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
Vvi17g0313 . . . . Adu05g02660 . . . . . . . . . . . . . . . Arst5g03357 . . . . . . Bva03g00671 Car08g01678 . . . . . . . . . . . . . . Gma09g01688 . . . . . . . . . . . . . . . . Lapu4g00203 . . . . . . . . . . . Lja2g2112 . . . Mepo7g00549 . Mesa22g03130 . . . . . Phac4g02063 . Phco5g00255 . . . Psa1g0841 . Pste9g01483 . . Pte9g00106 . . Pumo6g03023 . Pvu4g1651 . Rops5g00252 . Seca10g04897 . Spst4g02758 . . . . . . . Trre3g03895 . . . Vian8g01464 . . . Vimu8g01537 . Viun4g00304 . . . . .
Vvi17g0314 . . . . . . Aed7g0222 Aed5g2557 Aev05g3441 . Ahy15g2762 . Aip05g03080 . . . . . Apr6g1049 Apr2g1467 . . . . . . Bva04g00829 Bva03g00670 . . Cca08g00243 Cca09g02715 . . Dod02g3659 . . . . . Gma07g00852 . . . Gso7g0805 . . . . Lal16g1003 . . Lal10g0972 Lal25g0462 . . . . . . . . . . . . . . . . . . . . . Mal8g3853 . . . . . . . Mtr6g2161 . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g3375 Ssu5g3375 . . . Tpr5g0262 . . . Tsu03g03154 . . . . . . . . . . Vra1g0617 Vra7g3158
Vvi17g0315 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g00669 . . . . . . . . . . . . . . . . . . . . . . . Lal8g0437 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0316 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0317 . . . . . Adu03g02002 . Aed5g2556 . . . . . . . . . . . Apr2g1466 . Arst3g02628 . Bach1g01503 . . Bva04g00828 Bva03g00668 . . . Cca09g02714 . . . . . . . . . . . . . . . . . . . . Lal10g0973 Lal25g0461 . . . . . . . . . Lasa7g05123 . . . . . . . . . . Mal7g5278 . . Mepo2g04946 . . . . Mtr8g3761 . . Phac2g04785 . Phco4g03606 . . . Psa7g0253 . Pste3g00262 . . . . . Pumo6g00188 . Pvu2g3271 . Rops2g00193 . Seca12g06859 . Spst3g00786 . Ssu5g3374 . Sto8g2173 . . . Trre7g05822 . . . Vian1g04100 . Vifa6g03983 . Vimu11g04787 . Viun3g00197 . . . Vra7g3157
Vvi17g0318 . . . . . Adu03g02001 Aed7g0221 Aed5g2555 Aev05g3440 . Ahy15g2763 . Aip05g03081 . . . . . Apr6g1051 Apr2g1465 . Arst5g03354 . Bach1g01504 . . Bva04g00827 Bva03g00667 . . Cca08g00242 Cca09g02713 . . Dod02g3658 . . . . . Gma07g00851 . . Gma09g01689 Gso7g0804 . . Gso7g0804 . Lal16g1004 . . Lal10g0974 . . . . . . . . Lapu3g03842 . Lasa7g05122 . . . . . . . . Lja2g2110 . . Mal8g3855 . . . . . . . Mtr6g2163 . Phac2g04784 . Phco4g03605 . . . . . Pste3g00272 . . . . . Pumo6g03024 Pvu3g0980 Pvu2g3270 . Rops2g00199 . Seca12g06858 . Spst3g00787 Ssu5g3373 Ssu5g3373 . Sto8g2172 . Tpr5g0257 . . . Tsu03g03158 . Vian1g04099 . Vifa1g07076 . Vimu11g04785 . Viun3g00198 . . Vra1g0616 Vra7g3156
Vvi17g0319 . . . . . . . . . . . . . . . . . . Apr6g1052 Apr2g1464 . Arst5g03352 . Bach1g01505 . . Bva04g00826 Bva03g00666 . . . . . . . . . . . . . . . . . . . . . . . . . Lal25g0460 . . . . . . . . . . . . . . . . . . . . . Mal8g3856 . . . . . . . Mtr6g2164 . . . Phco4g03604 . . . . . . . . . . . . Pvu3g0981 Pvu2g3269 . . . . . Spst3g00788 . . . . . Tpr5g0255 . . . Tsu03g03159 . . . . . Vimu11g04783 . . . . . .
