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
Vvi2g0102 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu10g00485 . . . . . . . . . . . . . . . . . Mesa29g04943 . . . . . . . Phco1g00289 . . . . . Pste6g00961 . . . . . . . Pvu10g1460 . . . . . Spst4g03314 . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0103 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0104 . . . . . . . . . . . . . . . . . . . . . . . . . Bisa06g1748 . . . . . . . Dere11g1542 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mesa29g04939 . . . . . . . . . . . . . . . . . . . . . Pvu10g1459 . . . . . Spst4g03315 . . . . . . . . . . . . . . . Vimu11g02940 . . . . . .
Vvi2g0105 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma08g00195 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3150 . . . . . . . . . . . . . . . . . . .
Vvi2g0106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0107 . . . . . Adu09g00448 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mesa29g04936 . . . . . . . . . . . . . Pste6g00966 . . . . . . . Pvu10g1456 . . . . . Spst4g03317 . . . . . . . . . . . Vian9g00247 . . . Vimu11g02945 . . . . . .
Vvi2g0108 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0109 . . Accr9g00890 . Adu03g02694 . . . . Aev03g3122 . Ahy13g2752 . Aip03g03082 . . . . Apr7g0547 Apr2g1254 Arst3g03569 . Bach4g00073 . . . Bva08g00083 Bva11g02190 Car08g00194 Car06g00471 Cca06g01836 . . . . . Enph13g1460 . Glsi05g2163 . . . Gma05g02088 . . . . . . Lal16g0084 Lal23g0421 Lal15g1429 Lal16g1171 . . . . . . . Lapu3g03639 . Lasa7g04834 . Lele49g0713 Lele50g0750 Lele51g0733 Lele52g0736 . . . . Lja4g0361 Lja4g0361 Mal6g0245 Mal7g5007 Mepo2g04694 . Mesa13g00422 . . . Mtr5g0261 Mtr8g3524 Phac2g04449 . Phco4g03360 . . . Psa2g4205 Psa7g0651 Pste3g00885 . . . . . Pumo6g00438 . Pvu2g3040 . Rops2g00486 . Seca12g06560 . Spst3g01037 . Ssu2g2917 . Sto6g3149 . Tpr2g3902 Tpr3g0588 Trre7g05524 . Tsu05g00240 Tsu02g00395 Vian1g03884 . Vifa6g03633 . Vimu11g04487 . Viun3g00503 . Vivi5g06022 . . .
Vvi2g0110 . . . . Adu05g01101 . Aed11g1760 . . . . . . . . . . . Apr7g0546 . Arst5g01394 . Bach4g00072 . . . Bva08g00082 . Car08g00193 . Cca06g01837 . . . . . . . . . . Gma11g00175 . . . . . . . . . . . Lal23g1548 . . . . . . . . Lasa2g02745 . . . . . . . . . . . Mal6g0246 . Mepo5g00310 . Mesa17g00305 . . . Mtr5g0260 . Phac2g00364 . Phco4g00262 . . . Psa2g4214 . Pste1g00193 . Pte14g01319 . . . Pumo8g02379 . Pvu2g1669 . . . Seca10g00290 . Spst2g00261 . Ssu2g2918 . Sto6g3148 . Tpr2g3903 . Trre9g00323 . Tsu05g00239 . Vian10g00219 . . . Vimu7g02408 . Viun2g02647 . Vivi2g06104 . Vra11g0240 .
