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
Vvi1g0381 . . . . . . . Aed1g1879 . . . Ahy19g3203 . Aip09g03673 . . . . . . . . . . . . Bva01g01690 Bva11g00728 Car04g01539 . Cca06g00318 Cca02g02634 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1464 . Mal1g0389 . . . . . . . Mtr1g4175 . . . . . . . Psa6g5153 . . . . . . . . . . . . . . . . . . Ssu7g0356 Sto11g0674 Sto6g2739 Tpr1g0329 . . . Tsu01g04855 . . . . . . . . . . . . Vra8g2532
Vvi1g0382 . . . . . . . . . Aev09g2588 . Ahy19g3204 . Aip09g03676 . . . . . . . . . . . . Bva01g01684 Bva11g00727 . . Cca06g00308 Cca02g02632 . . . Dod06g0150 . . . . . . . . . . . . Lal6g1011 . . . . . Lan11g0979 . . . . . . . . . . . . . . . . . Lja2g1465 Lja5g0298 Mal1g0390 . . . . . . . Mtr1g4174 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1245 . Sto11g0672 Sto6g2737 Tpr1g0330 . . . Tsu01g04854 . . . . . . . . . . . . Vra8g2530
Vvi1g0383 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0384 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0385 Acco02g2292 . Accr2g01485 . Adu09g02710 . . Aed1g1883 . Aev09g2586 . Ahy19g3210 . Aip09g03681 Alju01g2305 . . . . . Arst9g03627 . Bach10g01248 . Bisa03g0175 . Bva01g01681 Bva11g00724 Car04g01537 . . Cca02g02630 Dere01g1394 . . Dod06g0149 Enph2g1676 . Glsi12g1535 . . . . . . . . . Lal6g1014 Lal22g0902 . . . . Lan11g0981 Lan11g0981 . . . . Lapu7g02388 . Lasa6g04595 . Lele05g1793 Lele06g1661 Lele07g1859 Lele08g1656 . . . . Lja2g1467 Lja5g0299 Mal1g0391 . Mepo4g04688 . . . Mibi02g2118 . Mtr1g4173 . Phac7g00462 . Phco6g02909 . Prci1g1857 . Psa6g5149 . Pste4g00825 . . . . . Pumo3g00546 . Pvu7g0320 . Rops6g03252 . Seca8g07851 . Spst10g01405 . . Ssu7g0362 Sto11g0669 . Tpr1g0331 . Trre1g05960 . Tsu01g04852 . Vian3g00290 . Vifa3g03517 . Vimu3g03520 . Viun7g03788 . Vivi1g03647 . . Vra8g2527
Vvi1g0386 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01680 . Car04g01536 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g0300 Mal1g0392 . . . . . . . Mtr1g4172 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g0333 . . . Tsu01g04851 . . . . . . . . . . . . .
Vvi1g0387 . . . . Adu09g02709 . . Aed1g1884 . Aev09g2584 . Ahy19g3213 . Aip09g03683 . . . Amo19g4573 . . Arst9g03626 . Bach10g01249 . . . Bva01g01679 Bva11g00723 Car04g01535 . . Cca02g02629 . . . Dod06g0147 . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g02387 . Lasa6g04593 . . . . . . . . . . Lja5g0301 Mal1g0396 . Mepo4g04685 . . . . . Mtr1g4171 . . . Phco6g02908 . . . . . Pste4g00830 . . . . . Pumo3g00547 . Pvu7g0321 . Rops6g03249 . Seca8g07848 . Spst10g01403 . . Ssu7g0363 Sto11g0667 . . . Trre1g05958 . Tsu01g04850 . Vian3g00291 . . . Vimu3g03519 . Viun7g03787 . Vivi1g03649 . . Vra8g2526
