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
Vvi17g0363 . . Accr1g00444 . Adu05g02612 . Aed7g0186 . Aev05g3413 . Ahy15g2819 . Aip05g03145 . Alju02g3259 . . . Apr6g1078 . Arst5g03299 . . . Bisa01g0398 . Bva04g00804 . Car08g01707 . Cca08g00210 . Dere06g1765 . Dod02g3627 . Enph12g1150 . Glsi01g1975 . Gma07g00817 . . Gma09g01719 Gso7g0776 . . Gso7g0776 . . . Lal8g0419 . Lal25g0447 . . . . . . Lapu4g00175 . Lasa1g04060 . . Lele46g0467 . Lele48g1019 . . . . Lja2g2077 . . Mal8g3904 Mepo7g00508 . Mesa22g03178 . Mibi01g3029 . . Mtr6g2197 . . Phco5g00213 . Prci14g1726 . Psa1g0898 . Pste9g01512 . . . . . Pumo6g03062 . Pvu4g1682 . Rops5g00214 . Seca10g04951 . Spst4g02726 . . . . Sto8g2143 . Tpr5g0217 Trre3g03954 . . . Vian8g01497 . Vifa1g06952 . Vimu8g01497 . Viun4g00265 . . . Vra1g0586 .
Vvi17g0364 . . . . Adu05g02610 . Aed7g0184 . . . Ahy15g2821 . Aip05g03147 . . . . . Apr6g1080 . Arst5g03297 . . . . . Bva04g00802 . Car08g01709 . Cca08g00208 . . . Dod02g3625 . . . . . Gma07g00815 Gma04g01374 . Gma09g01721 Gso7g0774 Gso7g0774 . Gso7g0774 . . . Lal8g0417 . . . . . . . . Lapu4g00173 . Lasa1g04064 . . . . . . . . . Lja2g2075 . . Mal8g3906 Mepo7g00506 . Mesa22g03180 . . . . Mtr6g2199 . . Phco5g00204 . . . . . . . . . . . Pumo6g03064 . Pvu4g1684 . Rops5g00212 . Seca10g04953 . Spst4g02724 . . . . . . Tpr5g0215 Trre3g03956 . . . Vian8g01499 . . . Vimu8g01493 . Viun4g00262 . . . Vra1g0584 .
Vvi17g0365 . . . . . . Aed7g0183 . Aev05g3410 . . . Aip05g03150 . . . . . . . . . . . . . . . . . Cca08g00207 . . . . . . . . . . . Gma05g02267 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g0152 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2138 . . . . . . . . . . . . . . . . . .
Vvi17g0366 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0367 . . . . . . Aed7g0182 . Aev05g3409 . Ahy15g2827 . Aip05g03153 . . . . . Apr6g1082 . . . . . . . . . Car08g01710 . Cca08g00206 . . . . . . . . . . . . Gma09g01723 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2074 . . Mal8g3908 . . . . . . . Mtr6g2200 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2137 . Tpr5g0213 . . . Tsu03g03228 . . . . . . . . . . Vra1g0582 .
Vvi17g0368 . . . . Adu01g02365 . . . . . . . . . . . . . . . Arst1g03097 . Bach5g00655 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g00775 . . . . . . . . . . . . . . . . . . . . . . . . . Phco8g01197 . . . . . Pste6g03113 . Pte3g00500 Pte2g01740 . . Pumo4g00986 . Pvu3g1784 . Rops2g03586 . Seca12g01016 . Spst3g05020 . . . . . . . . . . . Vian1g01054 . . . Vimu7g01108 . Viun3g04981 . . . . .
Vvi17g0369 . . . . . . Aed7g0180 Aed5g2534 Aev05g3408 . Ahy15g2828 . Aip05g03154 . . . . . . Apr2g1445 . . . . . . . . . . Cca08g00204 Cca09g02695 . . . . . . . . Gma07g00814 . . Gma09g01726 Gso7g0773 . . Gso7g0773 . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2073 . Mal7g5257 . . . . . . . Mtr8g3745 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2136 . . . . Tsu02g00172 . . . . . . . . . . . Vra1g0581 Vra7g3134
Vvi17g0370 . . . . . . . . . . Ahy15g2831 . Aip05g03156 . . . . . Apr6g1083 . . . . . . . . . Car08g01711 . Cca08g00203 . . . . . . . . . Gma07g00813 . . Gma09g01727 Gso7g0772 . . Gso7g0772 . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2071 . . Mal8g3911 . . . . . . . Mtr6g2203 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr5g0209 . . . Tsu03g03230 . . . . . . . . . . Vra1g0580 .
