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
Vvi4g0394 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g0091 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3252 . . . Tsu01g00823 . . . . . . . . . . . .
Vvi4g0395 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5340 . . . . . . . Mtr1g0090 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3251 . . . Tsu01g00824 . . . . . . . . . . . .
Vvi4g0396 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0397 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0398 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5339 . . . . . . . Mtr1g0089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3249 . . . Tsu01g00826 . . . . . . . . . . . .
Vvi4g0399 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5338 . . . . . . . Mtr1g0088 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3248 . . . Tsu01g00827 . . . . . . . . . . . .
Vvi4g0400 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0401 Acco10g2123 . Accr4g00664 . Adu10g02082 . . . . . . . . . Alju08g0685 . . . . . Arst10g02646 . . . Bisa09g1333 . . . . . . . Dere04g0700 . . . . . Glsi08g1457 . . . Gma04g00727 . . . . . . . Lal17g0294 . . . . . . . . . Lapu9g01775 . . . Lele01g0537 Lele02g0532 Lele03g0546 Lele04g0551 . . . . . . Mal2g0723 . Mepo3g07569 . . . Mibi05g0607 . Mtr3g4045 . . . Phco7g00886 . Prci15g0857 . . . Pste2g02118 . Pte3g01036 . . . Pumo10g00906 . Pvu9g1079 . Rops10g01540 . Seca4g00768 . Spst9g00919 . . . . . Tpr7g0464 . Trre5g05396 . Tsu07g00484 . Vian4g01857 . . . Vimu10g02788 . Viun9g02874 . Vivi4g04889 . . .
Vvi4g0402 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g0042 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0403 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0394 Chr4 3425927 3426370 +
Mtr Mtr1g0091 Chr1 970451 973135 +
Tpr Tpr1g3252 Chr1 36959817 36962440 +
Tsu Tsu01g00823 Chr01 7462507 7464058 -
Vvi Vvi4g0395 Chr4 3435427 3438849 +
Mal Mal1g5340 Chr1 127007785 127009076 +
Mtr Mtr1g0090 Chr1 959290 960762 +
Tpr Tpr1g3251 Chr1 36949121 36952036 +
Tsu Tsu01g00824 Chr01 7469140 7472586 -
Vvi Vvi4g0396 Chr4 3439924 3441644 +
Vvi Vvi4g0397 Chr4 3442171 3442310 -
Vvi Vvi4g0398 Chr4 3442275 3461011 +
Mal Mal1g5339 Chr1 126989802 126990850 +
Mtr Mtr1g0089 Chr1 951142 952830 +
Tpr Tpr1g3249 Chr1 36939298 36943198 +
Tsu Tsu01g00826 Chr01 7481542 7482207 -
Vvi Vvi4g0399 Chr4 3464865 3465608 +
Mal Mal1g5338 Chr1 126984258 126984707 +
Mtr Mtr1g0088 Chr1 944608 946358 +
Tpr Tpr1g3248 Chr1 36923338 36926506 +
Tsu Tsu01g00827 Chr01 7495788 7496177 -
Vvi Vvi4g0400 Chr4 3466051 3471214 +
Vvi Vvi4g0401 Chr4 3478347 3480004 +
Acco Acco10g2123 Chr10 33450125 33451700 -
Accr Accr4g00664 Chr4 6405332 6406935 +
Adu Adu10g02082 Chr10 92425648 92429744 +
Alju Alju08g0685 Chr08 5084286 5087247 +
Arst Arst10g02646 Chr10 91713518 91718105 +
Bisa Bisa09g1333 Chr09 19230202 19232311 -
Dere Dere04g0700 Chr04 6963143 6964749 -
Glsi Glsi08g1457 Chr08 10577200 10580028 +
Gma Gma04g00727 Chr04 6751474 6756330 -
Lal Lal17g0294 Chr17 1827215 1829490 -
Lapu Lapu9g01775 Chr9 32633329 32637275 +
Lele Lele01g0537 Chr01 3217613 3221751 +
Lele Lele02g0532 Chr02 3211894 3214911 +
Lele Lele03g0546 Chr03 3250498 3253231 +
Lele Lele04g0551 Chr04 3346455 3349148 +
Mal Mal2g0723 Chr2 8470373 8475718 +
Mepo Mepo3g07569 Chr3 88989319 88992652 -
Mibi Mibi05g0607 Chr05 5869812 5871372 +
Mtr Mtr3g4045 Chr3 54116992 54119998 -
Phco Phco7g00886 Chr7 7047469 7050474 -
Prci Prci15g0857 Chr15 5491792 5493767 +
Pste Pste2g02118 Chr2 21242717 21246116 -
Pte Pte3g01036 Chr3 8833045 8833644 +
Pumo Pumo10g00906 Chr10 11782462 11806808 -
Pvu Pvu9g1079 Chr9 15831727 15835080 -
Rops Rops10g01540 Chr10 28700627 28704879 -
Seca Seca4g00768 Chr4 12935110 12939199 +
Spst Spst9g00919 Chr9 8049082 8052149 +
Tpr Tpr7g0464 Chr7 3975506 3976732 +
Trre Trre5g05396 Chr5 54630122 54632218 -
Tsu Tsu07g00484 Chr07 3793272 3795635 +
Vian Vian4g01857 Chr4 35018182 35021322 +
Vimu Vimu10g02788 Chr10 39271679 39275043 +
Viun Viun9g02874 Chr9 37166083 37171118 +
Vivi Vivi4g04889 Chr4 178671820 178673587 +
Vvi Vvi4g0402 Chr4 3481498 3483144 +
Mtr Mtr1g0042 Chr1 455271 457029 -
Vvi Vvi4g0403 Chr4 3500796 3500939 -