Vvi1g0388 . . . . Adu09g02708 . . Aed1g1885 . Aev09g2582 . Ahy19g3214 . Aip09g03684 . . . . . . Arst9g03625 . . . . . Bva01g01677 . Car04g01533 . . Cca02g02627 . . . Dod06g0145 . . . . . . . . . . . . Lal6g1016 . . . . . Lan11g0983 . . . . . Lapu7g02385 . Lasa6g04591 . . . . . . . . . Lja2g1469 Lja5g0304 Mal1g0399 . Mepo4g04684 . . . . . Mtr1g4169 . . . Phco6g02906 . . . . . Pste4g00831 . . . . . Pumo3g00549 . Pvu7g0323 . Rops6g03248 . Seca8g07846 . Spst10g01401 . . Ssu7g0365 . . Tpr1g0335 . Trre1g05956 . Tsu01g04849 . Vian3g00293 . . . Vimu3g03518 . Viun7g03785 . Vivi1g03650 . . Vra8g2524
Vvi1g0389 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0390 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0381 Chr1 3606617 3609494 -
Aed Aed1g1879 Chr1 16122066 16124551 -
Ahy Ahy19g3203 Chr19 155172996 155175624 -
Aip Aip09g03673 Chr09 143598093 143602047 -
Bva Bva01g01690 Chr01 17961277 17965049 +
Bva Bva11g00728 Chr11 10241637 10244448 +
Car Car04g01539 Chr04 15715683 15719288 +
Cca Cca06g00318 Chr06 8629357 8633025 -
Cca Cca02g02634 Chr02 47508109 47510697 +
Lja Lja2g1464 Chr2 14146803 14153921 -
Mal Mal1g0389 Chr1 4417153 4419466 -
Mtr Mtr1g4175 Chr1 53363411 53366473 +
Psa Psa6g5153 Chr6 444215969 444259053 -
Ssu Ssu7g0356 Chr7 6376736 6376972 -
Sto Sto11g0674 Chr11 7771915 7774636 +
Sto Sto6g2739 Chr6 34527591 34535768 +
Tpr Tpr1g0329 Chr1 2827857 2830676 -
Tsu Tsu01g04855 Chr01 55582246 55584944 +
Vra Vra8g2532 Chr8 43253898 43257627 +
Vvi Vvi1g0382 Chr1 3628954 3637959 -
Aev Aev09g2588 Chr09 27189363 27191701 +
Ahy Ahy19g3204 Chr19 155178438 155180878 -
Aip Aip09g03676 Chr09 143608699 143624632 -
Bva Bva01g01684 Chr01 17919430 17922707 +
Bva Bva11g00727 Chr11 10235784 10238574 +
Cca Cca06g00308 Chr06 8358621 8370008 +
Cca Cca02g02632 Chr02 47482470 47485012 +
Dod Dod06g0150 Chr06 2069866 2070754 +
Lal Lal6g1011 Chr6 7232646 7243254 -
Lan Lan11g0979 Chr11 10573727 10586872 -
Lja Lja2g1465 Chr2 14157536 14162557 -
Lja Lja5g0298 Chr5 2601188 2609332 -
Mal Mal1g0390 Chr1 4426230 4440052 -
Mtr Mtr1g4174 Chr1 53345045 53358421 +
Ssu Ssu2g1245 Chr2 54205543 54212902 +
Sto Sto11g0672 Chr11 7765807 7769572 +
Sto Sto6g2737 Chr6 34511181 34519735 +
Tpr Tpr1g0330 Chr1 2831210 2841422 -
Tsu Tsu01g04854 Chr01 55574325 55576782 +
Vra Vra8g2530 Chr8 43236332 43244918 +
Vvi Vvi1g0383 Chr1 3648786 3649577 -
Vvi Vvi1g0384 Chr1 3652537 3653544 -
Vvi Vvi1g0385 Chr1 3659035 3664804 +
Acco Acco02g2292 Chr02 19939553 19942907 +
Accr Accr2g01485 Chr2 45991422 45994841 -
Adu Adu09g02710 Chr09 114641394 114654280 -
Aed Aed1g1883 Chr1 16145381 16149183 +
Aev Aev09g2586 Chr09 27171105 27174177 -
Ahy Ahy19g3210 Chr19 155245952 155249926 +
