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
Vvi19g0400 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0401 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g00783 Bva09g00783 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0402 . . . . . . . . Aev08g2592 . Ahy18g2710 . Aip08g03094 . . . . . . Apr5g0055 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g5693 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0403 . . . . . . . . Aev08g2594 . Ahy18g2709 . Aip08g03093 . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma06g02349 . . Gma13g02504 Gso6g2136 . . Gso6g2136 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0333 . . . . . . . . . . . . . . . . . . .
Vvi19g0404 . . . . . . . . . . Ahy18g1201 . Aip08g01274 . . . Amo18g1387 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0405 . . . . . . . . . . Ahy18g1199 . Aip08g01269 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g5694 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0406 . . . . . . . . Aev08g2595 . . . Aip08g03092 . . . . . . . . . . . . . . . . . . Cca04g01351 . . . . . . . . Gma06g02351 Gma12g01325 . . Gso6g2137 Gso6g2137 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0407 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal9g0482 . . . . . Lan8g1420 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0408 . . . . . . . . . . Ahy18g1196 . Aip08g01266 . . . Amo18g1375 . . Apr5g0053 . . . . . . . . . . . Cca04g01350 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1894 Sto7g0339 . . . . . . . . . . . . . . . . . . .
Vvi19g0409 . . . . . . . . Aev08g2596 . Ahy18g2708 Ahy13g1782 Aip08g03091 Aip03g01977 . . . Amo13g2246 . Apr5g0051 . . . . . . . . . . . . . . Dod09g0889 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g5695 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi19g0400 Chr19 4430733 4433652 +
Vvi Vvi19g0401 Chr19 4454264 4455306 +
Bva Bva09g00783 Chr09 4028028 4028553 -
Bva Bva09g00783 Chr09 4028028 4028553 -
Vvi Vvi19g0402 Chr19 4457082 4458630 +
Aev Aev08g2592 Chr08 24488886 24492127 -
Ahy Ahy18g2710 Chr18 130433038 130436143 +
Aip Aip08g03094 Chr08 120915477 120918611 -
Apr Apr5g0055 Chr5 488207 507247 -
Psa Psa5g5693 Chr5 495527206 495529734 -
Vvi Vvi19g0403 Chr19 4465676 4469011 +
Aev Aev08g2594 Chr08 24506214 24509499 -
Ahy Ahy18g2709 Chr18 130423815 130427590 +
Aip Aip08g03093 Chr08 120882356 120912237 +
Gma Gma06g02349 Chr06 44681057 44715282 +
Gma Gma13g02504 Chr13 39946349 39950479 +
Gso Gso6g2136 Chr6 40712917 40721200 +
Gso Gso6g2136 Chr6 40712917 40721200 +
Sto Sto7g0333 Chr7 2399776 2403805 +
Vvi Vvi19g0404 Chr19 4470666 4473328 +
Ahy Ahy18g1201 Chr18 20118955 20120576 -
Aip Aip08g01274 Chr08 19184038 19188842 -
Amo Amo18g1387 Chr18 25641078 25646130 -
Vvi Vvi19g0405 Chr19 4484144 4485070 +
Ahy Ahy18g1199 Chr18 19851737 19855924 -
Aip Aip08g01269 Chr08 18921937 18926005 -
Psa Psa5g5694 Chr5 495530061 495531492 -
Vvi Vvi19g0406 Chr19 4489359 4489927 +
Aev Aev08g2595 Chr08 24510665 24513725 +
Aip Aip08g03092 Chr08 120872675 120881260 +
Cca Cca04g01351 Chr04 17446460 17450198 +
Gma Gma06g02351 Chr06 44778583 44781888 +
Gma Gma12g01325 Chr12 19551974 19598927 +
Gso Gso6g2137 Chr6 40754347 40757881 +
Gso Gso6g2137 Chr6 40754347 40757881 +
Vvi Vvi19g0407 Chr19 4497793 4500892 +
Lal Lal9g0482 Chr9 3240469 3244325 -
Lan Lan8g1420 Chr8 21241984 21245717 +
Vvi Vvi19g0408 Chr19 4503251 4505264 +
Ahy Ahy18g1196 Chr18 19714857 19719008 -
Aip Aip08g01266 Chr08 18802152 18805884 -
Amo Amo18g1375 Chr18 25179814 25185728 -
Apr Apr5g0053 Chr5 481591 485384 -
Cca Cca04g01350 Chr04 17410009 17413462 -
Ssu Ssu3g1894 Chr3 58998954 59000339 +
Sto Sto7g0339 Chr7 2441140 2444020 +
Vvi Vvi19g0409 Chr19 4507989 4510361 +
Aev Aev08g2596 Chr08 24514685 24518432 +
Ahy Ahy18g2708 Chr18 130375833 130379179 +
Ahy Ahy13g1782 Chr13 28865985 28870374 -
Aip Aip08g03091 Chr08 120827347 120830438 +
Aip Aip03g01977 Chr03 27704826 27708667 -
Amo Amo13g2246 Chr13 38358673 38362787 -
Apr Apr5g0051 Chr5 475899 479227 +
Dod Dod09g0889 Chr09 28582083 28584286 -
Psa Psa5g5695 Chr5 495654060 495657362 +