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
Vvi4g0094 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0095 . . . . . . Aed4g1649 . . . . Ahy17g3153 . Aip07g03424 . . . . . . . . . . . . . . . . Cca03g01727 . . . . Dod08g1890 . . . . Gma14g00880 . . . Gso14g0853 . . . . Lal4g0166 . . Lal8g0836 . . . . . . . . . . . . . . . . . . . . . Mal2g1054 . . . . . . . Mtr3g3778 . . . . . . . Psa5g0844 . . . . . . . . . . . . . . . . . Ssu1g3625 . . . Tpr7g0791 . . . Tsu07g00802 . . . . . . . . . . . Vra5g1386 .
Vvi4g0096 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma14g00879 . . . Gso14g0852 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4031 . Mal2g1055 . . . . . . . Mtr3g3777 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0792 . . . Tsu07g00803 . . . . . . . . . . . . .
Vvi4g0097 . . . . Adu08g00898 . . . . Aev08g0471 Ahy16g3318 Ahy17g3154 Aip06g03564 Aip07g03425 . . . . . . Arst8g01196 . Bach12g00377 . . . . . Car05g02842 . . . . . . Dod08g1891 . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g02028 . Lasa5g03871 . . . . . . . . . . . Mal2g1055 . Mepo3g07280 . Mesa9g04823 . . . Mtr3g3777 . Phac9g03315 . . . . . Psa5g0843 . Pste2g01318 . . . . . Pumo10g00251 . Pvu9g0805 . Rops10g01239 . Seca4g01236 . Spst9g00609 . . . Sto5g1021 . Tpr7g0792 . Trre5g05014 . Tsu07g00803 . Vian4g02126 . Vifa2g03777 . Vimu10g03142 . Viun9g03289 . Vivi3g01684 . . .
Vvi4g0098 . . . . . . . . . Aev08g0470 . Ahy17g3155 . Aip07g03426 . . . . . . . . . . . . . . . . . . . . . Dod08g1892 . . . . Gma14g00877 . . . Gso14g0851 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g1056 . . . . . . . Mtr3g3776 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3432 Tpr7g0793 . . . Tsu07g00805 . . . . . . . . . . . . .
Vvi4g0099 . . . . . . . . . . . Ahy17g3156 . Aip07g03427 . . . . . . . . . . . . Bva10g00555 . . . . . . . . Dod08g1893 . . . . Gma14g00876 . . . Gso14g0850 . . . . . . Lal25g0631 Lal8g0837 . . . . . . . . . . . . . . . . . . . . . Mal2g1057 . . . . . . . Mtr3g3775 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0795 . . . . . . . . . . . . . . . . .
Vvi4g0100 . . . . Adu08g00896 . Aed4g1650 . . Aev08g0468 . Ahy17g3157 . Aip07g03428 . . . . . . Arst8g01194 . . . . . Bva10g00551 . Car05g02844 . Cca03g01726 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g02026 . Lasa5g03874 . . . . . . . . . Lja1g4029 . Mal2g1058 . Mepo3g07282 . Mesa9g04825 . . . Mtr3g3774 . Phac9g00138 . . . . . Psa5g0842 . Pste2g01322 . Pte3g01232 . . . Pumo10g00249 . Pvu9g0807 . Rops10g01241 . Seca4g01233 . Spst9g00611 . Ssu1g3624 . Sto5g1019 . Tpr7g0796 . Trre5g05016 . Tsu07g00807 . Vian4g02124 . Vifa2g03780 . Vimu10g03140 . Viun9g03287 . Vivi3g01681 . Vra5g1385 .
Vvi4g0101 . . . . . Adu06g03001 . . Aev07g1013 . Ahy16g3309 . Aip06g03552 . . . . . . . . . . . . . . . . . . . . . Dod08g1897 . . . . . Gma14g00875 Gma17g02181 . . Gso14g0849 Gso14g0849 . . . . . Lal25g0629 . . . . . . . . . . . Lasa6g00440 . . . . . . . . . . . . . . . Mesa1g00486 . . . Mtr1g0367 . Phac1g00476 . Phco2g00429 . . . . . Pste8g00511 . . . . . Pumo9g00438 . Pvu1g0372 . Rops9g02050 . Seca8g03403 . Spst8g02360 . . . . . . . Trre1g00523 . Tsu01g00542 . Vian7g00581 . Vifa3g04716 . Vimu1g02814 . Viun8g00527 . Vivi4g05365 . .
