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
Vvi16g1109 . . . . . . . Aed11g1775 Aev08g0832 . Ahy17g2646 . Aip07g02868 . . . . . Apr1g0705 . . . . . . . Bva12g01983 . . . . Cca06g01849 . . . . . . . . Gma16g00238 . . . Gso16g0218 . . . . Lal4g0469 . . . . . . . . . . . . . . . . . . . . . . Lja1g4885 . . . . . . . . . . . . . . . . . Psa5g1863 . . . . . . . . . . . . . . . . . . Ssu2g2936 Sto9g2780 . . . . . . . . . . . . . . . . . . Vra11g0231
Vvi16g1110 . . . . . . . . Aev08g0831 . Ahy17g2645 . Aip07g02867 . . . Amo17g2550 . Apr1g0704 . . . . . . . Bva12g01982 . . . . . . . . . . . . . . . . . . . . . . Lal4g0470 . . . . . . . . . . . . . . . . . . . . . . Lja1g4884 . . . . . . . . . . . . . . . . . Psa5g1862 . . . . . . . . . . . . . . . . . . . . Sto5g1235 . . . . . . . . . . . . . . . . . .
Vvi16g1111 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1112 . . . . Adu08g00501 . . . Aev08g0830 . Ahy17g2642 Ahy16g2761 Aip07g02862 Aip06g03106 . . Amo17g2542 Amo16g3527 Apr1g0703 . Arst8g00641 . Bach12g00921 . . . Bva12g01981 Bva06g02920 . . . . . . . . . . . . . . . . . . . . . Lal4g0471 . . . . . . . . . . Lapu9g01413 . Lasa5g02924 . . . . . . . . . Lja1g4883 Lja1g5765 . . Mepo3g06475 . . . . . . . . . Phco7g01351 . . . Psa5g1861 Psa6g0891 Pste2g03312 . . . . . Pumo10g01337 . Pvu9g1389 . Rops10g02006 . Seca4g02458 . . . . . Sto9g2778 Sto5g1236 . . . . . . Vian4g01448 . Vifa2g02800 . Vimu10g02380 . Viun9g02280 . . . . .
Vvi16g1113 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1114 . . . . . . . . . . . Ahy16g2762 . Aip06g03107 . . . Amo16g3528 . . . . . . . . . . . . . . . . . Dod08g1460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste2g03412 . . . . . . . Pvu9g0565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1115 . . . . Adu03g01802 . . . . . . Ahy16g2763 . Aip06g03109 . . . Amo16g3529 . . . . . . . . . . . . . . . . . Dod08g1461 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo1g02961 . . . . . . . Phac11g02477 . Phco9g01837 . . . . . . . . Pte17g00474 . . . . Pvu11g1710 . . . . . . . . . . . . . . . . . . . . . Vimu5g00518 . . . . . . .
Vvi16g1116 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1117 . . . . . . . . . . . Ahy16g2764 . Aip06g03110 . . . Amo16g3530 . . . . . . . . . . . . . . . . . Dod08g1462 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pte3g00227 . . . . . Pvu9g0563 . . . . . . . . . Sto9g2772 . . . . . . . . . . . . . . . . . . .
