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
Vvi19g0830 . . . . . . . . Aev07g0111 Aev01g0859 Ahy17g0195 Ahy11g0509 Aip07g00137 Aip01g00505 . . . Amo11g0310 . Apr9g1859 . Arst7g00221 . . . . Bva12g02585 . Car02g02161 Car05g01185 . Cca09g01252 . . Dod08g0137 Dod05g0650 . . . . . Gma18g00684 . . . . . . Lal18g1626 . . Lal3g0763 . . Lan2g1370 . . Lan2g1370 . . . . . . . . . . . . . . Lja6g1217 . . Mal8g0188 . . . . . . . Mtr5g3452 . . . . . . . Psa2g0149 . . . . . . . . . Pvu8g0879 . . . . . . . Ssu9g1119 Sto9g2067 Sto5g1803 . . . . . Tsu05g04083 . . . . . . . . . . . .
Vvi19g0831 . . . . . . . . Aev07g0110 Aev01g0858 Ahy17g0194 Ahy11g0506 Aip07g00136 Aip01g00504 . . . Amo11g0307 . Apr9g1860 . . . . . . Bva12g02584 . . . Cca05g02047 Cca09g01253 . . Dod08g0136 Dod05g0649 . . . . Gma08g03092 Gma18g00683 Gma02g02830 Gma14g00108 Gso8g2754 Gso8g2754 Gso8g2754 Gso8g2754 Lal18g1627 . . . . . Lan2g1371 . . . . . . . . . . . . . . . . . Lja6g1216 . . Mal8g0185 . . . . . . . Mtr5g3455 . . . . . . . Psa2g0147 . . . . . . . . . . . . . . . . Ssu6g3604 Ssu9g1120 . . . . . . . Tsu05g04093 . . . . . . . . . . Vra6g0114 Vra6g0114
Vvi19g0832 . . . . . Adu07g00130 Aed3g2613 . Aev07g0109 . Ahy17g0193 . Aip07g00135 . . . . . . Apr9g1861 . Arst7g00219 . . . . . . Car02g02164 . Cca05g02048 . . . Dod08g0134 . . . . . . . Gma02g02831 Gma14g00107 . . . . Lal18g1628 . . . . . Lan2g1373 . . . . . . . . Lasa2g02373 . . . . . . . . . . . Mal8g0183 . Mepo7g02970 . Mesa17g04570 . . . Mtr5g3457 . Phac8g03777 . Phco3g00125 . . . Psa2g0140 . Pste8g00240 . . . . . . . Pvu8g2905 . . . . . Spst8g01004 Ssu6g3606 . Sto9g2069 . . . . Trre9g05248 . Tsu05g04095 . . . . . Vimu1g00271 . . . Vivi7g02521 Vra6g0113 .
Vvi19g0833 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0834 . . . . . . Aed3g2614 Aed4g2347 . Aev01g0852 Ahy17g0191 Ahy11g0505 Aip07g00133 Aip01g00503 . . . . . . . . . . . . Bva12g02582 . Car02g02166 Car05g01187 Cca05g02049 Cca09g01254 . . Dod08g0132 Dod05g0648 . . . . Gma08g03093 Gma18g00682 Gma02g02833 Gma14g00106 Gso8g2755 Gso8g2755 Gso8g2755 Gso8g2755 . . . Lal3g0758 . . . . . . . . . . . . . . . . . . . . Lja6g1215 . . Mal8g0181 . . . . . . . Mtr5g3459 . . . . . . . Psa2g0138 . . . . . . . . . . . . . . . . Ssu6g3607 Ssu9g1121 . Sto5g1801 . Tpr4g0316 . . . Tsu05g04097 . . . . . . . . . . Vra6g0111 Vra6g0111
Vvi19g0835 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g02554 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0836 . . . . . . . . . . . . . . . . . . . . Arst1g04016 . . . . . . . . Car05g01239 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1144 . Mal2g3347 . . . . . . . Mtr3g1632 . . . Phco11g01749 . . . . . Pste7g01588 . . . . . Pumo1g00665 . Pvu6g0688 . . . . . Spst6g00070 . . . . . Tpr3g3768 . . . Tsu03g00929 . Vian6g00598 . . . Vimu2g02213 . Viun6g01112 . Vivi3g04749 . . .