Vvi17g0371 . . . . . . . Aed5g2531 . . . . . . . . . . . Apr2g1444 . . . Bach1g01531 . . Bva04g00800 Bva03g00634 . . . Cca09g02694 . . . . . . . . . Gma08g00389 Gma05g02265 . . . . . . Lal16g1020 . . . . . . . . . . . . . . . . . . . . . . . Lja4g0153 Mal7g5256 . . . . . . . Mtr8g3743 . . . . . . . . Psa7g0226 . Pste3g00332 . . . . . . . Pvu2g3244 . . . . . Spst3g00819 . Ssu5g3347 . Sto8g2135 Tpr3g0369 . . . Tsu02g00176 . . . . . . Vimu11g04740 . . . . . Vra7g3133
Vvi17g0372 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g00799 Bva03g00633 Car08g01713 . Cca08g00200 . . . . . . . . . . . . Gma09g01732 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal8g3915 . . . . . . . Mtr6g2205 . . . . . . . Psa7g0222 . . . . . . . . . . . . . . . . Ssu5g3346 . . . . Tpr5g0207 . . . Tsu03g03233 . . . . . . . . . . Vra1g0578 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Psa Psa7g0222 Chr7 15257878 15259067 +
Pte Pte3g00500 Chr3 3966213 3968777 -
Adu Adu01g02365 Chr01 91146929 91150532 +
Arst Arst1g03097 Chr1 92494575 92498135 +
Bach Bach5g00655 Chr5 4459733 4461999 -
Lapu Lapu3g00775 Chr3 8167230 8172321 +
Phco Phco8g01197 Chr8 12564025 12566310 -
Pste Pste6g03113 Chr6 19353573 19357164 -
Pte Pte3g00500 Chr3 3966213 3968777 -
Pte Pte2g01740 Chr2 37096488 37099820 +
Pte Pte3g00500 Chr3 3966213 3968777 -
Pumo Pumo4g00986 Chr4 12678938 12683783 +
Pvu Pvu3g1784 Chr3 38344366 38348394 -
Rops Rops2g03586 Chr2 66447733 66453482 +
Seca Seca12g01016 Chr12 9715395 9719986 +
Spst Spst3g05020 Chr3 102024917 102027203 -
Vian Vian1g01054 Chr1 11244839 11247057 -
Vimu Vimu7g01108 Chr7 10881911 10884177 -
Viun Viun3g04981 Chr3 56748670 56753098 -
Vvi Vvi17g0363 Chr17 3781267 3797974 +
Accr Accr1g00444 Chr1 8661163 8670087 -
Adu Adu05g02612 Chr05 92580982 92587748 -
Aed Aed7g0186 Chr7 1311283 1318059 -
Aev Aev05g3413 Chr05 33628132 33633714 -
Ahy Ahy15g2819 Chr15 146166340 146173062 +
Aip Aip05g03145 Chr05 135168611 135175312 +
Alju Alju02g3259 Chr02 50161825 50176339 +
Apr Apr6g1078 Chr6 15446639 15455976 +
Arst Arst5g03299 Chr5 91239492 91246254 -
Bisa Bisa01g0398 Chr01 5445234 5454900 +
Bva Bva04g00804 Chr04 5316475 5323399 -
Car Car08g01707 Chr08 26917968 26924569 +
Cca Cca08g00210 Chr08 2906652 2918633 -
Dere Dere06g1765 Chr06 32553920 32562723 -
Dod Dod02g3627 Chr02 74413078 74421538 -
Enph Enph12g1150 Chr12 18381317 18391255 -
Glsi Glsi01g1975 Chr01 83169184 83181463 -
Gma Gma07g00817 Chr07 8732504 8739857 -
