149072 40153421 +
Gma Gma14g00952 Chr14 11033571 11038680 -
Gso Gso14g0905 Chr14 10992937 10998080 -
Lal Lal8g1571 Chr8 20031602 20035036 +
Mepo Mepo2g03829 Chr2 47533438 47536484 +
Mesa Mesa13g01313 Chr13 15643554 15646260 -
Phco Phco4g02061 Chr4 40824924 40829039 -
Pste Pste3g02675 Chr3 19669166 19676864 +
Pumo Pumo6g01293 Chr6 17192853 17197745 -
Pvu Pvu2g1823 Chr2 32829922 32834360 -
Rops Rops2g01393 Chr2 19867652 19871915 -
Seca Seca12g05661 Chr12 148166641 148167174 +
Spst Spst3g00116 Chr3 2079447 2083480 +
Vifa Vifa2g02492 Chr2 654524403 654526894 -
Viun Viun3g02321 Chr3 20692708 20697093 -
Vvi Vvi4g0582 Chr4 5608259 5613742 +
Vvi Vvi4g0583 Chr4 5614461 5625438 +