Vvi17g0320 . . . . . . Aed7g0219 Aed5g2554 . . . . . . . . . . Apr6g1053 Apr2g1463 . . . . . . Bva04g00825 Bva03g00665 . . Cca08g00240 Cca09g02712 . . . . . . . . Gma07g00848 . . Gma09g01691 Gso7g0802 . . Gso7g0802 . Lal16g1006 . Lal8g0435 . . . . . . . . . . . . . . . . . . . . Lja2g2108 . . Mal8g3857 . . . . . . . Mtr6g2165 . . . . . . Psa1g0847 . . . . . . . . . Pvu3g0982 . . . . . . . Ssu5g3369 Ssu5g3369 . . . Tpr5g0254 . . . Tsu03g03160 . . . . . . . . . . Vra1g0614 Vra7g3154
Vvi17g0321 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0322 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Mal Mal7g5278 Chr7 122183654 122186563 -
Mtr Mtr8g3761 Chr8 48095663 48098873 +
Arst Arst5g03357 Chr5 92108760 92113867 +
Pumo Pumo6g03023 Chr6 72281553 72295302 -
Rops Rops5g00252 Chr5 3919722 3922725 +
Vvi Vvi17g0313 Chr17 3272925 3275178 -
Adu Adu05g02660 Chr05 93450182 93455573 +
Arst Arst5g03357 Chr5 92108760 92113867 +
Bva Bva03g00671 Chr03 4026882 4029118 +
Car Car08g01678 Chr08 26610277 26614507 -
Gma Gma09g01688 Chr09 42503617 42507977 -
Lapu Lapu4g00203 Chr4 2014533 2017961 +
Lja Lja2g2112 Chr2 23411308 23416369 +
Mepo Mepo7g00549 Chr7 9252166 9255028 +
Mesa Mesa22g03130 Chr22 82390348 82393678 -
Phac Phac4g02063 Chr4 47097688 47101370 -
Phco Phco5g00255 Chr5 2096591 2099645 +
Psa Psa1g0841 Chr1 56846620 56850065 +
Pste Pste9g01483 Chr9 14516754 14521598 -
Pte Pte9g00106 Chr9 1218832 1221746 +
Pumo Pumo6g03023 Chr6 72281553 72295302 -
Pvu Pvu4g1651 Chr4 43802825 43806084 -
Rops Rops5g00252 Chr5 3919722 3922725 +
Seca Seca10g04897 Chr10 113159947 113161746 -
Spst Spst4g02758 Chr4 67384861 67388714 +
Trre Trre3g03895 Chr3 49979519 49983231 -
Vian Vian8g01464 Chr8 34095923 34099993 -
Vimu Vimu8g01537 Chr8 21252815 21256947 +
Viun Viun4g00304 Chr4 1834020 1838631 +
Vvi Vvi17g0314 Chr17 3280283 3282822 -
Aed Aed7g0222 Chr7 1583599 1588002 +
Aed Aed5g2557 Chr5 26439501 26441694 +
Aev Aev05g3441 Chr05 33851234 33858480 +
Ahy Ahy15g2762 Chr15 144974391 144979475 -
Aip Aip05g03080 Chr05 133989842 133994420 -
Apr Apr6g1049 Chr6 15176243 15180124 -
Apr Apr2g1467 Chr2 20710101 20713195 +
Bva Bva04g00829 Chr04 5467045 5469924 +
Bva Bva03g00670 Chr03 4015357 4025673 +
Cca Cca08g00243 Chr08 3400885 3405658 +
Cca Cca09g02715 Chr09 52834861 52838786 +
Dod Dod02g3659 Chr02 74897175 74902213 +
Gma Gma07g00852 Chr07 9062059 9066908 +
Gso Gso7g0805 Chr7 8864068 8869244 +
Lal Lal16g1003 Chr16 6657327 6661856 -
Lal Lal10g0972 Chr10 17003005 17006546 -
Lal Lal25g0462 Chr25 3171017 3174986 +
Mal Mal8g3853 Chr8 112200358 112204460 -
Mtr Mtr6g2161 Chr6 38676563 38680333 -
Ssu Ssu5g3375 Chr5 83789398 83792402 +
Ssu Ssu5g3375 Chr5 83789398 83792402 +