Gma Gma09g01719 Chr09 42809807 42826467 +
Gso Gso7g0776 Chr7 8540757 8549223 -
Gso Gso7g0776 Chr7 8540757 8549223 -
Lal Lal8g0419 Chr8 2817452 2823940 -
Lal Lal25g0447 Chr25 3075233 3082350 -
Lapu Lapu4g00175 Chr4 1721879 1731655 -
Lasa Lasa1g04060 Chr1 701701020 701707136 +
Lele Lele46g0467 Chr46 3187084 3194053 -
Lele Lele48g1019 Chr48 15175543 15182443 +
Lja Lja2g2077 Chr2 22931688 22938853 -
Mal Mal8g3904 Chr8 113234688 113241871 +
Mepo Mepo7g00508 Chr7 8652343 8662412 -
Mesa Mesa22g03178 Chr22 83496184 83505751 +
Mibi Mibi01g3029 Chr01 53692442 53701914 +
Mtr Mtr6g2197 Chr6 39222178 39232287 +
Phco Phco5g00213 Chr5 1748243 1756533 -
Prci Prci14g1726 Chr14 24597797 24607553 +
Psa Psa1g0898 Chr1 60096082 60102987 -
Pste Pste9g01512 Chr9 14945922 14957120 +
Pumo Pumo6g03062 Chr6 72810515 72818709 +
Pvu Pvu4g1682 Chr4 44063346 44073000 +
Rops Rops5g00214 Chr5 3381744 3391980 -
Seca Seca10g04951 Chr10 114041947 114052184 +
Spst Spst4g02726 Chr4 67124495 67133758 -
Sto Sto8g2143 Chr8 14049805 14056176 -
Tpr Tpr5g0217 Chr5 3172236 3179045 -
Trre Trre3g03954 Chr3 50672734 50678647 +
Vian Vian8g01497 Chr8 34449267 34457312 +
Vifa Vifa1g06952 Chr1 1073137929 1073144327 -
Vimu Vimu8g01497 Chr8 20968078 20974013 -
Viun Viun4g00265 Chr4 1551713 1561260 -
Vra Vra1g0586 Chr1 6866240 6875590 -
Vvi Vvi17g0364 Chr17 3799371 3805737 -
Adu Adu05g02610 Chr05 92569262 92574487 +
Aed Aed7g0184 Chr7 1302060 1307045 +
Ahy Ahy15g2821 Chr15 146185216 146190109 -
Aip Aip05g03147 Chr05 135187733 135192570 -
Apr Apr6g1080 Chr6 15460119 15466677 -
Arst Arst5g03297 Chr5 91227775 91232913 +
Bva Bva04g00802 Chr04 5309334 5312821 +
Car Car08g01709 Chr08 26929259 26934240 -
Cca Cca08g00208 Chr08 2897397 2902135 +
Dod Dod02g3625 Chr02 74402805 74407576 +
Gma Gma07g00815 Chr07 8722365 8726436 +
Gma Gma04g01374 Chr04 27015773 27018637 +
Gma Gma09g01721 Chr09 42831835 42836191 -
Gso Gso7g0774 Chr7 8531345 8535741 +
Gso Gso7g0774 Chr7 8531345 8535741 +
Gso Gso7g0774 Chr7 8531345 8535741 +
Lal Lal8g0417 Chr8 2809600 2813857 +
Lapu Lapu4g00173 Chr4 1712922 1717698 +
Lasa Lasa1g04064 Chr1 701853011 701855918 -
Lja Lja2g2075 Chr2 22894749 22899797 +
Mal Mal8g3906 Chr8 113249562 113255079 -
Mepo Mepo7g00506 Chr7 8642444 8646592 +
Mesa Mesa22g03180 Chr22 83511253 83516879 -
Mtr Mtr6g2199 Chr6 39238995 39244501 -
Phco Phco5g00204 Chr5 1657411 1658871 +
Pumo Pumo6g03064 Chr6 72824402 72828953 -
Pvu Pvu4g1684 Chr4 44077993 44082897 -
Rops Rops5g00212 Chr5 3372166 3377174 +
