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
Vvi1g0401 Acco02g2305 . Accr2g01473 . . . Aed11g0798 Aed1g1895 . Aev09g2573 . Ahy19g3225 . Aip09g03691 Alju01g2319 . . Amo19g4567 . . Arst9g03617 . Bach10g01259 . Bisa03g0164 . Bva01g01668 Bva11g00718 Car04g01523 . Cca06g00301 Cca02g02616 Dere01g1382 . . Dod06g0137 Enph2g1683 . Glsi12g1525 . . . . . . . . . . . . . . . . . . . . . . . Lasa6g04574 . . Lele06g1669 Lele07g1868 Lele08g1664 . . . . Lja2g1477 Lja5g0318 Mal1g0416 . Mepo4g04674 . Mesa1g05107 . Mibi02g2128 . Mtr1g4158 . . . Phco6g02894 . Prci1g1843 . . . Pste4g00852 . . . . . Pumo3g00559 . Pvu7g0333 . Rops6g03235 . . . . . . Ssu7g0376 Sto11g0659 . Tpr1g0345 . Trre1g05939 . . . Vian3g00302 . Vifa3g03489 . Vimu3g03507 . Viun7g03771 . Vivi1g03671 . . Vra8g2516
Vvi1g0402 . . . . . . . Aed1g1896 . . . . . . . . . . . . . . . . . . . . . . . Cca02g02615 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra8g2515
Vvi1g0403 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0404 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0658 . . . . . . . . . . . . . . . . . . .
Vvi1g0405 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0406 Acco11g0304 . Accr9g01897 . Adu09g02698 . . . . Aev09g2570 . Ahy19g3229 . Aip09g03693 . . . Amo19g4118 . . Arst9g03613 . Bach10g01260 . Bisa11g0631 . Bva01g01663 Bva11g00716 Car04g01521 . . Cca02g02614 Dere09g2093 . . . . . Glsi05g0349 . . . . . . . . . . . . . . . . . . . . . . . Lasa6g04572 . . Lele50g1565 . Lele52g1519 . . . . Lja2g1478 Lja5g0321 Mal1g0418 . . . Mesa1g05104 . Mibi12g0297 . Mtr1g4156 . Phac7g00493 . Phco6g02892 . Prci10g2666 . . . . . . . . . Pumo3g00560 . Pvu7g0335 . Rops6g03233 . Seca8g07831 . Spst10g01390 . . Ssu7g0380 . Sto6g2716 Tpr1g0348 . Trre1g05937 . Tsu01g04836 . Vian3g00304 . Vifa3g03486 . Vimu3g03504 . Viun7g03768 . Vivi1g03674 . . Vra8g2514
Vvi1g0407 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0408 . . . . Adu09g02697 . . Aed1g1899 . Aev09g2569 . Ahy19g3230 . Aip09g03694 . . . Amo19g4565 . . Arst9g03611 . . . . . Bva01g01661 . Car04g02908 . . Cca02g02610 . . . Dod06g0132 . . . . . . . . . . . . Lal6g1021 Lal22g0913 . . . . . . . . . . Lapu7g02376 . Lasa6g04571 . . . . . . . . . . Lja5g0322 Mal1g0419 . Mepo4g04672 . Mesa1g05103 . . . Mtr1g4155 . . . Phco6g02890 . . . . . Pste4g00855 . . . . . Pumo3g00561 . Pvu7g0336 . Rops6g03230 . Seca8g07830 . Spst10g01388 . . Ssu7g0383 Sto11g0657 . Tpr1g0349 . Trre1g05935 . Tsu01g04832 . Vian3g00307 . Vifa3g03483 . Vimu3g03501 . Viun7g03763 . Vivi1g03676 . . Vra8g2509
Vvi1g0409 . . . . Adu09g02696 . . Aed1g1900 . . . . . . . . . . . . Arst9g03609 . . . . . Bva01g01660 . Car04g01517 . . Cca02g02608 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g02375 . Lasa6g04570 . . . . . . . . . . Lja5g0323 Mal1g0420 . Mepo4g04671 . Mesa1g05102 . . . Mtr1g4154 . . . . . . . Psa6g5119 . Pste4g00858 . . . . . . . Pvu7g0337 . Rops6g03229 . Seca8g07829 . Spst10g01387 . . Ssu7g0384 Sto11g0654 . Tpr1g0350 . Trre1g05934 . Tsu01g04831 . Vian3g00308 . Vifa3g03482 . Vimu3g03500 . Viun7g03758 . Vivi1g03678 . . Vra8g2508