Vvi16g1118 . . . . . . . . . . . . . . . . . . . . . . Bach12g00958 . . . . . . . . . . . . . . . . . Gma16g00230 . . . Gso16g0210 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4877 . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu9g0562 . . . . . . . . . . Sto5g1240 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aed Aed11g1775 Chr11 21155026 21156374 -
Cca Cca06g01849 Chr06 33886761 33887991 -
Ssu Ssu2g2936 Chr2 90739366 90740947 -
Vra Vra11g0231 Chr11 1555970 1557541 +
Ahy Ahy16g2762 Chr16 140513560 140519625 -
Aip Aip06g03107 Chr06 126400047 126406065 -
Amo Amo16g3528 Chr16 145111644 145117418 -
Dod Dod08g1460 Chr08 29287990 29294390 -
Gma Gma16g00230 Chr16 2489515 2492319 +
Gma Gma16g00238 Chr16 2573087 2576271 +
Vvi Vvi16g1109 Chr16 19477466 19479547 -
Aed Aed11g1775 Chr11 21155026 21156374 -
Aev Aev08g0832 Chr08 4869731 4871214 +
Ahy Ahy17g2646 Chr17 123364369 123366056 +
Aip Aip07g02868 Chr07 114587019 114588502 +
Apr Apr1g0705 Chr1 8417409 8419187 +
Bva Bva12g01983 Chr12 15713752 15715770 +
Cca Cca06g01849 Chr06 33886761 33887991 -
Gma Gma16g00238 Chr16 2573087 2576271 +
Gso Gso16g0218 Chr16 2548225 2551457 +
Lal Lal4g0469 Chr4 3303151 3305538 -
Lja Lja1g4885 Chr1 66890087 66892601 +
Psa Psa5g1863 Chr5 142533767 142536029 +
Ssu Ssu2g2936 Chr2 90739366 90740947 -
Sto Sto9g2780 Chr9 29531052 29532229 +
Vra Vra11g0231 Chr11 1555970 1557541 +
Vvi Vvi16g1110 Chr16 19489752 19492125 +
Aev Aev08g0831 Chr08 4859655 4862425 -
Ahy Ahy17g2645 Chr17 123344397 123349640 -
Aip Aip07g02867 Chr07 114567266 114571661 -
Amo Amo17g2550 Chr17 124070610 124075724 -
Apr Apr1g0704 Chr1 8406846 8410458 -
Bva Bva12g01982 Chr12 15705604 15709530 -
Lal Lal4g0470 Chr4 3314512 3318272 +
Lja Lja1g4884 Chr1 66854554 66858123 -
Psa Psa5g1862 Chr5 142471492 142476082 -
Sto Sto5g1235 Chr5 8314462 8317589 +
Vvi Vvi16g1111 Chr16 19493018 19495820 -
Vvi Vvi16g1112 Chr16 19513014 19514617 +
Adu Adu08g00501 Chr08 8973627 8975906 +
Aev Aev08g0830 Chr08 4839523 4841320 -
Ahy Ahy17g2642 Chr17 123218255 123219850 -
Ahy Ahy16g2761 Chr16 140501572 140504931 +
Aip Aip07g02862 Chr07 114446786 114448431 -
Aip Aip06g03106 Chr06 126388458 126391806 +
Amo Amo17g2542 Chr17 123952022 123953720 -
Amo Amo16g3527 Chr16 145099472 145103054 +
Apr Apr1g0703 Chr1 8388028 8390122 -
Arst Arst8g00641 Chr8 8945432 8947547 +
Bach Bach12g00921 Chr12 6539074 6541149 -
Bva Bva12g01981 Chr12 15688856 15690787 -
Bva Bva06g02920 Chr06 18216227 18218546 -
Lal Lal4g0471 Chr4 3325715 3327718 +
Lapu Lapu9g01413 Chr9 28351294 28357682 +
Lasa Lasa5g02924 Chr5 518044671 518046218 -
Lja Lja1g4883 Chr1 66786106 66788380 -
Lja Lja1g5765 Chr1 102517758 102520376 +
Mepo Mepo3g06475 Chr3 78702195 78704588 -
Phco Phco7g01351 Chr7 12234798 12239255 -
Psa Psa5g1861 Chr5 142452198 142454021 -
Psa Psa6g0891 Chr6 33083940 33085748 -
Pste Pste2g03312 Chr2 33154370 33157981 -
Pumo Pumo10g01337 Chr10 17739971 17742721 -
Pvu Pvu9g1389 Chr9 19791712 19794523 -
Rops Rops10g02006 Chr10 36582518 36585682 -
Seca Seca4g02458 Chr4 42010920 42014894 -
Sto Sto9g2778 Chr9 29507394 29508842 -
