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
Vvi3g0093 . . . . . Adu03g00587 . . . . . . . . . . . . . . . Arst3g00759 . . . . Bva13g01623 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02232 . . . . . . . . . . Mal7g2675 . . . . . . . Mtr4g2200 . . . . . . . Psa7g4150 . . . . . . . . . . Pvu11g0382 . . . . . Spst2g02616 . . Sto2g0868 . . . . . Tsu02g02534 . . . . . . Vimu5g02447 . . . Vivi5g02916 . .
Vvi3g0094 . . . . . . . . Aev04g3453 . . . Aip03g00861 . . . Amo13g1003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g4149 . . . . . . . . . . . . . . . . . . . Sto2g0869 . . . . . . . . . . . . . . . . . . .
Vvi3g0095 . . . . . Adu03g01157 . . . . . . . . . . . . . . Arst3g01462 Arst3g00764 . . . . Bva13g01622 . . . . . . . . . . . . . . . . . . . . . Lal1g0178 . . . . . . . . . . . . Lapu11g01391 Lasa5g04798 Lasa7g02233 . . . . . . . . . . . . . Mepo2g02422 . . . . Mtr4g2203 . . Phac11g00548 . Phco9g00424 . . Psa7g4148 . . . . . . . . . Pvu9g0015 Pvu11g0381 . . . . Spst9g00080 Spst2g02617 . . . . Tpr3g2438 . . . Tsu02g02540 . . . . . Vimu10g03690 Vimu5g02448 . . . Vivi5g02917 . .
Vvi3g0096 . . . . Adu08g00670 . . . . . . . . . . . . . . . Arst8g00878 Arst3g01461 . . . . . . Car06g02230 . . . . . . . . . . . . . . . . . . . Lal1g0177 . . . . . . . . . . . Lapu9g01558 Lapu11g01381 Lasa5g01748 . . . . . . . . . . . Mal7g2678 . Mepo3g05686 . Mesa9g03061 . . . Mtr4g2204 . . . Phco7g01173 . . . Psa7g4146 . Pste2g02870 Pste1g03609 . . . . Pumo10g01175 . Pvu9g0284 Pvu11g1365 Rops10g01822 . Seca4g02758 . Spst9g01217 Spst11g00864 . . . . Tpr3g2439 . Trre5g02279 . . . Vian4g01611 . . . Vimu10g02245 Vimu5g01263 Viun9g02525 . Vivi3g04449 Vivi5g03011 . .
Vvi3g0097 . . . . . . . . . . Ahy13g0109 . Aip03g00124 . . . . . . Apr5g1820 Arst3g00899 Arst3g01462 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa5g04796 . . . . . . . . . . . Mal7g2679 . . . . . . . Mtr4g2205 . . . Phco7g00090 . . . . . . Pste1g03607 . . . . . . Pvu9g0014 Pvu11g1364 . . . . . Spst11g00865 . . Sto2g0875 . . . . . Tsu02g02542 . . . . . Vimu10g03692 Vimu5g01262 . . . . . .
Vvi3g0098 . Acco01g2106 . Accr1g01809 . Adu03g00599 . . . . . . Aip03g00866 . . . Amo13g1001 . . . . Arst3g00772 . . . . Bva13g01620 . Car06g02229 . . . . . . . . . . Glsi01g0131 . . . . . . . . . Lal2g0105 . . . . . . . . . . . Lapu11g00833 . Lasa7g02235 . . . . Lele45g1325 . Lele47g0085 Lele48g0089 . . Mal7g2681 . . Mepo2g02425 . . . . Mtr4g2206 . . Phac11g01822 . Phco9g00422 . Prci14g0154 Psa7g4143 . . . . . . . . . . Pvu11g0379 . . . . . Spst2g02619 . . . . Tpr3g2440 . . . Tsu02g02543 . . . . . . Vimu5g02450 . . . Vivi5g02919 . .
Vvi3g0099 . . . . . . . . . . . . . . . . . . . Apr5g1822 Arst3g00900 Arst3g01464 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa5g04794 . . . . . . . . . . . Mal7g2684 . . . . . . . Mtr4g2209 . . . . . . . . . . Pste1g03605 . . . . . . Pvu9g0013 Pvu11g1362 . . . . Spst9g00079 Spst11g00867 . . Sto2g0879 . Tpr3g2441 . . . Tsu02g02547 . . . . . . . . . . Vivi5g03012 . .