Vvi4g0102 . . . . . Adu06g03000 . . Aev07g1015 . Ahy16g3307 . Aip06g03550 . . . Amo16g4026 . . . . Arst6g03897 . . . . . . . . . . . . Dod08g1896 . . . . . . Gma17g02180 . . . . . . . . . . Lal8g0838 . . . . . . . . Lapu8g00750 . Lasa6g00442 . . . . . . . . . . . . . Mepo4g00446 . Mesa1g00487 . . . Mtr1g0366 . . . Phco2g00430 . . . . . Pste8g00356 . . . . . Pumo9g00440 . Pvu1g0373 . . . Seca4g01243 . Spst8g02361 . . . . . . . Trre1g00524 . . . Vian7g00580 . . . Vimu1g02813 . Viun8g00528 . Vivi4g05364 . .
Vvi4g0103 . . . . . . . . . . . Ahy17g3159 . Aip07g03430 . . . . . . . . . . . . . . . . . . . . . Dod08g1898 . . . . . . . . . . . . . . . Lal25g0628 Lal8g0839 . . . . . . . . . . . . . . . . . . . . Lja5g2990 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0094 Chr4 906052 908400 +
Vvi Vvi4g0095 Chr4 912060 914578 +
Aed Aed4g1649 Chr4 21107997 21109738 -
Ahy Ahy17g3153 Chr17 133287903 133290086 +
Aip Aip07g03424 Chr07 124030630 124032530 +
Cca Cca03g01727 Chr03 36380932 36382974 +
Dod Dod08g1890 Chr08 44994777 44998004 +
Gma Gma14g00880 Chr14 9553099 9555653 -
Gso Gso14g0853 Chr14 9497857 9501043 -
Lal Lal4g0166 Chr4 1043279 1046007 -
Lal Lal8g0836 Chr8 6060496 6063456 +
Mal Mal2g1054 Chr2 12290708 12292891 +
Mtr Mtr3g3778 Chr3 51637998 51640882 -
Psa Psa5g0844 Chr5 66566953 66569301 -
Ssu Ssu1g3625 Chr1 91761880 91763930 +
Tpr Tpr7g0791 Chr7 6976941 6980801 +
Tsu Tsu07g00802 Chr07 6580642 6583315 +
Vra Vra5g1386 Chr5 20614561 20616989 +
Vvi Vvi4g0096 Chr4 914986 915564 -
Gma Gma14g00879 Chr14 9549994 9552648 +
Gso Gso14g0852 Chr14 9486321 9497758 +
Lja Lja1g4031 Chr1 51069177 51074172 -
Mal Mal2g1055 Chr2 12293369 12298884 -
Mtr Mtr3g3777 Chr3 51628516 51637951 +
Tpr Tpr7g0792 Chr7 6980872 6986492 -
Tsu Tsu07g00803 Chr07 6583375 6589850 -
Vvi Vvi4g0097 Chr4 916173 919492 -
Adu Adu08g00898 Chr08 16468023 16470775 -
Aev Aev08g0471 Chr08 2653322 2657613 +
Ahy Ahy16g3318 Chr16 150133106 150134819 +
Ahy Ahy17g3154 Chr17 133290144 133293616 -
Aip Aip06g03564 Chr06 133102420 133102772 +
Aip Aip07g03425 Chr07 124033050 124036277 -
Arst Arst8g01196 Chr8 16436052 16439040 -
Bach Bach12g00377 Chr12 2521603 2524317 +
Car Car05g02842 Chr05 73466815 73471771 +
Dod Dod08g1891 Chr08 44998241 45005418 -
Lapu Lapu9g02028 Chr9 35064361 35070856 -
Lasa Lasa5g03871 Chr5 606058442 606063136 +
Mal Mal2g1055 Chr2 12293369 12298884 -
Mepo Mepo3g07280 Chr3 86389999 86397063 +
Mesa Mesa9g04823 Chr9 82452863 82465193 +
Mtr Mtr3g3777 Chr3 51628516 51637951 +
Phac Phac9g03315 Chr9 32629410 32633349 +
Psa Psa5g0843 Chr5 66565099 66566558 +
Pste Pste2g01318 Chr2 14524669 14536830 +
Pumo Pumo10g00251 Chr10 3385300 3395032 -
Pvu Pvu9g0805 Chr9 12764108 12770520 +
Rops Rops10g01239 Chr10 24967148 24974090 +
