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
Vvi19g1050 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1051 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal2g0643 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1052 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1053 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1055 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1056 . . . . . . . . . . . . . Aip03g02065 . . . Amo13g2345 . . . . . . . . . Bva07g01529 . . . . . . . . . . . . . . . . . . . . Lal9g0567 . Lal2g0656 . . . Lan8g1326 . Lan8g1326 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0087 . . . . . . . . . . . . . . . . . .
Vvi19g1057 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1058 . . . . . . . . Aev10g1177 . Ahy18g1670 . Aip08g01845 . . . . . . Apr5g0858 . . . . . . . Bva07g01528 Car01g01881 . . . . . Dod10g0791 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1781 . . . . . . . Mtr2g2380 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0086 Tpr7g3301 . . . Tsu02g04057 . . . . . . . . . . . . .
Vvi19g1059 . . . . . . . . . . . Ahy13g1864 . Aip03g02066 . . . Amo13g2349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal9g0571 . Lal2g0657 Lal20g0416 . . . . . . . . . . . . . . . . . . . . Lja3g3860 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal2g0643 Chr2 3843840 3863839 +
Vvi Vvi19g1050 Chr19 15277034 15277406 +
Vvi Vvi19g1051 Chr19 15301187 15306241 +
Lal Lal2g0643 Chr2 3843840 3863839 +
Vvi Vvi19g1052 Chr19 15309356 15310164 +
Vvi Vvi19g1053 Chr19 15316121 15316426 +
Vvi Vvi19g1054 Chr19 15331222 15345202 -
Vvi Vvi19g1055 Chr19 15383928 15387986 +
Vvi Vvi19g1056 Chr19 15403004 15406589 +
Aip Aip03g02065 Chr03 29913347 29915380 +
Amo Amo13g2345 Chr13 40464063 40466268 +
Bva Bva07g01529 Chr07 14994463 15005403 -
Lal Lal9g0567 Chr9 3838149 3839927 +
Lal Lal2g0656 Chr2 3935394 3937166 +
Lan Lan8g1326 Chr8 20140849 20142863 -
Lan Lan8g1326 Chr8 20140849 20142863 -
Sto Sto7g0087 Chr7 685827 687772 -
Vvi Vvi19g1057 Chr19 15467575 15470255 -
Vvi Vvi19g1058 Chr19 15497839 15499388 +
Aev Aev10g1177 Chr10 15514270 15516753 -
Ahy Ahy18g1670 Chr18 43587440 43589847 +
Aip Aip08g01845 Chr08 43417666 43420102 +
Apr Apr5g0858 Chr5 12595983 12598016 +
Bva Bva07g01528 Chr07 14982039 14983730 -
Car Car01g01881 Chr01 43108316 43110542 -
Dod Dod10g0791 Chr10 23255630 23257943 -
Mal Mal4g1781 Chr4 32592956 32595340 +
Mtr Mtr2g2380 Chr2 35942307 35945045 -
Sto Sto7g0086 Chr7 666542 668084 -
Tpr Tpr7g3301 Chr7 40923387 40926057 -
Tsu Tsu02g04057 Chr02 47263549 47266131 -
Vvi Vvi19g1059 Chr19 15603359 15604772 +
Ahy Ahy13g1864 Chr13 31198694 31200619 +
Aip Aip03g02066 Chr03 30004349 30006764 +
Amo Amo13g2349 Chr13 40557531 40560051 +
Lal Lal9g0571 Chr9 3856548 3859038 +
Lal Lal2g0657 Chr2 3956792 3960830 +
Lal Lal20g0416 Chr20 3341463 3345235 +
Lja Lja3g3860 Chr3 76034462 76036647 +