Vvi19g0837 . . . . . . . . . . . Ahy11g0426 . Aip01g00430 . . . Amo11g0214 . . . . . . . . . . . . . . . . . Dod05g0569 . . . . . Gma18g00613 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2132 . . . . . . . . . . . . . . . . . . .
Vvi19g0838 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0839 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g02555 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Ahy Ahy11g0426 Chr11 5816066 5818688 -
Aip Aip01g00430 Chr01 5514319 5516973 -
Amo Amo11g0214 Chr11 3232991 3235377 -
Car Car05g01239 Chr05 55631520 55634281 +
Dod Dod05g0569 Chr05 8242646 8245542 -
Gma Gma18g00613 Chr18 6014645 6017075 +
Lja Lja6g1144 Chr6 33177948 33180494 -
Mal Mal2g3347 Chr2 50212009 50213507 -
Mtr Mtr3g1632 Chr3 28324567 28327372 +
Sto Sto9g2132 Chr9 25087588 25090670 +
Tpr Tpr3g3768 Chr3 42058349 42061221 -
Tsu Tsu03g00929 Chr03 8600108 8602068 -
Bva Bva12g02555 Chr12 19043462 19046875 -
Aev Aev07g0111 Chr07 678147 680386 -
Ahy Ahy17g0195 Chr17 1939883 1942692 -
Aip Aip07g00137 Chr07 1061505 1064329 -
Dod Dod08g0137 Chr08 1555627 1558876 -
Arst Arst1g04016 Chr1 101823083 101824563 -
Vvi Vvi19g0830 Chr19 9180692 9187156 +
Aev Aev07g0111 Chr07 678147 680386 -
Aev Aev01g0859 Chr01 8384056 8385586 -
Ahy Ahy17g0195 Chr17 1939883 1942692 -
Ahy Ahy11g0509 Chr11 7487572 7491744 -
Aip Aip07g00137 Chr07 1061505 1064329 -
Aip Aip01g00505 Chr01 7108242 7112743 -
Amo Amo11g0310 Chr11 4735850 4739996 -
Apr Apr9g1859 Chr9 27306693 27308714 +
Arst Arst7g00221 Chr7 1354801 1357651 -
Bva Bva12g02585 Chr12 19203758 19207689 -
Car Car02g02161 Chr02 51816377 51820416 +
Car Car05g01185 Chr05 54624243 54631106 +
Cca Cca09g01252 Chr09 34833711 34838522 +
Dod Dod08g0137 Chr08 1555627 1558876 -
Dod Dod05g0650 Chr05 9743796 9749837 -
Gma Gma18g00684 Chr18 7035706 7043113 -
Lal Lal18g1626 Chr18 17659049 17662611 +
Lal Lal3g0763 Chr3 6584678 6592597 -
Lan Lan2g1370 Chr2 24351948 24353545 +
Lan Lan2g1370 Chr2 24351948 24353545 +
Lja Lja6g1217 Chr6 35951164 35956478 -
Mal Mal8g0188 Chr8 3010246 3016595 -
Mtr Mtr5g3452 Chr5 43372515 43378048 +
Psa Psa2g0149 Chr2 5577862 5582715 -
Pvu Pvu8g0879 Chr8 8547162 8552041 +
Ssu Ssu9g1119 Chr9 42858989 42871756 +
Sto Sto9g2067 Chr9 24585313 24588661 +
Sto Sto5g1803 Chr5 13168708 13172116 -
Tsu Tsu05g04083 Chr05 51629521 51633901 +
Vvi Vvi19g0831 Chr19 9194802 9198196 +
Aev Aev07g0110 Chr07 665994 669448 -
Aev Aev01g0858 Chr01 8357259 8361448 -
Ahy Ahy17g0194 Chr17 1923817 1927587 -
Ahy Ahy11g0506 Chr11 7430032 7434639 -