Tpr Tpr5g0262 Chr5 3794524 3798461 +
Tsu Tsu03g03154 Chr03 43581779 43586716 -
Vra Vra1g0617 Chr1 7138598 7142971 +
Vra Vra7g3158 Chr7 51317690 51320758 +
Vvi Vvi17g0315 Chr17 3284712 3286199 -
Bva Bva03g00669 Chr03 4011341 4013204 +
Lal Lal8g0437 Chr8 2936695 2941188 +
Vvi Vvi17g0316 Chr17 3289985 3290370 +
Vvi Vvi17g0317 Chr17 3301532 3304116 -
Adu Adu03g02002 Chr03 36974225 36977794 -
Aed Aed5g2556 Chr5 26435341 26438277 +
Apr Apr2g1466 Chr2 20704228 20707648 +
Arst Arst3g02628 Chr3 37266762 37270429 -
Bach Bach1g01503 Chr1 28668560 28671484 -
Bva Bva04g00828 Chr04 5462585 5465936 +
Bva Bva03g00668 Chr03 4006459 4009787 +
Cca Cca09g02714 Chr09 52824015 52827308 +
Lal Lal10g0973 Chr10 17008132 17011050 -
Lal Lal25g0461 Chr25 3164814 3167735 +
Lasa Lasa7g05123 Chr7 709849810 709852686 -
Mal Mal7g5278 Chr7 122183654 122186563 -
Mepo Mepo2g04946 Chr2 57615231 57618500 -
Mtr Mtr8g3761 Chr8 48095663 48098873 +
Phac Phac2g04785 Chr2 44570652 44574101 +
Phco Phco4g03606 Chr4 55936018 55938945 +
Psa Psa7g0253 Chr7 16717311 16721091 +
Pste Pste3g00262 Chr3 1180814 1183747 -
Pumo Pumo6g00188 Chr6 2292543 2293679 -
Pvu Pvu2g3271 Chr2 47814412 47817339 +
Rops Rops2g00193 Chr2 2931542 2934714 +
Seca Seca12g06859 Chr12 160558763 160561666 -
Spst Spst3g00786 Chr3 11400254 11403178 -
Ssu Ssu5g3374 Chr5 83766853 83769783 +
Sto Sto8g2173 Chr8 14303280 14314941 +
Trre Trre7g05822 Chr7 63023484 63026390 -
Vian Vian1g04100 Chr1 64040473 64044286 +
Vifa Vifa6g03983 Chr6 1313946726 1313949584 -
Vimu Vimu11g04787 Chr11 67963797 67966724 +
Viun Viun3g00197 Chr3 1093643 1096890 -
Vra Vra7g3157 Chr7 51311055 51314366 +
Vvi Vvi17g0318 Chr17 3316558 3333287 +
Adu Adu03g02001 Chr03 36884165 36891484 -
Aed Aed7g0221 Chr7 1569913 1579155 -
Aed Aed5g2555 Chr5 26418322 26428386 -
Aev Aev05g3440 Chr05 33830847 33838736 -
Ahy Ahy15g2763 Chr15 145006066 145015169 +
Aip Aip05g03081 Chr05 134022955 134031945 +
Apr Apr6g1051 Chr6 15202951 15213630 +
Apr Apr2g1465 Chr2 20689535 20700245 -
Arst Arst5g03354 Chr5 92057447 92067046 -
Bach Bach1g01504 Chr1 28680087 28690344 +
Bva Bva04g00827 Chr04 5447883 5456425 -
Bva Bva03g00667 Chr03 3988861 3999028 -
Cca Cca08g00242 Chr08 3356101 3366029 -
Cca Cca09g02713 Chr09 52799445 52810524 -
Dod Dod02g3658 Chr02 74855696 74868818 -
Gma Gma07g00851 Chr07 9029830 9039647 -
Gma Gma09g01689 Chr09 42522057 42533044 +
Gso Gso7g0804 Chr7 8832699 8842725 -
Gso Gso7g0804 Chr7 8832699 8842725 -
Lal Lal16g1004 Chr16 6675049 6686687 +
Lal Lal10g0974 Chr10 17019905 17029145 +
Lapu Lapu3g03842 Chr3 61983634 61994426 -
Lasa Lasa7g05122 Chr7 709750116 709760802 -
Lja Lja2g2110 Chr2 23352543 23363122 -
