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
Vvi1g1421 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1422 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1423 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1424 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1425 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1426 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1428 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1429 . . . . Adu03g04526 . . . . Aev03g2493 . Ahy13g4466 . Aip03g04952 . . . Amo13g5534 . . Arst3g05985 . . . . . Bva06g01750 . . . . . . . . Dod04g2019 . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02585 . Lasa7g03927 . . . . . . . . . . Lja4g1059 . Mal7g4172 Mepo2g03857 . Mesa13g01289 . . . . Mtr8g2789 Phac2g02735 . Phco4g02032 . . . . . Pste3g02728 . . . . . Pumo6g01242 . Pvu2g1799 . Rops2g01361 . Seca12g05698 . Spst3g00141 . . . . . . Tpr3g1316 Trre7g04513 . . Tsu02g01211 Vian1g02687 . Vifa6g01236 . Vimu11g01847 . Viun3g02271 . Vivi5g05583 . . .
Vvi1g1430 . . . . . . . . . Aev03g2494 . Ahy13g4467 . Aip03g04953 . . . Amo13g5533 . . . . . . . . Bva06g01749 . . . . . . . . Dod04g2020 . . . . . . . Gma18g00074 . . . . . . . . . . . . . . . . . . Lasa5g02620 . . . . . . . . . . . . . Mepo3g06227 . . . . . Mtr3g2815 . . . Phco2g02966 . . . Psa5g2218 . Pste7g02390 . . . . . Pumo1g00442 . Pvu1g2688 . Rops11g03726 . Seca6g01713 . Spst1g01902 . . . . . Tpr2g4682 . Trre5g03110 . Tsu07g02725 . Vian2g03174 . Vifa2g02462 . Vimu6g01522 . Viun1g03447 . Vivi3g03361 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1421 Chr1 20537176 20538072 -
Vvi Vvi1g1422 Chr1 20544285 20544689 +
Vvi Vvi1g1423 Chr1 20564870 20567885 -
Vvi Vvi1g1424 Chr1 20569201 20569568 -
Vvi Vvi1g1425 Chr1 20583256 20586135 -
Vvi Vvi1g1426 Chr1 20593828 20593995 +
Vvi Vvi1g1427 Chr1 20601740 20604763 -
Vvi Vvi1g1428 Chr1 20621692 20624024 -
Vvi Vvi1g1429 Chr1 20625481 20652811 +
Adu Adu03g04526 Chr03 134621823 134630021 +
Aev Aev03g2493 Chr03 25913807 25921219 +
Ahy Ahy13g4466 Chr13 144795066 144803119 +
Aip Aip03g04952 Chr03 134140470 134148586 +
Amo Amo13g5534 Chr13 156838090 156846232 -
Arst Arst3g05985 Chr3 133385112 133393236 +
Bva Bva06g01750 Chr06 12151405 12158885 -
Dod Dod04g2019 Chr04 43635164 43644149 +
Lapu Lapu3g02585 Chr3 48164852 48178795 -
Lasa Lasa7g03927 Chr7 626003026 626005234 +
Lja Lja4g1059 Chr4 9108783 9116756 -
Mal Mal7g4172 Chr7 108579935 108590938 +
Mepo Mepo2g03857 Chr2 47791769 47802607 +
Mesa Mesa13g01289 Chr13 15291944 15301370 -
Mtr Mtr8g2789 Chr8 38562300 38572798 +
Phac Phac2g02735 Chr2 28887022 28899122 -
Phco Phco4g02032 Chr4 40424123 40435468 -
Pste Pste3g02728 Chr3 20105971 20115106 +
Pumo Pumo6g01242 Chr6 16478727 16487111 -
Pvu Pvu2g1799 Chr2 32485449 32497238 -
Rops Rops2g01361 Chr2 19500048 19510701 -
Seca Seca12g05698 Chr12 148597132 148599769 +
Spst Spst3g00141 Chr3 2552468 2560875 +
Tpr Tpr3g1316 Chr3 11651894 11661621 -
Trre Trre7g04513 Chr7 53113989 53119959 +
Tsu Tsu02g01211 Chr02 10224756 10234241 -
Vian Vian1g02687 Chr1 40470031 40488772 -
Vifa Vifa6g01236 Chr6 404439907 404459112 -
Vimu Vimu11g01847 Chr11 25888819 25895330 +
Viun Viun3g02271 Chr3 19929547 19942444 -
Vivi Vivi5g05583 Chr5 159039972 159049229 -
Vvi Vvi1g1430 Chr1 20653715 20660438 -
Aev Aev03g2494 Chr03 25921839 25924287 -
Ahy Ahy13g4467 Chr13 144805422 144808474 -
Aip Aip03g04953 Chr03 134151026 134154030 -
Amo Amo13g5533 Chr13 156830856 156833890 +
Bva Bva06g01749 Chr06 12146533 12150755 +
Dod Dod04g2020 Chr04 43645114 43648938 -
Gma Gma18g00074 Chr18 598260 601933 +
Lasa Lasa5g02620 Chr5 493082454 493087245 +
Mepo Mepo3g06227 Chr3 76433118 76437943 +
Mtr Mtr3g2815 Chr3 42131116 42136052 +
Phco Phco2g02966 Chr2 58526120 58530214 -
Psa Psa5g2218 Chr5 174034405 174039898 -
Pste Pste7g02390 Chr7 22668410 22674586 -
Pumo Pumo1g00442 Chr1 6082772 6084650 -
Pvu Pvu1g2688 Chr1 51566999 51570438 -
Rops Rops11g03726 Chr11 70906335 70910189 +
Seca Seca6g01713 Chr6 71732467 71733310 +
Spst Spst1g01902 Chr1 27264480 27267629 +
Tpr Tpr2g4682 Chr2 52129516 52134180 +
Trre Trre5g03110 Chr5 26390152 26394151 +
Tsu Tsu07g02725 Chr07 31869211 31873594 +
Vian Vian2g03174 Chr2 52229798 52232902 -
Vifa Vifa2g02462 Chr2 645029161 645033864 +
Vimu Vimu6g01522 Chr6 14340313 14343349 +
Viun Viun1g03447 Chr1 41437641 41441135 -
Vivi Vivi3g03361 Chr3 56634705 56639573 -