Vvi3g0100 . . . . . . . . Aev04g3458 . Ahy13g0812 . Aip03g00869 . . . Amo13g0998 . . Apr5g1825 . Arst3g01465 . . . . . . Car06g02228 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g2691 . . . . . . . Mtr4g2213 . . . . . . . Psa7g4141 . . Pste1g03603 . . . . . . . Pvu11g1361 . . . . . Spst11g00868 . . . . . . . . Tsu02g02559 . . . . . . Vimu5g01258 . . . Vivi5g03013 . .
Vvi3g0101 . . . . . . . . Aev04g3461 . Ahy13g0814 . Aip03g00872 . . . Amo13g0994 . . Apr5g1826 Arst3g00901 Arst3g01466 . . . . Bva13g01617 Bva14g02289 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa5g04792 . . . . . . . . . . . . . . . . . . . . . . . Phco7g00088 . . . . . . . . . . . . . Pvu9g0011 Pvu11g1358 . . . . Spst9g00075 Spst11g00871 . . Sto2g0883 . . . . . . . . . . . Vimu10g03694 Vimu5g01257 . . . Vivi5g03014 . .
Vvi3g0102 . . . . . . Aed5g0332 . Aev04g3462 . Ahy13g0815 . Aip03g00873 . . . Amo13g0993 . . . . Arst3g00779 . . . . Bva13g01616 Bva14g02290 Car06g02227 . Cca04g00360 . . . . . . . . . . . . Gma12g00317 . . . . Lal1g0172 . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g2697 . . Mepo2g02430 . Mesa13g02591 . . Mtr4g2216 . . . . . . . . . . . . . . . . Pumo11g01909 . Pvu11g0373 . Rops3g00458 . Seca6g00771 . Spst2g02625 Ssu3g2928 . Sto2g0886 Sto10g0104 Tpr3g2445 . . Trre7g02666 Tsu02g02565 . . Vian5g01563 . Vifa6g01080 . Vimu5g02458 . Viun11g02541 . . Vra2g0356 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vimu Vimu5g01258 Chr5 22615767 22617310 +
Arst Arst3g01461 Chr3 13139086 13143139 +
Vimu Vimu5g01263 Chr5 22666614 22668221 -
Vvi Vvi3g0093 Chr3 900918 901205 +
Adu Adu03g00587 Chr03 5408691 5409218 +
Arst Arst3g00759 Chr3 5414666 5415110 +
Bva Bva13g01623 Chr13 9743895 9744878 +
Lasa Lasa7g02232 Chr7 507196785 507197087 +
Mal Mal7g2675 Chr7 88819726 88820004 +
Mtr Mtr4g2200 Chr4 35455574 35456079 -
Psa Psa7g4150 Chr7 338766525 338766788 +
Pvu Pvu11g0382 Chr11 3235659 3236418 +
Spst Spst2g02616 Chr2 25822738 25823010 -
Sto Sto2g0868 Chr2 7538130 7571924 -
Tsu Tsu02g02534 Chr02 26164204 26164485 +
Vimu Vimu5g02447 Chr5 35031052 35033329 -
Vivi Vivi5g02916 Chr5 117052084 117052731 +
Vvi Vvi3g0094 Chr3 903282 903569 -
Aev Aev04g3453 Chr04 32881111 32881386 -
Aip Aip03g00861 Chr03 8309757 8310032 -
Amo Amo13g1003 Chr13 12411993 12412464 +
Psa Psa7g4149 Chr7 338765374 338765649 -
Sto Sto2g0869 Chr2 7572593 7577274 -
Vvi Vvi3g0095 Chr3 905892 906179 +
Adu Adu03g01157 Chr03 12732545 12733144 +
Arst Arst3g01462 Chr3 13144624 13147820 +
Arst Arst3g00764 Chr3 5469877 5470376 +
Bva Bva13g01622 Chr13 9742421 9743198 -
Lal Lal1g0178 Chr1 1103938 1104207 +
Lapu Lapu11g01391 Chr11 16228486 16228763 -
Lasa Lasa5g04798 Chr5 696393017 696393298 +