Vvi2g0111 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0102 Chr2 888236 894005 -
Lapu Lapu10g00485 Chr10 7204868 7227160 +
Mesa Mesa29g04943 Chr29 81562558 81567785 +
Phco Phco1g00289 Chr1 2101731 2110421 -
Pste Pste6g00961 Chr6 3816958 3820291 -
Pvu Pvu10g1460 Chr10 41243349 41247151 +
Spst Spst4g03314 Chr4 73018787 73024762 +
Vvi Vvi2g0103 Chr2 894591 895747 +
Vvi Vvi2g0104 Chr2 899960 913105 -
Bisa Bisa06g1748 Chr06 58327299 58335458 +
Dere Dere11g1542 Chr11 28299068 28299444 +
Mesa Mesa29g04939 Chr29 81511846 81516913 -
Pvu Pvu10g1459 Chr10 41242229 41242682 +
Spst Spst4g03315 Chr4 73026828 73031932 -
Vimu Vimu11g02940 Chr11 49148694 49154933 +
Vvi Vvi2g0105 Chr2 915291 916006 -
Gma Gma08g00195 Chr08 1706108 1708848 -
Sto Sto6g3150 Chr6 38200349 38203359 +
Vvi Vvi2g0106 Chr2 916178 923605 -
Vvi Vvi2g0107 Chr2 933403 947137 -
Adu Adu09g00448 Chr09 5164042 5170871 -
Mesa Mesa29g04936 Chr29 81480922 81485188 +
Pste Pste6g00966 Chr6 3838624 3859840 -
Pvu Pvu10g1456 Chr10 41227980 41231649 +
Spst Spst4g03317 Chr4 73052371 73060481 +
Vian Vian9g00247 Chr9 2075844 2077202 -
Vimu Vimu11g02945 Chr11 49187351 49193535 -
Vvi Vvi2g0108 Chr2 953146 960480 -
Vvi Vvi2g0109 Chr2 970476 973938 -
Accr Accr9g00890 Chr9 10541777 10544633 -
Adu Adu03g02694 Chr03 96859835 96862249 +
Aev Aev03g3122 Chr03 29859750 29862484 -
Ahy Ahy13g2752 Chr13 105160041 105162272 +
Aip Aip03g03082 Chr03 96720644 96722464 +
Apr Apr7g0547 Chr7 11899722 11903709 +
Apr Apr2g1254 Chr2 18797039 18800223 -
Arst Arst3g03569 Chr3 95723396 95725586 +
Bach Bach4g00073 Chr4 506692 509906 +
Bva Bva08g00083 Chr08 430964 434499 +
Bva Bva11g02190 Chr11 17858570 17862174 -
Car Car08g00194 Chr08 1523423 1527974 +
Car Car06g00471 Chr06 4743408 4746931 +
Cca Cca06g01836 Chr06 33756276 33760976 -
Enph Enph13g1460 Chr13 20163641 20167322 -
Glsi Glsi05g2163 Chr05 68033114 68036071 -
Gma Gma05g02088 Chr05 42154760 42172095 -
Lal Lal16g0084 Chr16 507391 510794 +
Lal Lal23g0421 Chr23 6851877 6854791 -
Lal Lal15g1429 Chr15 16417328 16426397 -
Lal Lal16g1171 Chr16 8022469 8025617 +
Lapu Lapu3g03639 Chr3 59868546 59873289 -
Lasa Lasa7g04834 Chr7 689975160 689977914 -
Lele Lele49g0713 Chr49 4324625 4328175 -
Lele Lele50g0750 Chr50 4620501 4623240 -
Lele Lele51g0733 Chr51 4422197 4426696 -
Lele Lele52g0736 Chr52 4666871 4669628 -
Lja Lja4g0361 Chr4 2870522 2874265 +
Lja Lja4g0361 Chr4 2870522 2874265 +
Mal Mal6g0245 Chr6 3426254 3431046 -
Mal Mal7g5007 Chr7 119221984 119225288 -
Mepo Mepo2g04694 Chr2 55306333 55310337 -
Mesa Mesa13g00422 Chr13 4882044 4885574 +
Mtr Mtr5g0261 Chr5 2432166 2436490 +
Mtr Mtr8g3524 Chr8 45853291 45857520 -
Phac Phac2g04449 Chr2 42509498 42512352 -
Phco Phco4g03360 Chr4 54032081 54035536 -
Psa Psa2g4205 Chr2 422713896 422718616 +
Psa Psa7g0651 Chr7 43719072 43722269 +
Pste Pste3g00885 Chr3 5506765 5512613 +
Pumo Pumo6g00438 Chr6 5474657 5477751 +
Pvu Pvu2g3040 Chr2 45897279 45901901 -
Rops Rops2g00486 Chr2 6967994 6971311 +
Seca Seca12g06560 Chr12 157719530 157723230 -
Spst Spst3g01037 Chr3 13688661 13697235 +
Ssu Ssu2g2917 Chr2 90492212 90495886 -
Sto Sto6g3149 Chr6 38195889 38198715 +
Tpr Tpr2g3902 Chr2 41747115 41751863 -
Tpr Tpr3g0588 Chr3 5778705 5782509 +