Sto Sto5g1236 Chr5 8340544 8341848 +
Vian Vian4g01448 Chr4 29031227 29033444 +
Vifa Vifa2g02800 Chr2 779157735 779159139 +
Vimu Vimu10g02380 Chr10 34686398 34687329 -
Viun Viun9g02280 Chr9 32172938 32175607 +
Vvi Vvi16g1113 Chr16 19516022 19518211 -
Vvi Vvi16g1114 Chr16 19519695 19527452 -
Ahy Ahy16g2762 Chr16 140513560 140519625 -
Aip Aip06g03107 Chr06 126400047 126406065 -
Amo Amo16g3528 Chr16 145111644 145117418 -
Dod Dod08g1460 Chr08 29287990 29294390 -
Pste Pste2g03412 Chr2 34396295 34402297 -
Pvu Pvu9g0565 Chr9 10166590 10173555 +
Vvi Vvi16g1115 Chr16 19544237 19551085 +
Adu Adu03g01802 Chr03 30915625 30921016 +
Ahy Ahy16g2763 Chr16 140548574 140555217 +
Aip Aip06g03109 Chr06 126432912 126438244 +
Amo Amo16g3529 Chr16 145146718 145153330 +
Dod Dod08g1461 Chr08 29335615 29342822 +
Mepo Mepo1g02961 Chr1 32770232 32773555 -
Phac Phac11g02477 Chr11 35761941 35763146 -
Phco Phco9g01837 Chr9 42737411 42741351 -
Pte Pte17g00474 Chr17 6379934 6383376 -
Pvu Pvu11g1710 Chr11 43286866 43290903 -
Vimu Vimu5g00518 Chr5 5394083 5394544 +
Vvi Vvi16g1116 Chr16 19553643 19559744 -
Vvi Vvi16g1117 Chr16 19570195 19572540 +
Ahy Ahy16g2764 Chr16 140572101 140575121 +
Aip Aip06g03110 Chr06 126457382 126459604 +
Amo Amo16g3530 Chr16 145170697 145173409 +
Dod Dod08g1462 Chr08 29379467 29382096 +
Pte Pte3g00227 Chr3 1967137 1970348 +
Pvu Pvu9g0563 Chr9 10147853 10152663 -
Sto Sto9g2772 Chr9 29468771 29473858 +
Vvi Vvi16g1118 Chr16 19585122 19587018 +
Bach Bach12g00958 Chr12 6787569 6790089 -
Gma Gma16g00230 Chr16 2489515 2492319 +
Gso Gso16g0210 Chr16 2464183 2469964 +
Lja Lja1g4877 Chr1 66668963 66672061 +
Pvu Pvu9g0562 Chr9 10121719 10130321 -
Sto Sto5g1240 Chr5 8370354 8372576 -
Ahy Ahy16g2763 Chr16 140548574 140555217 +
Aip Aip06g03109 Chr06 126432912 126438244 +
Amo Amo16g3529 Chr16 145146718 145153330 +
Dod Dod08g1461 Chr08 29335615 29342822 +
Adu Adu08g00501 Chr08 8973627 8975906 +
Ahy Ahy16g2761 Chr16 140501572 140504931 +
Aip Aip06g03106 Chr06 126388458 126391806 +
Amo Amo16g3527 Chr16 145099472 145103054 +
Arst Arst8g00641 Chr8 8945432 8947547 +
Bach Bach12g00921 Chr12 6539074 6541149 -
Bva Bva06g02920 Chr06 18216227 18218546 -
Lapu Lapu9g01413 Chr9 28351294 28357682 +
Lasa Lasa5g02924 Chr5 518044671 518046218 -
Mepo Mepo3g06475 Chr3 78702195 78704588 -
Phco Phco7g01351 Chr7 12234798 12239255 -
Psa Psa6g0891 Chr6 33083940 33085748 -
Pste Pste2g03312 Chr2 33154370 33157981 -
Pumo Pumo10g01337 Chr10 17739971 17742721 -
Pvu Pvu9g1389 Chr9 19791712 19794523 -
Rops Rops10g02006 Chr10 36582518 36585682 -
Seca Seca4g02458 Chr4 42010920 42014894 -
Vian Vian4g01448 Chr4 29031227 29033444 +
Vifa Vifa2g02800 Chr2 779157735 779159139 +
Vimu Vimu10g02380 Chr10 34686398 34687329 -
Viun Viun9g02280 Chr9 32172938 32175607 +
Adu Adu03g01802 Chr03 30915625 30921016 +
Mepo Mepo1g02961 Chr1 32770232 32773555 -
Phac Phac11g02477 Chr11 35761941 35763146 -
Phco Phco9g01837 Chr9 42737411 42741351 -
Pte Pte17g00474 Chr17 6379934 6383376 -
Pvu Pvu11g1710 Chr11 43286866 43290903 -
Vimu Vimu5g00518 Chr5 5394083 5394544 +