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
Vvi18g2006 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g01898 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2007 . . . . . . . . . . Ahy13g0926 . Aip03g01004 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2008 . . . . . . . . . . . . Aip03g00988 . . . Amo13g0890 . . Apr6g0878 . . . . . . Bva07g00606 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2010 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2011 . . . . . Adu07g00604 . . . . . Ahy17g0303 . Aip07g00221 . . . . . . . Arst4g03663 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu8g2829 . . . . . . . . . . . . . . . . . . . . . Vimu1g00720 . . . . . .
Vvi18g2012 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2013 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g3073 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2014 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g1576 . . . . . . . Mtr1g3072 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu01g03638 . . . . . . . . . . . . .
Vvi18g2015 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00145 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g1575 . . . . . . . Mtr1g3069 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g2333 . . . Tsu01g03637 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g2006 Chr18 27764434 27770111 -
Bva Bva09g01898 Chr09 14723965 14726693 -
Vvi Vvi18g2007 Chr18 27781640 27785596 -
Ahy Ahy13g0926 Chr13 9880235 9895431 -
Aip Aip03g01004 Chr03 9629791 9639086 -
Vvi Vvi18g2008 Chr18 27828676 27849058 -
Aip Aip03g00988 Chr03 9532283 9538758 -
Amo Amo13g0890 Chr13 11006395 11008723 +
Apr Apr6g0878 Chr6 13258661 13264425 +
Bva Bva07g00606 Chr07 7855915 7857777 -
Vvi Vvi18g2009 Chr18 27859844 27862326 -
Vvi Vvi18g2010 Chr18 27867295 27871145 -
Vvi Vvi18g2011 Chr18 27892542 27903415 -
Adu Adu07g00604 Chr07 6476624 6479738 -
Ahy Ahy17g0303 Chr17 2859784 2861271 +
Aip Aip07g00221 Chr07 1921904 1922867 +
Arst Arst4g03663 Chr4 115465509 115502772 -
Pvu Pvu8g2829 Chr8 58342499 58345510 -
Vimu Vimu1g00720 Chr1 4666146 4668929 +
Vvi Vvi18g2012 Chr18 27912068 27913691 -
Vvi Vvi18g2013 Chr18 27919293 27920966 -
Mtr Mtr1g3073 Chr1 42027422 42031071 -
Vvi Vvi18g2014 Chr18 27922457 27923889 +
Mal Mal1g1576 Chr1 20600554 20603805 -
Mtr Mtr1g3072 Chr1 42015529 42018006 -
Tsu Tsu01g03638 Chr01 44207960 44209742 -
Vvi Vvi18g2015 Chr18 27926312 27927919 -
Bva Bva07g00145 Chr07 2590477 2592526 -
Mal Mal1g1575 Chr1 20590073 20598326 -
Mtr Mtr1g3069 Chr1 41982900 41987087 -
Tpr Tpr1g2333 Chr1 26154841 26158444 +
Tsu Tsu01g03637 Chr01 44196291 44205689 -