Trre Trre7g05524 Chr7 60984577 60988046 -
Tsu Tsu05g00240 Chr05 1763801 1768139 +
Tsu Tsu02g00395 Chr02 3263670 3267322 +
Vian Vian1g03884 Chr1 61982419 61987743 -
Vifa Vifa6g03633 Chr6 1197207903 1197211234 -
Vimu Vimu11g04487 Chr11 65882698 65885499 -
Viun Viun3g00503 Chr3 2956002 2959902 +
Vivi Vivi5g06022 Chr5 164905620 164908966 -
Vvi Vvi2g0110 Chr2 978588 986669 +
Adu Adu05g01101 Chr05 14935819 14940208 +
Aed Aed11g1760 Chr11 21068227 21074555 +
Apr Apr7g0546 Chr7 11884197 11891492 -
Arst Arst5g01394 Chr5 14987082 14991543 +
Bach Bach4g00072 Chr4 499848 504441 -
Bva Bva08g00082 Chr08 424492 429477 -
Car Car08g00193 Chr08 1509578 1516132 -
Cca Cca06g01837 Chr06 33766919 33771585 +
Gma Gma11g00175 Chr11 1362435 1372080 -
Lal Lal23g1548 Chr23 15575260 15580239 +
Lasa Lasa2g02745 Chr2 509451176 509457680 -
Mal Mal6g0246 Chr6 3435371 3441280 +
Mepo Mepo5g00310 Chr5 2730025 2737338 -
Mesa Mesa17g00305 Chr17 3270825 3277217 -
Mtr Mtr5g0260 Chr5 2415935 2423973 -
Phac Phac2g00364 Chr2 1825732 1831092 -
Phco Phco4g00262 Chr4 1656646 1660806 -
Psa Psa2g4214 Chr2 423045834 423053227 +
Pste Pste1g00193 Chr1 706997 709180 +
Pte Pte14g01319 Chr14 34343054 34347953 -
Pumo Pumo8g02379 Chr8 61000262 61005263 +
Pvu Pvu2g1669 Chr2 30400494 30405307 +
Seca Seca10g00290 Chr10 2513157 2517952 -
Spst Spst2g00261 Chr2 1991434 1995957 -
Ssu Ssu2g2918 Chr2 90506830 90511763 +
Sto Sto6g3148 Chr6 38189386 38194312 -
Tpr Tpr2g3903 Chr2 41753654 41765563 +
Trre Trre9g00323 Chr9 2323431 2328264 -
Tsu Tsu05g00239 Chr05 1752670 1758514 -
Vian Vian10g00219 Chr10 1924946 1928487 -
Vimu Vimu7g02408 Chr7 20624699 20628748 -
Viun Viun2g02647 Chr2 32137322 32142222 +
Vivi Vivi2g06104 Chr2 194720981 194727654 -
Vra Vra11g0240 Chr11 1630037 1635080 -
Vvi Vvi2g0111 Chr2 990820 995989 +
Adu Adu05g01101 Chr05 14935819 14940208 +
Aed Aed11g1760 Chr11 21068227 21074555 +
Apr Apr7g0546 Chr7 11884197 11891492 -
Arst Arst5g01394 Chr5 14987082 14991543 +
Bach Bach4g00072 Chr4 499848 504441 -
Bva Bva08g00082 Chr08 424492 429477 -
Car Car08g00193 Chr08 1509578 1516132 -
Cca Cca06g01837 Chr06 33766919 33771585 +
Gma Gma11g00175 Chr11 1362435 1372080 -
Lal Lal23g1548 Chr23 15575260 15580239 +
Lasa Lasa2g02745 Chr2 509451176 509457680 -
Mal Mal6g0246 Chr6 3435371 3441280 +
Mepo Mepo5g00310 Chr5 2730025 2737338 -
Mesa Mesa17g00305 Chr17 3270825 3277217 -
Mtr Mtr5g0260 Chr5 2415935 2423973 -
Phac Phac2g00364 Chr2 1825732 1831092 -
Phco Phco4g00262 Chr4 1656646 1660806 -
Psa Psa2g4214 Chr2 423045834 423053227 +
Pste Pste1g00193 Chr1 706997 709180 +
Pte Pte14g01319 Chr14 34343054 34347953 -
Pumo Pumo8g02379 Chr8 61000262 61005263 +
Pvu Pvu2g1669 Chr2 30400494 30405307 +
Seca Seca10g00290 Chr10 2513157 2517952 -
Spst Spst2g00261 Chr2 1991434 1995957 -
Ssu Ssu2g2918 Chr2 90506830 90511763 +
Tpr Tpr2g3903 Chr2 41753654 41765563 +
Trre Trre9g00323 Chr9 2323431 2328264 -
Tsu Tsu05g00239 Chr05 1752670 1758514 -
Vian Vian10g00219 Chr10 1924946 1928487 -
Vimu Vimu7g02408 Chr7 20624699 20628748 -
Viun Viun2g02647 Chr2 32137322 32142222 +
Vivi Vivi2g06104 Chr2 194720981 194727654 -
Vra Vra11g0240 Chr11 1630037 1635080 -
Pste Pste1g00193 Chr1 706997 709180 +
Vivi Vivi2g06104 Chr2 194720981 194727654 -