Seca Seca10g04953 Chr10 114087339 114092458 -
Spst Spst4g02724 Chr4 67111824 67115644 +
Tpr Tpr5g0215 Chr5 3156555 3161693 -
Trre Trre3g03956 Chr3 50691308 50695644 -
Vian Vian8g01499 Chr8 34462497 34466194 -
Vimu Vimu8g01493 Chr8 20957347 20958759 +
Viun Viun4g00262 Chr4 1542448 1546185 +
Vra Vra1g0584 Chr1 6857917 6861703 +
Vvi Vvi17g0365 Chr17 3818047 3819377 -
Aed Aed7g0183 Chr7 1299802 1301433 +
Aev Aev05g3410 Chr05 33608267 33615612 +
Aip Aip05g03150 Chr05 135296848 135303974 -
Cca Cca08g00207 Chr08 2889682 2892436 +
Gma Gma05g02267 Chr05 43694458 43697354 +
Lja Lja4g0152 Chr4 1167075 1168776 -
Sto Sto8g2138 Chr8 14022354 14024798 -
Vvi Vvi17g0366 Chr17 3821092 3824301 +
Vvi Vvi17g0367 Chr17 3825222 3830936 -
Aed Aed7g0182 Chr7 1286818 1289978 -
Aev Aev05g3409 Chr05 33602328 33605840 +
Ahy Ahy15g2827 Chr15 146374120 146382111 -
Aip Aip05g03153 Chr05 135374787 135406940 -
Apr Apr6g1082 Chr6 15479115 15498609 -
Car Car08g01710 Chr08 26936577 26938640 -
Cca Cca08g00206 Chr08 2882563 2887267 +
Gma Gma09g01723 Chr09 42842905 42843780 -
Lja Lja2g2074 Chr2 22868245 22870148 +
Mal Mal8g3908 Chr8 113318435 113320296 +
Mtr Mtr6g2200 Chr6 39300418 39302504 +
Sto Sto8g2137 Chr8 14015706 14018434 +
Tpr Tpr5g0213 Chr5 3114662 3117883 +
Tsu Tsu03g03228 Chr03 44584311 44588063 -
Vra Vra1g0582 Chr1 6840986 6842814 +
Vvi Vvi17g0368 Chr17 3837403 3839267 +
Adu Adu01g02365 Chr01 91146929 91150532 +
Arst Arst1g03097 Chr1 92494575 92498135 +
Bach Bach5g00655 Chr5 4459733 4461999 -
Lapu Lapu3g00775 Chr3 8167230 8172321 +
Phco Phco8g01197 Chr8 12564025 12566310 -
Pste Pste6g03113 Chr6 19353573 19357164 -
Pte Pte3g00500 Chr3 3966213 3968777 -
Pte Pte2g01740 Chr2 37096488 37099820 +
Pumo Pumo4g00986 Chr4 12678938 12683783 +
Pvu Pvu3g1784 Chr3 38344366 38348394 -
Rops Rops2g03586 Chr2 66447733 66453482 +
Seca Seca12g01016 Chr12 9715395 9719986 +
Spst Spst3g05020 Chr3 102024917 102027203 -
Vian Vian1g01054 Chr1 11244839 11247057 -
Vimu Vimu7g01108 Chr7 10881911 10884177 -
Viun Viun3g04981 Chr3 56748670 56753098 -
Vvi Vvi17g0369 Chr17 3846664 3879071 -
Aed Aed7g0180 Chr7 1279976 1281810 +
Aed Aed5g2534 Chr5 26301041 26302845 +
Aev Aev05g3408 Chr05 33597286 33600556 +
Ahy Ahy15g2828 Chr15 146404935 146408461 -
Aip Aip05g03154 Chr05 135415838 135416695 -
Apr Apr2g1445 Chr2 20499687 20503354 +
Cca Cca08g00204 Chr08 2845473 2847763 +
Cca Cca09g02695 Chr09 52596886 52599786 +
Gma Gma07g00814 Chr07 8717380 8720069 +