Seca Seca4g01236 Chr4 19545688 19555833 -
Spst Spst9g00609 Chr9 5366660 5373008 +
Sto Sto5g1021 Chr5 6855993 6858848 -
Tpr Tpr7g0792 Chr7 6980872 6986492 -
Trre Trre5g05014 Chr5 51706081 51712654 +
Tsu Tsu07g00803 Chr07 6583375 6589850 -
Vian Vian4g02126 Chr4 38092744 38099141 -
Vifa Vifa2g03777 Chr2 1107202031 1107208109 +
Vimu Vimu10g03142 Chr10 42075917 42082681 -
Viun Viun9g03289 Chr9 39721381 39728041 -
Vivi Vivi3g01684 Chr3 27345263 27349778 -
Vvi Vvi4g0098 Chr4 921626 923810 -
Aev Aev08g0470 Chr08 2649351 2650601 +
Ahy Ahy17g3155 Chr17 133307647 133309742 -
Aip Aip07g03426 Chr07 124049827 124051418 -
Dod Dod08g1892 Chr08 45007165 45010681 -
Gma Gma14g00877 Chr14 9531460 9534352 +
Gso Gso14g0851 Chr14 9476199 9479906 +
Mal Mal2g1056 Chr2 12303270 12304761 -
Mtr Mtr3g3776 Chr3 51623570 51626411 +
Sto Sto9g3432 Chr9 33851288 33852990 -
Tpr Tpr7g0793 Chr7 6989211 6992526 -
Tsu Tsu07g00805 Chr07 6593541 6595903 -
Vvi Vvi4g0099 Chr4 932107 932520 +
Ahy Ahy17g3156 Chr17 133351016 133352351 +
Aip Aip07g03427 Chr07 124089531 124090629 +
Bva Bva10g00555 Chr10 5100838 5102207 +
Dod Dod08g1893 Chr08 45036273 45037823 +
Gma Gma14g00876 Chr14 9492054 9492479 -
Gso Gso14g0850 Chr14 9437313 9438299 -
Lal Lal25g0631 Chr25 4860359 4860823 -
Lal Lal8g0837 Chr8 6078206 6078601 +
Mal Mal2g1057 Chr2 12316959 12317312 +
Mtr Mtr3g3775 Chr3 51606859 51607523 -
Tpr Tpr7g0795 Chr7 7011951 7012898 +
Vvi Vvi4g0100 Chr4 935962 939104 -
Adu Adu08g00896 Chr08 16456807 16459865 +
Aed Aed4g1650 Chr4 21112218 21116946 -
Aev Aev08g0468 Chr08 2636048 2637949 +
Ahy Ahy17g3157 Chr17 133367729 133372088 -
Aip Aip07g03428 Chr07 124108728 124109348 -
Arst Arst8g01194 Chr8 16424991 16427986 +
Bva Bva10g00551 Chr10 5080644 5084688 +
Car Car05g02844 Chr05 73477261 73481444 -
Cca Cca03g01726 Chr03 36371527 36376417 +
Lapu Lapu9g02026 Chr9 35053393 35058185 +
Lasa Lasa5g03874 Chr5 606068219 606074675 -
Lja Lja1g4029 Chr1 51052874 51058342 +
Mal Mal2g1058 Chr2 12324382 12329508 -
Mepo Mepo3g07282 Chr3 86405666 86409997 -
Mesa Mesa9g04825 Chr9 82489346 82493500 -
Mtr Mtr3g3774 Chr3 51597534 51602039 +
Phac Phac9g00138 Chr9 997980 1003578 -
Psa Psa5g0842 Chr5 66539492 66551676 +
Pste Pste2g01322 Chr2 14563009 14568112 -
Pte Pte3g01232 Chr3 10506992 10510807 -
Pumo Pumo10g00249 Chr10 3372976 3378363 +
Pvu Pvu9g0807 Chr9 12778701 12786406 -
Rops Rops10g01241 Chr10 24983879 24988132 -
Seca Seca4g01233 Chr4 19529382 19532158 +
Spst Spst9g00611 Chr9 5378219 5381760 -
Ssu Ssu1g3624 Chr1 91752757 91756856 +
Sto Sto5g1019 Chr5 6847717 6851181 +
Tpr Tpr7g0796 Chr7 7023579 7028174 -
Trre Trre5g05016 Chr5 51720761 51724058 -
Tsu Tsu07g00807 Chr07 6608331 6612949 -
Vian Vian4g02124 Chr4 38078417 38081750 +
Vifa Vifa2g03780 Chr2 1107220082 1107225968 -