Lasa Lasa7g02233 Chr7 507220339 507220620 -
Mepo Mepo2g02422 Chr2 33975272 33975658 +
Mtr Mtr4g2203 Chr4 35472032 35472992 +
Phac Phac11g00548 Chr11 3796979 3797257 +
Phco Phco9g00424 Chr9 3066483 3066761 +
Psa Psa7g4148 Chr7 338687973 338688905 -
Pvu Pvu9g0015 Chr9 365865 366303 +
Pvu Pvu11g0381 Chr11 3224391 3224860 +
Spst Spst9g00080 Chr9 627847 629995 +
Spst Spst2g02617 Chr2 25823863 25824141 +
Tpr Tpr3g2438 Chr3 23280986 23281605 +
Tsu Tsu02g02540 Chr02 26185690 26185944 -
Vimu Vimu10g03690 Chr10 45945955 45946266 -
Vimu Vimu5g02448 Chr5 35040087 35046287 +
Vivi Vivi5g02917 Chr5 117052914 117053425 -
Vvi Vvi3g0096 Chr3 908875 909162 +
Adu Adu08g00670 Chr08 12073150 12074377 +
Arst Arst8g00878 Chr8 12043361 12044503 +
Arst Arst3g01461 Chr3 13139086 13143139 +
Car Car06g02230 Chr06 22939789 22940659 -
Lal Lal1g0177 Chr1 1101774 1102022 +
Lapu Lapu9g01558 Chr9 30030263 30031128 +
Lapu Lapu11g01381 Chr11 16196212 16196589 +
Lasa Lasa5g01748 Chr5 405516523 405517101 +
Mal Mal7g2678 Chr7 88846499 88846777 -
Mepo Mepo3g05686 Chr3 70869221 70870486 +
Mesa Mesa9g03061 Chr9 60300598 60301450 +
Mtr Mtr4g2204 Chr4 35474124 35474837 -
Phco Phco7g01173 Chr7 10176448 10177008 -
Psa Psa7g4146 Chr7 338417073 338417381 -
Pste Pste2g02870 Chr2 28769596 28770328 -
Pste Pste1g03609 Chr1 17146513 17190825 -
Pumo Pumo10g01175 Chr10 15394655 15395535 -
Pvu Pvu9g0284 Chr9 6151941 6152698 +
Pvu Pvu11g1365 Chr11 29703476 29703973 +
Rops Rops10g01822 Chr10 33894996 33895952 -
Seca Seca4g02758 Chr4 47446854 47447966 +
Spst Spst9g01217 Chr9 11508429 11508979 -
Spst Spst11g00864 Chr11 32748169 32748418 +
Tpr Tpr3g2439 Chr3 23296881 23301498 -
Trre Trre5g02279 Chr5 17264019 17264825 +
Vian Vian4g01611 Chr4 31706808 31707368 +
Vimu Vimu10g02245 Chr10 32862497 32863079 +
Vimu Vimu5g01263 Chr5 22666614 22668221 -
Viun Viun9g02525 Chr9 34339257 34340271 +
Vivi Vivi3g04449 Chr3 80064144 80064970 -
Vivi Vivi5g03011 Chr5 118322708 118323010 -
Vvi Vvi3g0097 Chr3 910867 911133 -
Ahy Ahy13g0109 Chr13 1166546 1167502 +
Aip Aip03g00124 Chr03 1109295 1109576 +
Apr Apr5g1820 Chr5 21454472 21458014 -
Arst Arst3g00899 Chr3 6613361 6613888 -
Arst Arst3g01462 Chr3 13144624 13147820 +
Lasa Lasa5g04796 Chr5 696391023 696391304 +
Mal Mal7g2679 Chr7 88847479 88847742 +
Mtr Mtr4g2205 Chr4 35475108 35475757 +
Phco Phco7g00090 Chr7 568757 570557 +
Pste Pste1g03607 Chr1 17145256 17192406 +
Pvu Pvu9g0014 Chr9 363992 364444 +
Pvu Pvu11g1364 Chr11 29674124 29675180 +
Spst Spst11g00865 Chr11 32754990 32755241 -
Sto Sto2g0875 Chr2 7619954 7622283 -
Tsu Tsu02g02542 Chr02 26187762 26188486 -
Vimu Vimu10g03692 Chr10 45954171 45956748 -
Vimu Vimu5g01262 Chr5 22660674 22661252 -
Vvi Vvi3g0098 Chr3 913244 913531 +