Vvi1g0410 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0401 Chr1 3786769 3797082 +
Acco Acco02g2305 Chr02 20102295 20105919 +
Accr Accr2g01473 Chr2 45876194 45879430 -
Aed Aed11g0798 Chr11 12050483 12052304 +
Aed Aed1g1895 Chr1 16230345 16234333 +
Aev Aev09g2573 Chr09 27103977 27110581 -
Ahy Ahy19g3225 Chr19 155399314 155404225 +
Aip Aip09g03691 Chr09 143791039 143800711 +
Alju Alju01g2319 Chr01 20714371 20718703 +
Amo Amo19g4567 Chr19 163198421 163201197 -
Arst Arst9g03617 Chr9 112438283 112442572 -
Bach Bach10g01259 Chr10 9883766 9887173 +
Bisa Bisa03g0164 Chr03 2000791 2007188 -
Bva Bva01g01668 Chr01 17834212 17838228 +
Bva Bva11g00718 Chr11 10168102 10168317 -
Car Car04g01523 Chr04 15515418 15521858 -
Cca Cca06g00301 Chr06 8065138 8072638 +
Cca Cca02g02616 Chr02 47328120 47333294 -
Dere Dere01g1382 Chr01 26934560 26940545 -
Dod Dod06g0137 Chr06 1895439 1901001 -
Enph Enph2g1683 Chr2 15565552 15571934 +
Glsi Glsi12g1525 Chr12 32263092 32265852 -
Lasa Lasa6g04574 Chr6 652614836 652617393 -
Lele Lele06g1669 Chr06 11219356 11224120 +
Lele Lele07g1868 Chr07 11950928 11955546 +
Lele Lele08g1664 Chr08 11164106 11168825 +
Lja Lja2g1477 Chr2 14270097 14276527 +
Lja Lja5g0318 Chr5 2814345 2818756 +
Mal Mal1g0416 Chr1 4795333 4798358 +
Mepo Mepo4g04674 Chr4 56224299 56228444 -
Mesa Mesa1g05107 Chr1 78019615 78022025 -
Mibi Mibi02g2128 Chr02 23553293 23556795 +
Mtr Mtr1g4158 Chr1 53163040 53167183 -
Phco Phco6g02894 Chr6 50089796 50096681 -
Prci Prci1g1843 Chr1 38876669 38882673 -
Pste Pste4g00852 Chr4 6632698 6637887 +
Pumo Pumo3g00559 Chr3 8527644 8532373 +
Pvu Pvu7g0333 Chr7 2567969 2570900 +
Rops Rops6g03235 Chr6 56212737 56218019 -
Ssu Ssu7g0376 Chr7 6712165 6738280 +
Sto Sto11g0659 Chr11 7652089 7655452 -
Tpr Tpr1g0345 Chr1 3026922 3032920 +
Trre Trre1g05939 Chr1 63810115 63813284 -
Vian Vian3g00302 Chr3 2871440 2874016 +
Vifa Vifa3g03489 Chr3 1005476097 1005478625 -
Vimu Vimu3g03507 Chr3 47952031 47961710 -
Viun Viun7g03771 Chr7 38081520 38087271 -
Vivi Vivi1g03671 Chr1 78683148 78688285 +
Vra Vra8g2516 Chr8 43100065 43108080 -
Vvi Vvi1g0402 Chr1 3798738 3803409 +
Aed Aed1g1896 Chr1 16237694 16242036 +
Cca Cca02g02615 Chr02 47312659 47317647 -
Vra Vra8g2515 Chr8 43090706 43095215 -
Vvi Vvi1g0403 Chr1 3805754 3806155 +
Vvi Vvi1g0404 Chr1 3806860 3815280 -
Sto Sto11g0658 Chr11 7642053 7648619 +
Vvi Vvi1g0405 Chr1 3820982 3821389 +
Vvi Vvi1g0406 Chr1 3826036 3832496 +
Acco Acco11g0304 Chr11 4282638 4283695 +
Accr Accr9g01897 Chr9 40992417 40998549 -
Adu Adu09g02698 Chr09 114517157 114520062 -
Aev Aev09g2570 Chr09 27094045 27094765 -
Ahy Ahy19g3229 Chr19 155419008 155422985 +
Aip Aip09g03693 Chr09 143810792 143813774 +
