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
Vvi3g0723 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0724 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0725 . . . . Adu09g02627 . . Aed11g1957 . . . . . . . . . . Apr8g2447 . Arst9g03512 . . . . . . . Car04g01453 . . Cca06g02052 . . . . . . . . . . . . . . . . . . . Lal13g0396 . . . . . . . . . . Lasa6g04480 . . . . . . . . . . . . . Mepo4g04565 . Mesa1g04997 . . . . . Phac7g00617 . Phco6g02799 . . . Psa6g4969 . Pste4g01103 . . . . . . . Pvu7g0415 . . . . . Spst10g01298 . . Ssu2g3176 . . . . Trre1g05821 . . . . . . . . . . . Vivi1g03835 . . Vra11g0019
Vvi3g0726 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0727 . . . . . . Aed1g1976 . Aev09g2500 . Ahy19g3298 . Aip09g03762 . . . Amo19g4183 . . . Arst9g03511 . Bach11g00309 . . . Bva13g00348 Bva14g00425 . . Cca02g02533 . . . Dod06g0053 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g02307 . . . . . . . . . . . Lja5g0407 . . Mal1g0520 . . . . . . . Mtr1g4066 . . Phco6g02798 . . . . . . . . . . . Pumo3g00640 . Pvu7g0416 . Rops6g03123 . Seca8g07737 . . . Ssu7g0470 . . Sto10g0320 . Tpr1g0438 . . . Tsu01g04739 Vian3g00381 . Vifa3g03357 . Vimu3g03396 . Viun7g03642 . Vivi1g03837 . Vra8g2435 .
Vvi3g0728 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0729 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0730 . . . . . . . . . . . . . . . . . . Apr8g2446 . . . . . . . . Bva14g00426 Car04g01452 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4968 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0731 . . . . . . . . Aev09g2499 . Ahy19g3299 . Aip09g03763 . . . Amo19g4184 . . Apr7g0027 Arst9g03509 . . . . . . . Car04g01451 . Cca02g02532 . . . Dod06g0457 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g02306 . Lasa6g04479 . . . . . . . . . Lja5g0408 . . . Mepo4g04563 . Mesa1g04993 . . . . . Phac7g00619 . Phco6g02797 . . . . . Pste4g01106 . . Pte9g01381 . . Pumo3g00642 . Pvu7g0417 . Rops6g03121 . Seca8g07736 . Spst10g01297 . Ssu7g0472 . . Sto10g0321 . . Trre1g05816 . . . . . Vifa3g03354 . Vimu3g03395 . Viun7g03641 . Vivi1g03885 . Vra8g2434 .
Vvi3g0732 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0723 Chr3 6374596 6374820 +
Vvi Vvi3g0724 Chr3 6374881 6375830 +
Vvi Vvi3g0725 Chr3 6384840 6387942 +
Adu Adu09g02627 Chr09 113758226 113761798 -
Aed Aed11g1957 Chr11 22271295 22273948 -
Apr Apr8g2447 Chr8 34548921 34552764 -
Arst Arst9g03512 Chr9 111654629 111658182 -
Car Car04g01453 Chr04 14747900 14751776 -
Cca Cca06g02052 Chr06 35762125 35765231 -
Lal Lal13g0396 Chr13 2485265 2489715 -
Lasa Lasa6g04480 Chr6 644971655 644975023 -
Mepo Mepo4g04565 Chr4 55311866 55316962 -
Mesa Mesa1g04997 Chr1 76842066 76845564 -
Phac Phac7g00617 Chr7 3488435 3492431 +
Phco Phco6g02799 Chr6 49264172 49267729 -
Psa Psa6g4969 Chr6 432104622 432110064 -
Pste Pste4g01103 Chr4 8353591 8357879 +
Pvu Pvu7g0415 Chr7 3278175 3281881 +
Spst Spst10g01298 Chr10 13610593 13614029 -
Ssu Ssu2g3176 Chr2 94065414 94068078 -
Trre Trre1g05821 Chr1 62944292 62948076 -
