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
Vvi4g0214 . . . . . . . . Aev07g1284 . Ahy16g3257 . Aip06g03503 . . . . . . . . . . . . . . . . . . . . . Dod08g1808 . . . . . Gma14g00970 Gma17g02104 . . Gso14g0918 Gso14g0918 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0561 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0215 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0216 . . . . . . . . . . . . Aip06g03502 . . . . . . . . . . . . . Bva10g00477 . . Car04g03254 . Cca05g00450 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2937 . . . . . . . . . Mtr1g0316 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0497 . Sto9g3383 . Tpr1g3493 . . . Tsu01g00598 . . . . . . . . . . . .
Vvi4g0217 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0218 . . . . . . . . . . . Ahy18g2532 . Aip08g02920 . . . . . . . . . . . . . . Car05g03038 . . . . . . Dod09g1016 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0766 . . . . . . . Mtr3g4007 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0506 . . . . . . . . . . . . . . . . .
Vvi4g0219 . Acco05g2360 . Accr3g00655 . Adu06g02731 . . Aev07g1239 . Ahy16g3028 . Aip06g03249 . . Alju07g2326 . . . Apr9g0096 . Arst6g03541 . Bach3g01873 . Bisa05g1345 . . . Car04g03096 . Cca05g00622 . Dere05g2054 Dod08g1582 . . Enph7g1033 . Glsi10g0808 Gma14g01226 . . . . . . . . . . . Lal8g1526 . . . . . . . . . . Lasa5g04181 . . . . Lele25g0544 Lele26g0560 Lele27g1533 Lele28g0550 . Lja5g2163 . . . Mepo4g00743 . Mesa1g00786 . Mibi08g2045 . . . . . Phco2g00693 . Prci2g0871 . Psa6g0753 . Pste8g00535 . . Pte3g01058 Pte2g02199 . . . Pvu1g0613 . . . . . Spst8g01672 . Ssu5g0669 . . . . . Trre1g00823 . . . . . . . Vimu1g02484 . . . Vivi4g04966 . Vra6g1485
Vvi4g0220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0221 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0222 . Acco05g2356 . Accr3g00657 . . . Aed6g1053 . . . . . . . Alju07g2323 . . . Apr9g0100 . . . . . Bisa05g1347 . . . Car04g03098 . Cca05g00620 . Dere05g2057 . . . Enph7g1031 . Glsi10g0805 Gma14g01222 . . . . . . . . . . . . . . . . . . . . . . Lasa6g00691 . . . . Lele25g0547 Lele26g0563 Lele27g1530 Lele28g0553 . . . . . Mepo4g00742 . Mesa1g00781 . Mibi08g2042 . . . . . Phco2g00691 . Prci2g0875 . Psa6g0755 . Pste8g00541 . . . . . Pumo9g00748 . Pvu1g0611 . Rops9g01803 . . . Spst8g01671 . Ssu5g0667 . . . . . Trre1g00821 . . . Vian7g00342 . Vifa3g04444 . Vimu1g02485 . . . Vivi4g04967 . .
Vvi4g0223 . . . . . . . . . . . Ahy18g2534 . Aip08g02921 . . . Amo18g3319 . . . . . . . . . . Car05g03037 . . . . . . Dod09g1014 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0768 . . . . . . . Mtr3g4005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0508 . . . Tsu07g00542 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0214 Chr4 1889536 1891770 -
Aev Aev07g1284 Chr07 11525390 11528463 -
Ahy Ahy16g3257 Chr16 149179885 149182772 +
Aip Aip06g03503 Chr06 132179309 132181732 +
Dod Dod08g1808 Chr08 42570932 42574576 +
Gma Gma14g00970 Chr14 11347012 11350371 +
Gma Gma17g02104 Chr17 38423226 38426337 -
Gso Gso14g0918 Chr14 11275096 11278221 +
Gso Gso14g0918 Chr14 11275096 11278221 +
Psa Psa6g0561 Chr6 18979453 18981515 -
Vvi Vvi4g0215 Chr4 1897381 1899020 +
Vvi Vvi4g0216 Chr4 1899475 1900382 -
Aip Aip06g03502 Chr06 132175552 132178331 +
Bva Bva10g00477 Chr10 4751362 4753673 +
Car Car04g03254 Chr04 60947126 60950443 +
Cca Cca05g00450 Chr05 9772304 9775330 +
Lja Lja5g2937 Chr5 57782128 57785069 +
Mtr Mtr1g0316 Chr1 3573859 3577581 +
Ssu Ssu5g0497 Chr5 10526086 10528938 +
Sto Sto9g3383 Chr9 33590997 33593283 +
Tpr Tpr1g3493 Chr1 39124828 39127989 +