Mal Mal8g3855 Chr8 112227889 112236408 +
Mtr Mtr6g2163 Chr6 38715261 38725039 +
Phac Phac2g04784 Chr2 44551184 44562425 -
Phco Phco4g03605 Chr4 55918522 55929130 -
Pste Pste3g00272 Chr3 1240395 1251135 +
Pumo Pumo6g03024 Chr6 72335695 72344942 +
Pvu Pvu3g0980 Chr3 19455085 19461272 +
Pvu Pvu2g3270 Chr2 47797468 47807211 -
Rops Rops2g00199 Chr2 3014471 3027746 +
Seca Seca12g06858 Chr12 160535266 160546352 -
Spst Spst3g00787 Chr3 11409767 11418066 +
Ssu Ssu5g3373 Chr5 83738513 83749011 -
Ssu Ssu5g3373 Chr5 83738513 83749011 -
Sto Sto8g2172 Chr8 14279314 14288066 -
Tpr Tpr5g0257 Chr5 3718444 3727779 -
Tsu Tsu03g03158 Chr03 43622035 43628868 +
Vian Vian1g04099 Chr1 64024027 64033369 -
Vifa Vifa1g07076 Chr1 1092573270 1092581573 -
Vimu Vimu11g04785 Chr11 67951794 67957456 -
Viun Viun3g00198 Chr3 1102735 1112752 +
Vra Vra1g0616 Chr1 7114917 7124423 -
Vra Vra7g3156 Chr7 51296190 51306083 -
Vvi Vvi17g0319 Chr17 3335302 3336197 +
Apr Apr6g1052 Chr6 15218767 15220246 +
Apr Apr2g1464 Chr2 20685068 20686333 -
Arst Arst5g03352 Chr5 92043262 92044878 -
Bach Bach1g01505 Chr1 28693494 28695395 +
Bva Bva04g00826 Chr04 5444433 5446212 -
Bva Bva03g00666 Chr03 3985635 3987242 -
Lal Lal25g0460 Chr25 3157050 3161863 -
Mal Mal8g3856 Chr8 112244928 112246438 +
Mtr Mtr6g2164 Chr6 38731550 38734243 +
Phco Phco4g03604 Chr4 55913417 55914024 -
Pvu Pvu3g0981 Chr3 19463505 19465573 +
Pvu Pvu2g3269 Chr2 47794613 47795223 -
Spst Spst3g00788 Chr3 11427920 11428535 +
Tpr Tpr5g0255 Chr5 3689193 3691484 -
Tsu Tsu03g03159 Chr03 43668774 43671005 +
Vimu Vimu11g04783 Chr11 67943584 67944679 -
Vvi Vvi17g0320 Chr17 3340206 3341555 -
Aed Aed7g0219 Chr7 1555913 1556635 +
Aed Aed5g2554 Chr5 26415780 26417198 +
Apr Apr6g1053 Chr6 15224011 15224770 -
Apr Apr2g1463 Chr2 20679278 20680065 +
Bva Bva04g00825 Chr04 5440138 5441689 +
Bva Bva03g00665 Chr03 3982405 3983130 +
Cca Cca08g00240 Chr08 3343251 3344757 +
Cca Cca09g02712 Chr09 52794686 52795402 +
Gma Gma07g00848 Chr07 9012427 9013642 +
Gma Gma09g01691 Chr09 42564163 42564903 -
Gso Gso7g0802 Chr7 8814939 8816526 +
Gso Gso7g0802 Chr7 8814939 8816526 +
Lal Lal16g1006 Chr16 6697188 6697907 -
Lal Lal8g0435 Chr8 2926585 2927283 +
Lja Lja2g2108 Chr2 23340602 23342112 +
Mal Mal8g3857 Chr8 112259601 112260338 -
Mtr Mtr6g2165 Chr6 38738651 38739894 -
Psa Psa1g0847 Chr1 57219866 57222214 -
Pvu Pvu3g0982 Chr3 19468138 19469115 -
Ssu Ssu5g3369 Chr5 83674826 83675554 +
Ssu Ssu5g3369 Chr5 83674826 83675554 +
Tpr Tpr5g0254 Chr5 3684645 3685828 +
Tsu Tsu03g03160 Chr03 43675243 43676213 -
Vra Vra1g0614 Chr1 7107534 7109313 +
Vra Vra7g3154 Chr7 51288301 51289863 +
Vvi Vvi17g0321 Chr17 3349146 3349397 -
Vvi Vvi17g0322 Chr17 3351170 3351386 -