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
Vvi19g1360 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1361 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1362 . . . . . . . . . . Ahy18g1907 . Aip08g02163 . . . . . Apr2g0658 . . . . . . . Bva09g01137 Bva07g01415 . . . . . . Dod10g0644 . . . . . Gma08g01519 Gma15g02493 . . Gso8g1370 Gso8g1370 . . . . . Lal20g0495 . . . . . . . . . . . . . . . . . . . . Lja3g3968 . . . . . . . . . . . . . . . . . Psa1g0322 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1363 . . . . . . . . . . Ahy18g1908 . Aip08g02164 . . . . . Apr2g0659 . . . . . . . Bva09g01138 Bva07g01414 . . . . . . Dod10g0643 . . . . . Gma08g01518 Gma15g02495 . . Gso8g1369 Gso8g1369 . . . . . Lal20g0496 . . . . . . . . . . . . . . . . . . . . Lja3g3969 . . . . . . . . . . . . . . . . . Psa1g0323 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1364 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal1g1508 . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1978 . . . . . . . Mtr2g2226 . . . . . . . . Psa1g0137 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1365 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1366 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1367 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1368 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1369 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi19g1360 Chr19 22688699 22717134 +
Vvi Vvi19g1361 Chr19 22722920 22723009 -
Vvi Vvi19g1362 Chr19 22723116 22727588 -
Ahy Ahy18g1907 Chr18 94712685 94716555 +
Aip Aip08g02163 Chr08 87559688 87563596 +
Apr Apr2g0658 Chr2 7813441 7816724 +
Bva Bva09g01137 Chr09 5965747 5968889 +
Bva Bva07g01415 Chr07 14420479 14423506 -
Dod Dod10g0644 Chr10 20189461 20193828 -
Gma Gma08g01519 Chr08 13320470 13324882 -
Gma Gma15g02493 Chr15 52487551 52491863 +
Gso Gso8g1370 Chr8 13135532 13139227 -
Gso Gso8g1370 Chr8 13135532 13139227 -
Lal Lal20g0495 Chr20 4211304 4214645 +
Lja Lja3g3968 Chr3 78173924 78178025 +
Psa Psa1g0322 Chr1 17669317 17673173 +
Vvi Vvi19g1363 Chr19 22741269 22745724 -
Ahy Ahy18g1908 Chr18 94739418 94742582 +
Aip Aip08g02164 Chr08 87587258 87590875 +
Apr Apr2g0659 Chr2 7821303 7824879 +
Bva Bva09g01138 Chr09 5970250 5973542 +
Bva Bva07g01414 Chr07 14415917 14419084 -
Dod Dod10g0643 Chr10 20169587 20173175 -
Gma Gma08g01518 Chr08 13312813 13316120 -
Gma Gma15g02495 Chr15 52512671 52516553 +
Gso Gso8g1369 Chr8 13127054 13130205 -
Gso Gso8g1369 Chr8 13127054 13130205 -
Lal Lal20g0496 Chr20 4216526 4220587 +
Lja Lja3g3969 Chr3 78186448 78190412 +
Psa Psa1g0323 Chr1 17693653 17695780 +
Vvi Vvi19g1364 Chr19 22763855 22769558 +
Lal Lal1g1508 Chr1 17187269 17195531 -
Mal Mal4g1978 Chr4 41215302 41215708 -
Mtr Mtr2g2226 Chr2 33548862 33556779 -
Psa Psa1g0137 Chr1 8051316 8057843 -
Vvi Vvi19g1365 Chr19 22774740 22776403 -
Vvi Vvi19g1366 Chr19 22782623 22799847 -
Vvi Vvi19g1367 Chr19 22802374 22804231 -
Vvi Vvi19g1368 Chr19 22805633 22809970 +
Vvi Vvi19g1369 Chr19 22822154 22822300 +