Aip Aip09g03681 Chr09 143663469 143669914 +
Alju Alju01g2305 Chr01 20569706 20573039 +
Arst Arst9g03627 Chr9 112537177 112551104 -
Bach Bach10g01248 Chr10 9800857 9804382 +
Bisa Bisa03g0175 Chr03 2215310 2221588 -
Bva Bva01g01681 Chr01 17897532 17901342 -
Bva Bva11g00724 Chr11 10206585 10211255 -
Car Car04g01537 Chr04 15683771 15687558 -
Cca Cca02g02630 Chr02 47451691 47455751 -
Dere Dere01g1394 Chr01 27082440 27085814 -
Dod Dod06g0149 Chr06 2033044 2037270 -
Enph Enph2g1676 Chr2 15483626 15488648 +
Glsi Glsi12g1535 Chr12 32316865 32321256 -
Lal Lal6g1014 Chr6 7268500 7273071 +
Lal Lal22g0902 Chr22 7115968 7120572 +
Lan Lan11g0981 Chr11 10627401 10631531 +
Lan Lan11g0981 Chr11 10627401 10631531 +
Lapu Lapu7g02388 Chr7 40141583 40145539 -
Lasa Lasa6g04595 Chr6 653957376 653960474 -
Lele Lele05g1793 Chr05 11949728 11963121 +
Lele Lele06g1661 Chr06 11154377 11157782 +
Lele Lele07g1859 Chr07 11874576 11878020 +
Lele Lele08g1656 Chr08 11093519 11104665 +
Lja Lja2g1467 Chr2 14220773 14227726 +
Lja Lja5g0299 Chr5 2630114 2633963 +
Mal Mal1g0391 Chr1 4466370 4470088 +
Mepo Mepo4g04688 Chr4 56382018 56386556 -
Mibi Mibi02g2118 Chr02 23425972 23430200 +
Mtr Mtr1g4173 Chr1 53323589 53328104 -
Phac Phac7g00462 Chr7 2640905 2644660 +
Phco Phco6g02909 Chr6 50213683 50216401 -
Prci Prci1g1857 Chr1 39037903 39043097 -
Psa Psa6g5149 Chr6 444078891 444083562 +
Pste Pste4g00825 Chr4 6368523 6372364 +
Pumo Pumo3g00546 Chr3 8395359 8399131 +
Pvu Pvu7g0320 Chr7 2450950 2454549 +
Rops Rops6g03252 Chr6 56455190 56458889 -
Seca Seca8g07851 Chr8 175910003 175913478 -
Spst Spst10g01405 Chr10 14569051 14571944 -
Ssu Ssu7g0362 Chr7 6514616 6517688 +
Sto Sto11g0669 Chr11 7739957 7742843 -
Tpr Tpr1g0331 Chr1 2925262 2931175 +
Trre Trre1g05960 Chr1 63987203 63990900 -
Tsu Tsu01g04852 Chr01 55545275 55550177 -
Vian Vian3g00290 Chr3 2762369 2765150 +
Vifa Vifa3g03517 Chr3 1011159636 1011162475 -
Vimu Vimu3g03520 Chr3 48063150 48065899 -
Viun Viun7g03788 Chr7 38184359 38187852 -
Vivi Vivi1g03647 Chr1 78269608 78273599 +
Vra Vra8g2527 Chr8 43201355 43204838 -
Vvi Vvi1g0386 Chr1 3668907 3670737 -
Bva Bva01g01680 Chr01 17894579 17897285 +
Car Car04g01536 Chr04 15653978 15657375 +
Lja Lja5g0300 Chr5 2636640 2639355 -
Mal Mal1g0392 Chr1 4473258 4477173 -
Mtr Mtr1g4172 Chr1 53319224 53322021 +
Tpr Tpr1g0333 Chr1 2936917 2938794 -
Tsu Tsu01g04851 Chr01 55540475 55543182 +
Vvi Vvi1g0387 Chr1 3675583 3676634 +
Adu Adu09g02709 Chr09 114635784 114637167 -
Aed Aed1g1884 Chr1 16153982 16155114 +
Aev Aev09g2584 Chr09 27161533 27162829 -
Ahy Ahy19g3213 Chr19 155273285 155274697 +
Aip Aip09g03683 Chr09 143693706 143695707 +
Amo Amo19g4573 Chr19 163300425 163301887 -
Arst Arst9g03626 Chr9 112531939 112533428 -
