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
Vvi18g0036 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01812 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0016 . . . . . . . . . . . . . . . . . . .
Vvi18g0037 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01813 Bva10g01034 Car04g02759 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g4806 . . . . . . . Mtr1g1103 . . . . . . . Psa6g3013 . . . . . . . . . . . . . . . . . . . Sto5g0017 Sto9g3753 Tpr1g2880 . . . Tsu01g01242 . . . . . . . . . . . . .
Vvi18g0038 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0039 . . . . . . . . . . . Ahy16g0005 . Aip06g00005 . . . . Apr9g0699 . . . . . . . Bva06g01814 Bva10g01033 . . Cca05g00437 . . . . Dod08g2336 . . . . . . Gma14g02187 Gma17g02502 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g3365 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra6g1983 .
Vvi18g0040 . . . . . . . Aed9g0126 Aev08g0102 . Ahy17g2116 . Aip07g02245 . . . . . . . . . . . . . Bva06g01815 Bva10g01032 . Car05g03365 . Cca07g00162 . . . . . . . . Gma04g00129 Gma06g00121 . . Gso4g0123 Gso4g0123 . . . . Lal21g0056 . . . . . . . . . Lapu9g02387 . Lasa5g04658 . . . . . . . . . Lja1g2264 . . Mal2g0337 Mepo3g07731 . Mesa9g05621 . . . . Mtr3g4381 . . . . . . . . . . . . . . . . Pvu9g0090 . . . . . Spst9g00168 . . . . . . Tpr7g0127 Trre5g05839 . . Tsu07g00142 . . . . . . . . Vivi3g00820 . . Vra5g1753
Vvi18g0041 . . . . . . . . Aev08g0103 . Ahy17g2117 . Aip07g02246 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma06g00122 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2265 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0042 . . . . . . . Aed9g0129 . . . . . . . . . . . . . . . . . . . Bva10g01031 . Car05g03363 . Cca07g00164 . . . . . . . . Gma04g00130 Gma06g00123 . . Gso4g0124 Gso4g0124 . . . . . . . . . . . . . . Lapu9g02386 . Lasa5g04653 . . . . . . . . . Lja1g2266 . . Mal2g0339 Mepo3g07732 . Mesa9g05620 . . . . Mtr3g4380 . . . . . . . Psa5g0193 . . . . . . . . Pvu9g0089 . . . . . Spst9g00171 . . . Sto5g0019 . . Tpr7g0128 Trre5g05837 . . Tsu07g00143 . . . . . . . . Vivi3g00818 . . Vra5g1752
Vvi18g0043 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0044 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0045 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma06g00122 Chr06 1083055 1083819 +
Vvi Vvi18g0036 Chr18 420699 423366 +
Bva Bva06g01812 Chr06 12518459 12520602 +
Sto Sto5g0016 Chr5 126792 128183 +
Vvi Vvi18g0037 Chr18 425521 432667 +
Bva Bva06g01813 Chr06 12522393 12529308 +
Bva Bva10g01034 Chr10 7517209 7523470 -
Car Car04g02759 Chr04 53560523 53565676 +
Mal Mal1g4806 Chr1 115759373 115764736 +
Mtr Mtr1g1103 Chr1 12539960 12545444 -
Psa Psa6g3013 Chr6 252909431 252914041 -
Sto Sto5g0017 Chr5 130049 136619 +
Sto Sto9g3753 Chr9 35672241 35681485 -
Tpr Tpr1g2880 Chr1 33185808 33191161 +
Tsu Tsu01g01242 Chr01 11488230 11493257 -
Vvi Vvi18g0038 Chr18 436883 441670 +
Vvi Vvi18g0039 Chr18 444101 446287 +
Ahy Ahy16g0005 Chr16 50460 52358 +