Aip Aip07g00136 Chr07 1041603 1045244 -
Aip Aip01g00504 Chr01 7032150 7036630 -
Amo Amo11g0307 Chr11 4678252 4682671 -
Apr Apr9g1860 Chr9 27316767 27320553 +
Bva Bva12g02584 Chr12 19193591 19197741 -
Cca Cca05g02047 Chr05 40232107 40235845 +
Cca Cca09g01253 Chr09 34855363 34859291 +
Dod Dod08g0136 Chr08 1545737 1547179 -
Dod Dod05g0649 Chr05 9721253 9725071 -
Gma Gma08g03092 Chr08 47609238 47613183 +
Gma Gma18g00683 Chr18 7015133 7019007 -
Gma Gma02g02830 Chr02 53799639 53802987 +
Gma Gma14g00108 Chr14 896383 899872 -
Gso Gso8g2754 Chr8 45243661 45247688 +
Gso Gso8g2754 Chr8 45243661 45247688 +
Gso Gso8g2754 Chr8 45243661 45247688 +
Gso Gso8g2754 Chr8 45243661 45247688 +
Lal Lal18g1627 Chr18 17668439 17672469 +
Lan Lan2g1371 Chr2 24360106 24364071 +
Lja Lja6g1216 Chr6 35935261 35939075 -
Mal Mal8g0185 Chr8 2970586 2973596 -
Mtr Mtr5g3455 Chr5 43406286 43409816 +
Psa Psa2g0147 Chr2 5266681 5270297 -
Ssu Ssu6g3604 Chr6 79715300 79718721 +
Ssu Ssu9g1120 Chr9 42888782 42892337 +
Tsu Tsu05g04093 Chr05 51683258 51686654 +
Vra Vra6g0114 Chr6 803285 807014 -
Vra Vra6g0114 Chr6 803285 807014 -
Vvi Vvi19g0832 Chr19 9199676 9202255 -
Adu Adu07g00130 Chr07 1184113 1187290 +
Aed Aed3g2613 Chr3 28074552 28080132 -
Aev Aev07g0109 Chr07 662210 664124 +
Ahy Ahy17g0193 Chr17 1919366 1922622 +
Aip Aip07g00135 Chr07 1037083 1040259 +
Apr Apr9g1861 Chr9 27322682 27327996 -
Arst Arst7g00219 Chr7 1335749 1338915 +
Car Car02g02164 Chr02 51845409 51850434 -
Cca Cca05g02048 Chr05 40238640 40247405 -
Dod Dod08g0134 Chr08 1536348 1541217 +
Gma Gma02g02831 Chr02 53806272 53810904 -
Gma Gma14g00107 Chr14 886422 893583 +
Lal Lal18g1628 Chr18 17673785 17681292 -
Lan Lan2g1373 Chr2 24371916 24372851 -
Lasa Lasa2g02373 Chr2 500222890 500225657 -
Mal Mal8g0183 Chr8 2961393 2965971 +
Mepo Mepo7g02970 Chr7 40664128 40669399 -
Mesa Mesa17g04570 Chr17 76916378 76924420 -
Mtr Mtr5g3457 Chr5 43415156 43421082 -
Phac Phac8g03777 Chr8 43978265 43982877 -
Phco Phco3g00125 Chr3 821633 826643 +
Psa Psa2g0140 Chr2 5213704 5216644 +
Pste Pste8g00240 Chr8 1331050 1337272 +
Pvu Pvu8g2905 Chr8 58778956 58784377 -
Spst Spst8g01004 Chr8 8719540 8729667 -
Ssu Ssu6g3606 Chr6 79730967 79731890 -
Sto Sto9g2069 Chr9 24610888 24614811 -
Trre Trre9g05248 Chr9 57508346 57511615 -
Tsu Tsu05g04095 Chr05 51690161 51694625 -
Vimu Vimu1g00271 Chr1 1580661 1584358 +
Vivi Vivi7g02521 Chr7 89143088 89146637 +
Vra Vra6g0113 Chr6 798260 802236 +
Vvi Vvi19g0833 Chr19 9205087 9208623 -
Vvi Vvi19g0834 Chr19 9231262 9237187 -
