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
Vvi1g0621 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01343 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0622 . . . . Adu03g04415 Adu01g01641 . Aed5g1515 . Aev03g2383 . Ahy13g4359 . Aip03g04837 . . . Amo13g5433 . Apr2g1783 Arst3g05837 Arst1g02156 . Bach5g00238 . . Bva01g01342 Bva11g00470 Car06g01200 . . Cca09g01669 . . . Dod04g1910 . . . . . . Gma08g00865 . . . . . . . . . Lal16g0919 Lal15g0902 . . . . . . Lapu3g02667 Lapu3g01196 Lasa7g03816 Lasa4g03022 . . . . . . . . . Lja4g1161 . Mal7g4045 Mepo2g03731 Mepo1g01466 Mesa13g01436 . . . . Mtr8g2668 . . Phco4g02142 Phco8g00616 . . . . Pste3g02485 Pste6g01905 Pte14g00533 Pte12g00814 . Pte2g02439 Pumo6g01384 Pumo4g01503 Pvu2g1899 Pvu3g2146 Rops2g01494 . . Seca12g01677 Spst3g01914 Spst3g04474 . Ssu5g2186 Sto11g0260 . . Tpr3g1420 Trre7g04359 . . . Vian1g02784 Vian1g01272 Vifa6g01899 Vifa4g03142 Vimu11g01681 Vimu7g00562 Viun3g02098 Viun3g04327 Vivi5g04662 Vivi1g02250 . Vra7g0984
Vvi1g0623 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0624 . . . . . . . . . Aev03g2382 . Ahy13g4358 . Aip03g04836 . . . Amo13g5432 . Apr2g1784 . . . . . . Bva01g01339 Bva11g00469 Car06g01201 . . Cca09g01668 . . . Dod04g1909 . . . . . . Gma08g00864 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g1162 . Mal7g4043 . . . . . . . Mtr8g2667 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g2185 . . . Tpr3g1422 . . . Tsu02g01353 . . . . . . . . . . . Vra7g0986
Vvi1g0625 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g00468 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0626 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g00467 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0627 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g2949 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0628 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0629 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0630 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0621 Chr1 6187968 6190575 +
Bva Bva01g01343 Chr01 14616855 14619682 -
Vvi Vvi1g0622 Chr1 6214797 6217013 +
Adu Adu03g04415 Chr03 133151544 133153612 -
Adu Adu01g01641 Chr01 51959383 51962563 +
Aed Aed5g1515 Chr5 19509692 19513263 -
Aev Aev03g2383 Chr03 25208201 25210722 -
Ahy Ahy13g4359 Chr13 143285862 143288135 -
Aip Aip03g04837 Chr03 132650001 132651924 -
Amo Amo13g5433 Chr13 155237394 155238898 -
Apr Apr2g1783 Chr2 23475067 23478118 +
Arst Arst3g05837 Chr3 131915238 131917189 -
Arst Arst1g02156 Chr1 52468149 52471217 +
Bach Bach5g00238 Chr5 1686302 1687584 -
Bva Bva01g01342 Chr01 14595019 14597683 -
Bva Bva11g00470 Chr11 8386392 8389081 -
Car Car06g01200 Chr06 11798748 11801849 +
Cca Cca09g01669 Chr09 40702602 40705196 -
Dod Dod04g1910 Chr04 42162803 42165129 -
Gma Gma08g00865 Chr08 7131205 7134247 -
Lal Lal16g0919 Chr16 6080436 6083912 +
Lal Lal15g0902 Chr15 6826515 6830260 +
Lapu Lapu3g02667 Chr3 49245575 49249082 +