Acco Acco01g2106 Chr01 36976695 36976976 +
Accr Accr1g01809 Chr1 48483276 48483557 +
Adu Adu03g00599 Chr03 5525571 5525837 -
Aip Aip03g00866 Chr03 8325103 8325472 +
Amo Amo13g1001 Chr13 12392602 12393096 -
Arst Arst3g00772 Chr3 5513784 5514533 -
Bva Bva13g01620 Chr13 9729028 9729318 -
Car Car06g02229 Chr06 22907102 22907634 -
Glsi Glsi01g0131 Chr01 1079273 1082822 +
Lal Lal2g0105 Chr2 656171 656470 -
Lapu Lapu11g00833 Chr11 11032782 11033061 +
Lasa Lasa7g02235 Chr7 507238961 507239224 -
Lele Lele45g1325 Chr45 23010116 23010397 +
Lele Lele47g0085 Chr47 583811 584092 -
Lele Lele48g0089 Chr48 1308565 1308846 +
Mal Mal7g2681 Chr7 88849871 88850149 +
Mepo Mepo2g02425 Chr2 33981101 33981358 -
Mtr Mtr4g2206 Chr4 35480636 35481176 +
Phac Phac11g01822 Chr11 24397491 24398073 -
Phco Phco9g00422 Chr9 3034534 3034833 -
Prci Prci14g0154 Chr14 1290226 1290471 +
Psa Psa7g4143 Chr7 338283894 338284196 -
Pvu Pvu11g0379 Chr11 3217335 3217995 +
Spst Spst2g02619 Chr2 25827957 25828217 +
Tpr Tpr3g2440 Chr3 23305219 23305947 +
Tsu Tsu02g02543 Chr02 26189297 26189575 +
Vimu Vimu5g02450 Chr5 35051371 35056150 +
Vivi Vivi5g02919 Chr5 117069868 117073436 +
Vvi Vvi3g0099 Chr3 915230 915499 -
Apr Apr5g1822 Chr5 21464000 21464333 -
Arst Arst3g00900 Chr3 6619518 6619981 +
Arst Arst3g01464 Chr3 13159283 13160256 +
Lasa Lasa5g04794 Chr5 696277365 696277646 +
Mal Mal7g2684 Chr7 88854314 88854571 -
Mtr Mtr4g2209 Chr4 35502833 35503317 -
Pste Pste1g03605 Chr1 17127216 17134798 +
Pvu Pvu9g0013 Chr9 360354 360919 +
Pvu Pvu11g1362 Chr11 29628043 29628684 -
Spst Spst9g00079 Chr9 625747 627590 +
Spst Spst11g00867 Chr11 32772436 32772711 -
Sto Sto2g0879 Chr2 7651306 7651560 -
Tpr Tpr3g2441 Chr3 23323822 23330073 -
Tsu Tsu02g02547 Chr02 26231727 26231999 +
Vivi Vivi5g03012 Chr5 118327785 118328174 -
Vvi Vvi3g0100 Chr3 917424 917711 -
Aev Aev04g3458 Chr04 32888169 32888417 -
Ahy Ahy13g0812 Chr13 8537431 8547868 -
Aip Aip03g00869 Chr03 8330270 8330674 -
Amo Amo13g0998 Chr13 12387258 12387821 +
Apr Apr5g1825 Chr5 21478065 21482249 -
Arst Arst3g01465 Chr3 13160853 13161988 -
Car Car06g02228 Chr06 22880279 22881200 -
Mal Mal7g2691 Chr7 88899033 88899317 -
Mtr Mtr4g2213 Chr4 35546744 35547342 -
Psa Psa7g4141 Chr7 338281513 338281794 +
Pste Pste1g03603 Chr1 17126311 17133960 -
Pvu Pvu11g1361 Chr11 29626687 29627157 +
Spst Spst11g00868 Chr11 32773470 32773721 +
Tsu Tsu02g02559 Chr02 26332009 26332613 -
Vimu Vimu5g01258 Chr5 22615767 22617310 +
Vivi Vivi5g03013 Chr5 118330567 118335187 -
Vvi Vvi3g0101 Chr3 922119 927953 +
Aev Aev04g3461 Chr04 32900707 32900988 +
Ahy Ahy13g0814 Chr13 8565500 8566128 +
Aip Aip03g00872 Chr03 8352888 8353190 +
Amo Amo13g0994 Chr13 12357954 12358671 -
Apr Apr5g1826 Chr5 21488977 21489273 -