Aed Aed3g2614 Chr3 28081214 28088961 -
Aed Aed4g2347 Chr4 25881694 25889519 -
Aev Aev01g0852 Chr01 8306351 8321531 +
Ahy Ahy17g0191 Chr17 1909295 1916295 +
Ahy Ahy11g0505 Chr11 7410538 7425842 +
Aip Aip07g00133 Chr07 1026890 1034137 +
Aip Aip01g00503 Chr01 7015863 7028292 +
Bva Bva12g02582 Chr12 19182304 19190271 +
Car Car02g02166 Chr02 51853829 51862266 -
Car Car05g01187 Chr05 54652192 54660834 -
Cca Cca05g02049 Chr05 40250324 40265078 -
Cca Cca09g01254 Chr09 34863606 34874749 -
Dod Dod08g0132 Chr08 1531208 1533626 +
Dod Dod05g0648 Chr05 9701128 9717563 +
Gma Gma08g03093 Chr08 47617887 47627553 -
Gma Gma18g00682 Chr18 6994151 7004269 +
Gma Gma02g02833 Chr02 53816077 53829221 -
Gma Gma14g00106 Chr14 876065 885151 +
Gso Gso8g2755 Chr8 45252627 45262957 -
Gso Gso8g2755 Chr8 45252627 45262957 -
Gso Gso8g2755 Chr8 45252627 45262957 -
Gso Gso8g2755 Chr8 45252627 45262957 -
Lal Lal3g0758 Chr3 6547223 6556890 +
Lja Lja6g1215 Chr6 35917593 35927429 +
Mal Mal8g0181 Chr8 2923620 2930229 +
Mtr Mtr5g3459 Chr5 43424310 43433471 -
Psa Psa2g0138 Chr2 5179440 5184940 +
Ssu Ssu6g3607 Chr6 79733410 79739564 -
Ssu Ssu9g1121 Chr9 42905829 42908091 -
Sto Sto5g1801 Chr5 13141452 13151797 +
Tpr Tpr4g0316 Chr4 3152783 3159938 +
Tsu Tsu05g04097 Chr05 51698021 51704978 -
Vra Vra6g0111 Chr6 786846 795733 +
Vra Vra6g0111 Chr6 786846 795733 +
Vvi Vvi19g0835 Chr19 9245492 9250307 -
Bva Bva12g02554 Chr12 19029104 19034821 -
Vvi Vvi19g0836 Chr19 9268237 9268638 -
Arst Arst1g04016 Chr1 101823083 101824563 -
Car Car05g01239 Chr05 55631520 55634281 +
Lja Lja6g1144 Chr6 33177948 33180494 -
Mal Mal2g3347 Chr2 50212009 50213507 -
Mtr Mtr3g1632 Chr3 28324567 28327372 +
Phco Phco11g01749 Chr11 13767282 13768596 +
Pste Pste7g01588 Chr7 14625986 14628397 -
Pumo Pumo1g00665 Chr1 10157859 10160807 +
Pvu Pvu6g0688 Chr6 18400573 18403339 -
Spst Spst6g00070 Chr6 910486 911839 -
Tpr Tpr3g3768 Chr3 42058349 42061221 -
Tsu Tsu03g00929 Chr03 8600108 8602068 -
Vian Vian6g00598 Chr6 22219116 22220457 -
Vimu Vimu2g02213 Chr2 17166537 17167884 +
Viun Viun6g01112 Chr6 20473829 20476601 -
Vivi Vivi3g04749 Chr3 88682512 88685057 +
Vvi Vvi19g0837 Chr19 9307511 9308113 -
Ahy Ahy11g0426 Chr11 5816066 5818688 -
Aip Aip01g00430 Chr01 5514319 5516973 -
Amo Amo11g0214 Chr11 3232991 3235377 -
Dod Dod05g0569 Chr05 8242646 8245542 -
Gma Gma18g00613 Chr18 6014645 6017075 +
Sto Sto9g2132 Chr9 25087588 25090670 +
Vvi Vvi19g0838 Chr19 9346610 9346837 +
Vvi Vvi19g0839 Chr19 9349488 9350972 -
Bva Bva12g02555 Chr12 19043462 19046875 -