Vivi Vivi1g03835 Chr1 81391079 81393865 -
Vra Vra11g0019 Chr11 196468 198351 +
Vvi Vvi3g0726 Chr3 6388280 6390379 +
Vvi Vvi3g0727 Chr3 6391762 6395007 +
Aed Aed1g1976 Chr1 16771695 16775492 +
Aev Aev09g2500 Chr09 26699584 26702422 -
Ahy Ahy19g3298 Chr19 156059840 156063295 +
Aip Aip09g03762 Chr09 144437324 144440813 +
Amo Amo19g4183 Chr19 158460143 158472896 +
Arst Arst9g03511 Chr9 111654629 111658343 -
Bach Bach11g00309 Chr11 2107315 2110329 +
Bva Bva13g00348 Chr13 1630633 1634019 +
Bva Bva14g00425 Chr14 2081335 2085502 +
Cca Cca02g02533 Chr02 46495774 46501344 -
Dod Dod06g0053 Chr06 772534 776288 -
Lapu Lapu7g02307 Chr7 39324458 39328694 -
Lja Lja5g0407 Chr5 3642207 3646634 +
Mal Mal1g0520 Chr1 5946239 5956840 +
Mtr Mtr1g4066 Chr1 52222488 52226940 -
Phco Phco6g02798 Chr6 49259078 49262455 -
Pumo Pumo3g00640 Chr3 9676827 9680689 +
Pvu Pvu7g0416 Chr7 3284001 3287856 +
Rops Rops6g03123 Chr6 54652366 54657035 -
Seca Seca8g07737 Chr8 174639815 174644395 -
Ssu Ssu7g0470 Chr7 8870448 8878474 +
Sto Sto10g0320 Chr10 2556582 2564722 +
Tpr Tpr1g0438 Chr1 3720147 3724307 +
Tsu Tsu01g04739 Chr01 54613631 54619262 -
Vian Vian3g00381 Chr3 3631575 3635898 +
Vifa Vifa3g03357 Chr3 961142125 961146624 -
Vimu Vimu3g03396 Chr3 47166090 47175251 -
Viun Viun7g03642 Chr7 37414144 37417747 -
Vivi Vivi1g03837 Chr1 81402909 81406310 -
Vra Vra8g2435 Chr8 42416396 42420011 -
Vvi Vvi3g0728 Chr3 6395575 6397388 +
Vvi Vvi3g0729 Chr3 6398105 6398491 +
Vvi Vvi3g0730 Chr3 6399870 6400550 -
Apr Apr8g2446 Chr8 34547364 34548047 +
Bva Bva14g00426 Chr14 2086946 2087635 -
Car Car04g01452 Chr04 14746887 14747842 +
Psa Psa6g4968 Chr6 432079199 432079952 +
Vvi Vvi3g0731 Chr3 6405058 6405345 -
Aev Aev09g2499 Chr09 26695551 26698596 +
Ahy Ahy19g3299 Chr19 156065318 156066185 -
Aip Aip09g03763 Chr09 144442838 144443643 -
Amo Amo19g4184 Chr19 158463739 158464362 -
Apr Apr7g0027 Chr7 1523764 1524447 +
Arst Arst9g03509 Chr9 111651816 111652703 +
Car Car04g01451 Chr04 14744370 14745357 +
Cca Cca02g02532 Chr02 46490493 46494301 +
Dod Dod06g0457 Chr06 5711651 5712866 -
Lapu Lapu7g02306 Chr7 39321303 39322309 +
Lasa Lasa6g04479 Chr6 644929355 644930103 +
Lja Lja5g0408 Chr5 3648097 3648966 +
Mepo Mepo4g04563 Chr4 55305321 55306713 +
Mesa Mesa1g04993 Chr1 76819386 76820735 +
Phac Phac7g00619 Chr7 3501622 3502772 -
Phco Phco6g02797 Chr6 49256260 49256925 +
Pste Pste4g01106 Chr4 8359344 8360987 -
Pte Pte9g01381 Chr9 35094318 35095346 +
Pumo Pumo3g00642 Chr3 9695782 9696922 -
Pvu Pvu7g0417 Chr7 3292652 3293735 -
Rops Rops6g03121 Chr6 54646204 54647065 +
Seca Seca8g07736 Chr8 174639025 174639735 +
Spst Spst10g01297 Chr10 13607256 13607945 +
Ssu Ssu7g0472 Chr7 8894378 8895177 -
Sto Sto10g0321 Chr10 2567124 2567816 -
Trre Trre1g05816 Chr1 62934772 62935566 +
Vifa Vifa3g03354 Chr3 961040762 961041511 +
Vimu Vimu3g03395 Chr3 47161889 47162569 +
Viun Viun7g03641 Chr7 37410061 37410974 +
Vivi Vivi1g03885 Chr1 82319433 82322327 -
Vra Vra8g2434 Chr8 42413499 42414548 +
Vvi Vvi3g0732 Chr3 6405397 6405711 -
Bva Bva14g00427 Chr14 2088536 2089309 -