Arst Arst3g00901 Chr3 6622142 6622651 +
Arst Arst3g01466 Chr3 13162023 13163011 +
Bva Bva13g01617 Chr13 9715183 9715476 -
Bva Bva14g02289 Chr14 19790514 19790810 +
Lasa Lasa5g04792 Chr5 696275371 696275652 +
Phco Phco7g00088 Chr7 556217 556516 +
Pvu Pvu9g0011 Chr9 337557 338106 +
Pvu Pvu11g1358 Chr11 29622728 29623291 +
Spst Spst9g00075 Chr9 598175 601686 +
Spst Spst11g00871 Chr11 32783911 32784593 +
Sto Sto2g0883 Chr2 7667585 7667839 -
Vimu Vimu10g03694 Chr10 45969022 45969552 -
Vimu Vimu5g01257 Chr5 22610844 22614944 -
Vivi Vivi5g03014 Chr5 118336235 118336869 +
Vvi Vvi3g0102 Chr3 932370 948815 -
Aed Aed5g0332 Chr5 2281062 2291997 +
Aev Aev04g3462 Chr04 32901863 32915348 -
Ahy Ahy13g0815 Chr13 8565682 8575089 -
Aip Aip03g00873 Chr03 8354217 8362159 -
Amo Amo13g0993 Chr13 12349024 12357155 +
Arst Arst3g00779 Chr3 5552550 5560758 -
Bva Bva13g01616 Chr13 9710068 9714108 +
Bva Bva14g02290 Chr14 19791791 19803291 -
Car Car06g02227 Chr06 22863221 22880107 +
Cca Cca04g00360 Chr04 3515427 3526342 +
Gma Gma12g00317 Chr12 2561805 2572533 +
Lal Lal1g0172 Chr1 1078477 1093388 +
Mal Mal7g2697 Chr7 88971400 88982241 -
Mepo Mepo2g02430 Chr2 34061868 34073944 -
Mesa Mesa13g02591 Chr13 30571582 30581795 +
Mtr Mtr4g2216 Chr4 35578053 35589862 -
Pumo Pumo11g01909 Chr11 50877584 50886679 -
Pvu Pvu11g0373 Chr11 3172447 3180772 +
Rops Rops3g00458 Chr3 5704481 5716756 +
Seca Seca6g00771 Chr6 25864486 25882795 +
Spst Spst2g02625 Chr2 25849500 25859240 -
Ssu Ssu3g2928 Chr3 84265402 84276224 -
Sto Sto2g0886 Chr2 7682579 7684267 +
Sto Sto10g0104 Chr10 778673 788012 +
Tpr Tpr3g2445 Chr3 23378963 23390895 -
Trre Trre7g02666 Chr7 22395994 22406627 +
Tsu Tsu02g02565 Chr02 26379570 26388645 -
Vian Vian5g01563 Chr5 38197198 38206650 -
Vifa Vifa6g01080 Chr6 354715743 354727013 +
Vimu Vimu5g02458 Chr5 35091857 35092780 -
Viun Viun11g02541 Chr11 38684137 38693650 -
Vra Vra2g0356 Chr2 2721183 2731269 +
Adu Adu08g00670 Chr08 12073150 12074377 +
Arst Arst8g00878 Chr8 12043361 12044503 +
Pumo Pumo10g01175 Chr10 15394655 15395535 -
Rops Rops10g01822 Chr10 33894996 33895952 -
Seca Seca4g02758 Chr4 47446854 47447966 +
Vian Vian4g01611 Chr4 31706808 31707368 +
Vimu Vimu10g02245 Chr10 32862497 32863079 +
Viun Viun9g02525 Chr9 34339257 34340271 +
Vivi Vivi3g04449 Chr3 80064144 80064970 -
Adu Adu08g00670 Chr08 12073150 12074377 +
Arst Arst8g00878 Chr8 12043361 12044503 +
Pumo Pumo10g01175 Chr10 15394655 15395535 -
Rops Rops10g01822 Chr10 33894996 33895952 -
Seca Seca4g02758 Chr4 47446854 47447966 +
Vian Vian4g01611 Chr4 31706808 31707368 +
Vimu Vimu10g02245 Chr10 32862497 32863079 +
Viun Viun9g02525 Chr9 34339257 34340271 +
Vivi Vivi3g04449 Chr3 80064144 80064970 -
Vivi Vivi3g04449 Chr3 80064144 80064970 -