Vimu Vimu10g03140 Chr10 42063312 42066660 +
Viun Viun9g03287 Chr9 39712345 39715864 +
Vivi Vivi3g01681 Chr3 27323052 27328918 +
Vra Vra5g1385 Chr5 20603564 20607738 +
Vvi Vvi4g0101 Chr4 941254 943264 -
Adu Adu06g03001 Chr06 108033706 108046287 -
Aev Aev07g1013 Chr07 7522264 7526056 +
Ahy Ahy16g3309 Chr16 150008477 150012830 -
Aip Aip06g03552 Chr06 132988482 132993548 -
Dod Dod08g1897 Chr08 45067688 45070738 -
Gma Gma14g00875 Chr14 9470904 9474328 +
Gma Gma17g02181 Chr17 39476169 39479865 -
Gso Gso14g0849 Chr14 9415706 9419644 +
Gso Gso14g0849 Chr14 9415706 9419644 +
Lal Lal25g0629 Chr25 4842437 4846257 +
Lasa Lasa6g00440 Chr6 13753040 13753240 +
Mesa Mesa1g00486 Chr1 6103859 6106382 +
Mtr Mtr1g0367 Chr1 4206288 4209095 -
Phac Phac1g00476 Chr1 3378644 3381581 -
Phco Phco2g00429 Chr2 3721858 3724570 +
Pste Pste8g00511 Chr8 2652202 2655238 -
Pumo Pumo9g00438 Chr9 6887419 6890239 +
Pvu Pvu1g0372 Chr1 3524214 3527348 +
Rops Rops9g02050 Chr9 37739992 37746842 -
Seca Seca8g03403 Chr8 97807253 97810716 -
Spst Spst8g02360 Chr8 34791907 34794091 -
Trre Trre1g00523 Chr1 3895419 3898645 +
Tsu Tsu01g00542 Chr01 4751055 4754606 +
Vian Vian7g00581 Chr7 13616300 13618724 -
Vifa Vifa3g04716 Chr3 1356788321 1356790776 -
Vimu Vimu1g02814 Chr1 40443954 40446398 -
Viun Viun8g00527 Chr8 3789943 3793038 +
Vivi Vivi4g05365 Chr4 187127186 187130056 -
Vvi Vvi4g0102 Chr4 945709 948269 -
Adu Adu06g03000 Chr06 108029109 108032700 -
Aev Aev07g1015 Chr07 7541383 7548697 +
Ahy Ahy16g3307 Chr16 149992913 149997172 -
Aip Aip06g03550 Chr06 132973289 132977640 -
Amo Amo16g4026 Chr16 152433674 152437132 -
Arst Arst6g03897 Chr6 107242373 107245205 -
Dod Dod08g1896 Chr08 45060223 45064148 -
Gma Gma17g02180 Chr17 39467907 39470887 +
Lal Lal8g0838 Chr8 6086800 6091969 -
Lapu Lapu8g00750 Chr8 25545435 25548062 -
Lasa Lasa6g00442 Chr6 13762126 13765321 +
Mepo Mepo4g00446 Chr4 6362179 6364900 +
Mesa Mesa1g00487 Chr1 6112845 6115375 +
Mtr Mtr1g0366 Chr1 4201205 4204492 -
Phco Phco2g00430 Chr2 3726420 3728402 -
Pste Pste8g00356 Chr8 1899829 1903180 +
Pumo Pumo9g00440 Chr9 6898193 6901125 -
Pvu Pvu1g0373 Chr1 3529465 3532477 -
Seca Seca4g01243 Chr4 19650069 19653152 -
Spst Spst8g02361 Chr8 34796890 34799681 +
Trre Trre1g00524 Chr1 3895419 3898645 +
Vian Vian7g00580 Chr7 13611921 13614402 +
Vimu Vimu1g02813 Chr1 40439090 40441126 +
Viun Viun8g00528 Chr8 3799654 3802410 -
Vivi Vivi4g05364 Chr4 187127186 187130056 -
Vvi Vvi4g0103 Chr4 954501 956670 +
Ahy Ahy17g3159 Chr17 133383208 133385747 +
Aip Aip07g03430 Chr07 124121750 124124230 +
Dod Dod08g1898 Chr08 45076874 45081560 +
Lal Lal25g0628 Chr25 4822830 4827381 -
Lal Lal8g0839 Chr8 6098169 6102404 +
Lja Lja5g2990 Chr5 58656729 58660321 +
Dod Dod08g1892 Chr08 45007165 45010681 -