Aip Aip06g00005 Chr06 44875 46486 +
Apr Apr9g0699 Chr9 11661838 11663485 -
Bva Bva06g01814 Chr06 12530490 12532676 +
Bva Bva10g01033 Chr10 7513282 7515236 -
Cca Cca05g00437 Chr05 9566022 9568034 -
Dod Dod08g2336 Chr08 51488789 51491028 -
Gma Gma14g02187 Chr14 53016015 53018205 -
Gma Gma17g02502 Chr17 43023675 43025199 -
Lja Lja5g3365 Chr5 65758058 65760375 -
Vra Vra6g1983 Chr6 36544295 36546177 +
Vvi Vvi18g0040 Chr18 447979 468244 +
Aed Aed9g0126 Chr9 892361 897964 +
Aev Aev08g0102 Chr08 578944 584076 +
Ahy Ahy17g2116 Chr17 100883423 100888404 +
Aip Aip07g02245 Chr07 92534539 92538654 +
Bva Bva06g01815 Chr06 12533058 12545393 +
Bva Bva10g01032 Chr10 7504086 7512396 -
Car Car05g03365 Chr05 78272592 78279790 -
Cca Cca07g00162 Chr07 2067325 2076717 +
Gma Gma04g00129 Chr04 1100185 1108663 +
Gma Gma06g00121 Chr06 1063700 1071778 +
Gso Gso4g0123 Chr4 1081872 1090781 +
Gso Gso4g0123 Chr4 1081872 1090781 +
Lal Lal21g0056 Chr21 424761 429941 +
Lapu Lapu9g02387 Chr9 38387076 38396542 -
Lasa Lasa5g04658 Chr5 684626912 684632234 -
Lja Lja1g2264 Chr1 26414360 26421431 +
Mal Mal2g0337 Chr2 3775275 3781148 +
Mepo Mepo3g07731 Chr3 90586980 90592864 +
Mesa Mesa9g05621 Chr9 91753904 91759143 -
Mtr Mtr3g4381 Chr3 57726370 57732278 -
Pvu Pvu9g0090 Chr9 1348590 1356489 -
Spst Spst9g00168 Chr9 1522107 1531164 +
Tpr Tpr7g0127 Chr7 1022089 1027993 +
Trre Trre5g05839 Chr5 58047297 58052516 -
Tsu Tsu07g00142 Chr07 1084381 1090062 +
Vivi Vivi3g00820 Chr3 13369479 13375918 -
Vra Vra5g1753 Chr5 23669431 23677384 -
Vvi Vvi18g0041 Chr18 474843 476501 -
Aev Aev08g0103 Chr08 588858 589895 -
Ahy Ahy17g2117 Chr17 100891693 100893432 -
Aip Aip07g02246 Chr07 92542398 92544124 -
Gma Gma06g00122 Chr06 1083055 1083819 +
Lja Lja1g2265 Chr1 26430017 26430996 -
Vvi Vvi18g0042 Chr18 492282 492764 -
Aed Aed9g0129 Chr9 902264 904371 -
Bva Bva10g01031 Chr10 7501430 7501941 +
Car Car05g03363 Chr05 78256919 78257597 +
Cca Cca07g00164 Chr07 2098581 2099737 -
Gma Gma04g00130 Chr04 1117732 1120994 -
Gma Gma06g00123 Chr06 1088626 1089561 -
Gso Gso4g0124 Chr4 1098815 1102591 -
Gso Gso4g0124 Chr4 1098815 1102591 -
Lapu Lapu9g02386 Chr9 38377537 38379024 +
Lasa Lasa5g04653 Chr5 683179404 683179888 +
Lja Lja1g2266 Chr1 26434736 26437298 -
Mal Mal2g0339 Chr2 3790878 3791306 -
Mepo Mepo3g07732 Chr3 90594778 90599450 -
Mesa Mesa9g05620 Chr9 91746389 91748897 +
Mtr Mtr3g4380 Chr3 57706130 57710927 +
Psa Psa5g0193 Chr5 14239607 14243520 -
Pvu Pvu9g0089 Chr9 1340210 1341276 +
Spst Spst9g00171 Chr9 1539889 1540359 -
Sto Sto5g0019 Chr5 142495 143833 -
Tpr Tpr7g0128 Chr7 1030777 1033358 -
Trre Trre5g05837 Chr5 58037695 58038163 +
Tsu Tsu07g00143 Chr07 1092162 1094635 -
Vivi Vivi3g00818 Chr3 13341100 13344734 +
Vra Vra5g1752 Chr5 23662772 23668036 +
Vvi Vvi18g0043 Chr18 494573 498105 -
Vvi Vvi18g0044 Chr18 505256 507788 +
Vvi Vvi18g0045 Chr18 510563 512804 +
Gma Gma04g00129 Chr04 1100185 1108663 +
Gma Gma06g00121 Chr06 1063700 1071778 +
Gso Gso4g0123 Chr4 1081872 1090781 +
Gso Gso4g0123 Chr4 1081872 1090781 +