Gma Gma09g01726 Chr09 42857387 42860186 -
Gso Gso7g0773 Chr7 8520031 8529249 +
Gso Gso7g0773 Chr7 8520031 8529249 +
Lja Lja2g2073 Chr2 22832491 22835121 +
Mal Mal7g5257 Chr7 121814146 121817764 +
Mtr Mtr8g3745 Chr8 47938547 47946789 +
Sto Sto8g2136 Chr8 14008448 14012397 +
Tsu Tsu02g00172 Chr02 1329205 1331710 -
Vra Vra1g0581 Chr1 6835928 6839743 +
Vra Vra7g3134 Chr7 51136863 51139208 +
Vvi Vvi17g0370 Chr17 3892972 3898796 -
Ahy Ahy15g2831 Chr15 146452814 146456129 -
Aip Aip05g03156 Chr05 135448506 135451752 -
Apr Apr6g1083 Chr6 15502011 15512728 -
Car Car08g01711 Chr08 26949571 26952500 -
Cca Cca08g00203 Chr08 2835897 2839469 +
Gma Gma07g00813 Chr07 8711066 8715309 +
Gma Gma09g01727 Chr09 42861260 42866287 -
Gso Gso7g0772 Chr7 8501180 8504028 +
Gso Gso7g0772 Chr7 8501180 8504028 +
Lja Lja2g2071 Chr2 22799508 22802196 +
Mal Mal8g3911 Chr8 113375319 113378555 +
Mtr Mtr6g2203 Chr6 39360955 39365519 -
Tpr Tpr5g0209 Chr5 3098607 3100944 +
Tsu Tsu03g03230 Chr03 44598034 44600559 -
Vra Vra1g0580 Chr1 6825340 6827336 -
Vvi Vvi17g0371 Chr17 3899131 3949043 -
Aed Aed5g2531 Chr5 26277777 26294652 -
Apr Apr2g1444 Chr2 20472865 20492711 -
Bach Bach1g01531 Chr1 28935083 28949263 +
Bva Bva04g00800 Chr04 5230223 5245986 -
Bva Bva03g00634 Chr03 3765958 3781923 -
Cca Cca09g02694 Chr09 52567633 52585664 -
Gma Gma08g00389 Chr08 3255467 3272069 -
Gma Gma05g02265 Chr05 43688440 43690027 -
Lal Lal16g1020 Chr16 6782393 6802541 +
Lja Lja4g0153 Chr4 1169723 1193367 +
Mal Mal7g5256 Chr7 121785163 121803062 -
Mtr Mtr8g3743 Chr8 47912106 47930501 -
Psa Psa7g0226 Chr7 15591060 15600903 +
Pste Pste3g00332 Chr3 1642777 1665234 +
Pvu Pvu2g3244 Chr2 47591151 47597610 -
Spst Spst3g00819 Chr3 11638034 11653048 +
Ssu Ssu5g3347 Chr5 83149813 83180626 -
Sto Sto8g2135 Chr8 13987531 14005723 -
Tpr Tpr3g0369 Chr3 3950488 3964702 +
Tsu Tsu02g00176 Chr02 1344366 1408113 +
Vimu Vimu11g04740 Chr11 67617856 67622033 -
Vra Vra7g3133 Chr7 51118457 51135077 -
Vvi Vvi17g0372 Chr17 3953006 3954367 -
Bva Bva04g00799 Chr04 5226795 5228657 -
Bva Bva03g00633 Chr03 3763474 3764110 -
Car Car08g01713 Chr08 26957183 26958880 +
Cca Cca08g00200 Chr08 2787815 2789131 -
Gma Gma09g01732 Chr09 42908775 42909907 +
Mal Mal8g3915 Chr8 113432578 113434176 +
Mtr Mtr6g2205 Chr6 39382119 39383766 +
Psa Psa7g0222 Chr7 15257878 15259067 +
Ssu Ssu5g3346 Chr5 83132911 83138773 -
Tpr Tpr5g0207 Chr5 3088896 3090941 -
Tsu Tsu03g03233 Chr03 44656346 44657954 +
Vra Vra1g0578 Chr1 6749883 6751193 -