Bach Bach10g01249 Chr10 9808593 9809536 +
Bva Bva01g01679 Chr01 17892018 17893138 -
Bva Bva11g00723 Chr11 10202790 10204274 -
Car Car04g01535 Chr04 15643539 15645614 -
Cca Cca02g02629 Chr02 47438981 47440868 -
Dod Dod06g0147 Chr06 2021741 2023825 -
Lapu Lapu7g02387 Chr7 40133060 40134954 -
Lasa Lasa6g04593 Chr6 653943783 653945227 -
Lja Lja5g0301 Chr5 2641638 2643473 +
Mal Mal1g0396 Chr1 4529445 4533108 +
Mepo Mepo4g04685 Chr4 56356050 56358603 -
Mtr Mtr1g4171 Chr1 53303046 53305171 -
Phco Phco6g02908 Chr6 50201784 50202721 -
Pste Pste4g00830 Chr4 6402461 6403879 +
Pumo Pumo3g00547 Chr3 8408314 8409909 +
Pvu Pvu7g0321 Chr7 2464392 2465801 +
Rops Rops6g03249 Chr6 56416343 56417581 -
Seca Seca8g07848 Chr8 175895706 175897547 -
Spst Spst10g01403 Chr10 14526894 14527832 -
Ssu Ssu7g0363 Chr7 6541178 6542075 +
Sto Sto11g0667 Chr11 7722879 7724311 -
Trre Trre1g05958 Chr1 63970986 63972190 -
Tsu Tsu01g04850 Chr01 55536242 55538497 -
Vian Vian3g00291 Chr3 2777158 2778082 +
Vimu Vimu3g03519 Chr3 48053327 48054283 -
Viun Viun7g03787 Chr7 38174482 38175827 -
Vivi Vivi1g03649 Chr1 78304170 78306115 +
Vra Vra8g2526 Chr8 43192074 43193416 -
Vvi Vvi1g0388 Chr1 3678832 3683238 +
Adu Adu09g02708 Chr09 114625944 114627703 -
Aed Aed1g1885 Chr1 16162339 16163610 +
Aev Aev09g2582 Chr09 27157963 27159034 -
Ahy Ahy19g3214 Chr19 155280890 155282810 +
Aip Aip09g03684 Chr09 143700996 143702776 +
Arst Arst9g03625 Chr9 112522406 112524083 -
Bva Bva01g01677 Chr01 17886268 17888007 -
Car Car04g01533 Chr04 15626547 15627868 -
Cca Cca02g02627 Chr02 47430835 47432622 -
Dod Dod06g0145 Chr06 2013660 2015280 -
Lal Lal6g1016 Chr6 7283508 7286464 +
Lan Lan11g0983 Chr11 10681917 10684363 +
Lapu Lapu7g02385 Chr7 40125596 40127311 -
Lasa Lasa6g04591 Chr6 653882709 653883821 -
Lja Lja2g1469 Chr2 14232809 14234499 +
Lja Lja5g0304 Chr5 2654760 2656573 +
Mal Mal1g0399 Chr1 4571945 4573444 +
Mepo Mepo4g04684 Chr4 56345672 56348491 -
Mtr Mtr1g4169 Chr1 53281799 53283934 -
Phco Phco6g02906 Chr6 50193247 50194924 -
Pste Pste4g00831 Chr4 6423538 6425072 +
Pumo Pumo3g00549 Chr3 8424568 8426456 +
Pvu Pvu7g0323 Chr7 2471766 2473410 +
Rops Rops6g03248 Chr6 56407669 56409637 -
Seca Seca8g07846 Chr8 175889399 175891395 -
Spst Spst10g01401 Chr10 14520234 14521701 -
Ssu Ssu7g0365 Chr7 6548227 6549885 +
Tpr Tpr1g0335 Chr1 2948721 2950184 +
Trre Trre1g05956 Chr1 63961649 63964170 -
Tsu Tsu01g04849 Chr01 55529586 55531518 -
Vian Vian3g00293 Chr3 2784407 2786077 +
Vimu Vimu3g03518 Chr3 48044787 48046426 -
Viun Viun7g03785 Chr7 38162688 38164331 -
Vivi Vivi1g03650 Chr1 78326841 78328327 +
Vra Vra8g2524 Chr8 43181331 43182992 -
Vvi Vvi1g0389 Chr1 3687234 3691202 -
Vvi Vvi1g0390 Chr1 3697644 3697868 +