Amo Amo19g4118 Chr19 157645038 157652967 +
Arst Arst9g03613 Chr9 112413731 112416482 -
Bach Bach10g01260 Chr10 9898090 9907051 +
Bisa Bisa11g0631 Chr11 17562584 17569141 -
Bva Bva01g01663 Chr01 17806357 17813741 -
Bva Bva11g00716 Chr11 10158470 10162003 -
Car Car04g01521 Chr04 15475791 15481664 -
Cca Cca02g02614 Chr02 47286160 47289683 -
Dere Dere09g2093 Chr09 29501626 29512749 +
Glsi Glsi05g0349 Chr05 51841105 51846982 -
Lasa Lasa6g04572 Chr6 652584220 652588375 -
Lele Lele50g1565 Chr50 20836603 20837129 -
Lele Lele52g1519 Chr52 19197895 19202104 -
Lja Lja2g1478 Chr2 14277132 14283234 +
Lja Lja5g0321 Chr5 2834747 2839173 +
Mal Mal1g0418 Chr1 4809801 4815350 +
Mesa Mesa1g05104 Chr1 77987251 77992373 -
Mibi Mibi12g0297 Chr12 6381515 6382020 +
Mtr Mtr1g4156 Chr1 53150208 53155076 -
Phac Phac7g00493 Chr7 2778576 2784569 +
Phco Phco6g02892 Chr6 50061227 50066854 -
Prci Prci10g2666 Chr10 35116298 35121264 -
Pumo Pumo3g00560 Chr3 8534190 8567484 +
Pvu Pvu7g0335 Chr7 2585738 2591133 +
Rops Rops6g03233 Chr6 56180722 56191589 -
Seca Seca8g07831 Chr8 175737821 175743828 -
Spst Spst10g01390 Chr10 14379390 14389834 -
Ssu Ssu7g0380 Chr7 6759720 6765474 +
Sto Sto6g2716 Chr6 34322452 34327942 -
Tpr Tpr1g0348 Chr1 3045748 3050672 +
Trre Trre1g05937 Chr1 63795607 63799070 -
Tsu Tsu01g04836 Chr01 55389891 55394714 -
Vian Vian3g00304 Chr3 2906261 2911635 +
Vifa Vifa3g03486 Chr3 1004506244 1004508623 -
Vimu Vimu3g03504 Chr3 47907311 47912680 -
Viun Viun7g03768 Chr7 38063765 38067024 -
Vivi Vivi1g03674 Chr1 78704714 78709293 +
Vra Vra8g2514 Chr8 43085718 43088774 -
Vvi Vvi1g0407 Chr1 3833982 3836659 -
Vvi Vvi1g0408 Chr1 3838391 3843025 +
Adu Adu09g02697 Chr09 114505042 114507006 -
Aed Aed1g1899 Chr1 16262861 16265350 +
Aev Aev09g2569 Chr09 27086547 27092284 -
Ahy Ahy19g3230 Chr19 155437337 155439738 +
Aip Aip09g03694 Chr09 143828742 143831082 +
Amo Amo19g4565 Chr19 163163709 163166162 -
Arst Arst9g03611 Chr9 112401360 112403508 -
Bva Bva01g01661 Chr01 17794468 17798077 -
Car Car04g02908 Chr04 56150393 56155506 -
Cca Cca02g02610 Chr02 47263857 47266984 -
Dod Dod06g0132 Chr06 1808285 1812318 -
Lal Lal6g1021 Chr6 7330103 7340850 +
Lal Lal22g0913 Chr22 7222703 7226886 +
Lapu Lapu7g02376 Chr7 39988583 39992268 -
Lasa Lasa6g04571 Chr6 652557999 652559969 -
Lja Lja5g0322 Chr5 2840401 2842657 +
Mal Mal1g0419 Chr1 4817597 4819529 +
Mepo Mepo4g04672 Chr4 56203368 56206307 -
Mesa Mesa1g05103 Chr1 77975556 77977214 -
Mtr Mtr1g4155 Chr1 53144059 53146882 -
Phco Phco6g02890 Chr6 50048099 50051181 -
Pste Pste4g00855 Chr4 6665343 6668831 +
Pumo Pumo3g00561 Chr3 8580644 8583446 +
Pvu Pvu7g0336 Chr7 2600398 2603058 +
Rops Rops6g03230 Chr6 56156236 56158457 -
Seca Seca8g07830 Chr8 175714829 175718014 -
Spst Spst10g01388 Chr10 14361170 14363543 -
Ssu Ssu7g0383 Chr7 6797283 6799106 +
Sto Sto11g0657 Chr11 7634588 7638015 -
Tpr Tpr1g0349 Chr1 3060114 3062746 +