Lapu Lapu3g01196 Chr3 12901533 12903380 +
Lasa Lasa7g03816 Chr7 616771997 616774133 -
Lasa Lasa4g03022 Chr4 557622806 557624033 -
Lja Lja4g1161 Chr4 10311981 10315042 +
Mal Mal7g4045 Chr7 106953694 106956456 -
Mepo Mepo2g03731 Chr2 46633982 46636914 -
Mepo Mepo1g01466 Chr1 14492764 14494859 +
Mesa Mesa13g01436 Chr13 17147330 17149962 +
Mtr Mtr8g2668 Chr8 37335253 37338559 -
Phco Phco4g02142 Chr4 41941408 41943695 +
Phco Phco8g00616 Chr8 6183543 6185131 +
Pste Pste3g02485 Chr3 17638489 17641591 -
Pste Pste6g01905 Chr6 8812321 8814354 +
Pte Pte14g00533 Chr14 25255438 25258501 -
Pte Pte12g00814 Chr12 9386712 9389419 -
Pte Pte2g02439 Chr2 43769621 43772046 +
Pumo Pumo6g01384 Chr6 18653850 18656994 +
Pumo Pumo4g01503 Chr4 18980230 18981750 +
Pvu Pvu2g1899 Chr2 33806744 33809469 +
Pvu Pvu3g2146 Chr3 42257752 42259567 +
Rops Rops2g01494 Chr2 22011997 22014962 +
Seca Seca12g01677 Chr12 18308599 18311044 +
Spst Spst3g01914 Chr3 43744523 43746838 +
Spst Spst3g04474 Chr3 96327759 96329172 -
Ssu Ssu5g2186 Chr5 62820385 62822663 -
Sto Sto11g0260 Chr11 3385820 3388518 +
Tpr Tpr3g1420 Chr3 12602967 12606284 +
Trre Trre7g04359 Chr7 51472511 51475070 -
Vian Vian1g02784 Chr1 43243960 43246244 +
Vian Vian1g01272 Chr1 13764640 13765852 +
Vifa Vifa6g01899 Chr6 708993678 708995956 +
Vifa Vifa4g03142 Chr4 994670466 994671718 -
Vimu Vimu11g01681 Chr11 21474530 21477563 -
Vimu Vimu7g00562 Chr7 5701571 5702781 -
Viun Viun3g02098 Chr3 17238371 17241376 -
Viun Viun3g04327 Chr3 51039953 51041483 -
Vivi Vivi5g04662 Chr5 145268057 145271396 +
Vivi Vivi1g02250 Chr1 47457277 47458757 +
Vra Vra7g0984 Chr7 23730165 23733058 +
Vvi Vvi1g0623 Chr1 6222373 6222806 -
Vvi Vvi1g0624 Chr1 6227256 6230660 -
Aev Aev03g2382 Chr03 25199698 25203105 +
Ahy Ahy13g4358 Chr13 143275123 143279090 +
Aip Aip03g04836 Chr03 132640327 132643903 +
Amo Amo13g5432 Chr13 155223791 155227546 +
Apr Apr2g1784 Chr2 23485068 23488942 -
Bva Bva01g01339 Chr01 14546619 14550253 +
Bva Bva11g00469 Chr11 8376498 8380197 +
Car Car06g01201 Chr06 11808661 11812083 -
Cca Cca09g01668 Chr09 40647364 40651166 +
Dod Dod04g1909 Chr04 42152913 42156883 +
Gma Gma08g00864 Chr08 7115355 7118899 +
Lja Lja4g1162 Chr4 10322743 10326416 -
Mal Mal7g4043 Chr7 106897195 106900611 +
Mtr Mtr8g2667 Chr8 37324884 37328904 +
Ssu Ssu5g2185 Chr5 62789353 62792751 +
Tpr Tpr3g1422 Chr3 12622713 12626666 -
Tsu Tsu02g01353 Chr02 11750375 11753833 -
Vra Vra7g0986 Chr7 23817774 23821620 -
Vvi Vvi1g0625 Chr1 6241165 6248273 -
Bva Bva11g00468 Chr11 8356281 8358710 +
Vvi Vvi1g0626 Chr1 6249032 6252177 -
Bva Bva11g00467 Chr11 8348492 8350793 +
Vvi Vvi1g0627 Chr1 6254753 6255088 +
Psa Psa6g2949 Chr6 246722073 246725045 -
Vvi Vvi1g0628 Chr1 6262133 6263898 -
Vvi Vvi1g0629 Chr1 6271198 6272494 -
Vvi Vvi1g0630 Chr1 6274584 6278504 -
Gma Gma08g00865 Chr08 7131205 7134247 -
Gma Gma08g00864 Chr08 7115355 7118899 +
Pste Pste6g01905 Chr6 8812321 8814354 +
Lal Lal15g0902 Chr15 6826515 6830260 +
Lal Lal16g0919 Chr16 6080436 6083912 +