Trre Trre1g05935 Chr1 63769874 63772058 -
Tsu Tsu01g04832 Chr01 55338074 55340840 -
Vian Vian3g00307 Chr3 2929289 2932268 +
Vifa Vifa3g03483 Chr3 1003786386 1003788092 -
Vimu Vimu3g03501 Chr3 47886363 47888665 -
Viun Viun7g03763 Chr7 38036484 38039496 -
Vivi Vivi1g03676 Chr1 78732265 78734985 +
Vra Vra8g2509 Chr8 43046070 43050179 -
Vvi Vvi1g0409 Chr1 3849985 3854088 +
Adu Adu09g02696 Chr09 114488681 114498289 -
Aed Aed1g1900 Chr1 16283217 16286425 +
Arst Arst9g03609 Chr9 112390472 112395135 -
Bva Bva01g01660 Chr01 17788803 17793123 -
Car Car04g01517 Chr04 15407508 15410522 -
Cca Cca02g02608 Chr02 47254484 47261373 -
Lapu Lapu7g02375 Chr7 39978270 39983865 -
Lasa Lasa6g04570 Chr6 652549613 652550797 -
Lja Lja5g0323 Chr5 2845030 2847873 +
Mal Mal1g0420 Chr1 4824467 4826725 +
Mepo Mepo4g04671 Chr4 56198426 56202453 -
Mesa Mesa1g05102 Chr1 77969761 77972012 -
Mtr Mtr1g4154 Chr1 53137659 53141341 -
Psa Psa6g5119 Chr6 441355586 441358728 +
Pste Pste4g00858 Chr4 6685261 6698826 +
Pvu Pvu7g0337 Chr7 2610316 2616266 +
Rops Rops6g03229 Chr6 56141999 56152896 -
Seca Seca8g07829 Chr8 175707918 175713337 -
Spst Spst10g01387 Chr10 14351316 14357315 -
Ssu Ssu7g0384 Chr7 6806917 6811749 +
Sto Sto11g0654 Chr11 7621732 7628179 -
Tpr Tpr1g0350 Chr1 3063746 3067158 +
Trre Trre1g05934 Chr1 63766181 63767664 -
Tsu Tsu01g04831 Chr01 55334171 55337111 -
Vian Vian3g00308 Chr3 2939742 2945500 +
Vifa Vifa3g03482 Chr3 1003781021 1003782140 -
Vimu Vimu3g03500 Chr3 47876325 47881877 -
Viun Viun7g03758 Chr7 38025322 38031964 -
Vivi Vivi1g03678 Chr1 78735137 78739359 +
Vra Vra8g2508 Chr8 43034388 43041249 -
Vvi Vvi1g0410 Chr1 3854482 3857388 +
Acco Acco02g2305 Chr02 20102295 20105919 +
Accr Accr2g01473 Chr2 45876194 45879430 -
Alju Alju01g2319 Chr01 20714371 20718703 +
Arst Arst9g03617 Chr9 112438283 112442572 -
Bach Bach10g01259 Chr10 9883766 9887173 +
Bisa Bisa03g0164 Chr03 2000791 2007188 -
Dere Dere01g1382 Chr01 26934560 26940545 -
Enph Enph2g1683 Chr2 15565552 15571934 +
Glsi Glsi12g1525 Chr12 32263092 32265852 -
Lasa Lasa6g04574 Chr6 652614836 652617393 -
Lele Lele06g1669 Chr06 11219356 11224120 +
Lele Lele07g1868 Chr07 11950928 11955546 +
Lele Lele08g1664 Chr08 11164106 11168825 +
Mepo Mepo4g04674 Chr4 56224299 56228444 -
Mesa Mesa1g05107 Chr1 78019615 78022025 -
Mibi Mibi02g2128 Chr02 23553293 23556795 +
Phco Phco6g02894 Chr6 50089796 50096681 -
Prci Prci1g1843 Chr1 38876669 38882673 -
Pste Pste4g00852 Chr4 6632698 6637887 +
Pumo Pumo3g00559 Chr3 8527644 8532373 +
Pvu Pvu7g0333 Chr7 2567969 2570900 +
Rops Rops6g03235 Chr6 56212737 56218019 -
Trre Trre1g05939 Chr1 63810115 63813284 -
Vian Vian3g00302 Chr3 2871440 2874016 +
Vifa Vifa3g03489 Chr3 1005476097 1005478625 -
Vimu Vimu3g03507 Chr3 47952031 47961710 -
Viun Viun7g03771 Chr7 38081520 38087271 -
Vivi Vivi1g03671 Chr1 78683148 78688285 +
Car Car04g02908 Chr04 56150393 56155506 -