Tsu Tsu01g00598 Chr01 5269486 5272447 -
Vvi Vvi4g0217 Chr4 1904131 1909484 +
Vvi Vvi4g0218 Chr4 1910470 1911341 -
Ahy Ahy18g2532 Chr18 126881633 126884476 +
Aip Aip08g02920 Chr08 117430464 117433266 +
Car Car05g03038 Chr05 75242821 75246246 -
Dod Dod09g1016 Chr09 30535308 30537761 -
Mal Mal2g0766 Chr2 8924082 8927068 +
Mtr Mtr3g4007 Chr3 53803157 53807500 -
Tpr Tpr7g0506 Chr7 4275755 4279936 +
Vvi Vvi4g0219 Chr4 1913863 1923695 -
Acco Acco05g2360 Chr05 39399557 39400539 -
Accr Accr3g00655 Chr3 7366091 7367084 +
Adu Adu06g02731 Chr06 104124688 104126111 +
Aev Aev07g1239 Chr07 10946619 10948673 +
Ahy Ahy16g3028 Chr16 145533744 145537054 +
Aip Aip06g03249 Chr06 128712737 128715387 +
Alju Alju07g2326 Chr07 49076144 49077132 -
Apr Apr9g0096 Chr9 1196174 1200084 +
Arst Arst6g03541 Chr6 103319144 103320517 +
Bach Bach3g01873 Chr3 26872820 26874273 +
Bisa Bisa05g1345 Chr05 23788052 23789008 +
Car Car04g03096 Chr04 59094117 59096747 +
Cca Cca05g00622 Chr05 14590996 14593014 -
Dere Dere05g2054 Chr05 30612509 30613501 +
Dod Dod08g1582 Chr08 36572648 36575849 +
Enph Enph7g1033 Chr7 15999224 16001678 -
Glsi Glsi10g0808 Chr10 5179075 5180150 -
Gma Gma14g01226 Chr14 19923803 19926185 -
Lal Lal8g1526 Chr8 19591987 19594047 +
Lasa Lasa5g04181 Chr5 638537755 638538601 -
Lele Lele25g0544 Chr25 3465940 3466908 +
Lele Lele26g0560 Chr26 3570828 3571795 +
Lele Lele27g1533 Chr27 21229242 21230222 -
Lele Lele28g0550 Chr28 3506078 3507025 +
Lja Lja5g2163 Chr5 33779776 33786871 -
Mepo Mepo4g00743 Chr4 9888224 9889578 -
Mesa Mesa1g00786 Chr1 10212984 10214067 -
Mibi Mibi08g2045 Chr08 37695173 37696102 -
Phco Phco2g00693 Chr2 7082986 7083895 +
Prci Prci2g0871 Chr2 6592264 6593607 +
Psa Psa6g0753 Chr6 26592505 26595561 +
Pste Pste8g00535 Chr8 2753793 2755893 -
Pte Pte3g01058 Chr3 9015578 9016755 +
Pte Pte2g02199 Chr2 41850613 41852469 -
Pvu Pvu1g0613 Chr1 7141255 7142679 +
Spst Spst8g01672 Chr8 19506828 19507744 +
Ssu Ssu5g0669 Chr5 15781688 15785170 -
Trre Trre1g00823 Chr1 6232272 6233383 -
Vimu Vimu1g02484 Chr1 36050977 36051797 -
Vivi Vivi4g04966 Chr4 179863883 179865142 +
Vra Vra6g1485 Chr6 29505650 29508435 +
Vvi Vvi4g0220 Chr4 1931740 1932162 -
Vvi Vvi4g0221 Chr4 1932863 1933986 -
Vvi Vvi4g0222 Chr4 1940914 1949481 -
Acco Acco05g2356 Chr05 39384896 39390829 -
Accr Accr3g00657 Chr3 7379927 7384329 +
Aed Aed6g1053 Chr6 14996283 15002016 +
Alju Alju07g2323 Chr07 49050043 49054548 -
Apr Apr9g0100 Chr9 1222253 1233600 +
Bisa Bisa05g1347 Chr05 23832817 23838130 +
Car Car04g03098 Chr04 59114373 59123088 +
Cca Cca05g00620 Chr05 14541387 14570171 -
Dere Dere05g2057 Chr05 30673698 30678765 +
Enph Enph7g1031 Chr7 15987887 15997927 -
Glsi Glsi10g0805 Chr10 5162360 5167769 -
Gma Gma14g01222 Chr14 19841518 19850666 -
Lasa Lasa6g00691 Chr6 23913340 23918601 -
Lele Lele25g0547 Chr25 3475106 3479426 +
Lele Lele26g0563 Chr26 3576790 3582398 +
Lele Lele27g1530 Chr27 21218235 21222487 -
Lele Lele28g0553 Chr28 3513344 3517742 +
Mepo Mepo4g00742 Chr4 9877954 9884185 -
Mesa Mesa1g00781 Chr1 10180997 10186094 -
Mibi Mibi08g2042 Chr08 37681563 37686094 -
Phco Phco2g00691 Chr2 7058881 7068149 -
Prci Prci2g0875 Chr2 6603769 6610373 +
Psa Psa6g0755 Chr6 26719397 26728542 +
Pste Pste8g00541 Chr8 2806659 2822597 +
Pumo Pumo9g00748 Chr9 14543607 14558758 -
Pvu Pvu1g0611 Chr1 7107835 7117449 -
Rops Rops9g01803 Chr9 32335829 32346207 +
Spst Spst8g01671 Chr8 19493666 19499391 -
Ssu Ssu5g0667 Chr5 15676681 15690726 -
Trre Trre1g00821 Chr1 6222508 6228905 -
Vian Vian7g00342 Chr7 9635418 9649092 +
Vifa Vifa3g04444 Chr3 1272594792 1272598078 +
Vimu Vimu1g02485 Chr1 36077802 36091075 +
Vivi Vivi4g04967 Chr4 179880964 179886643 +
Vvi Vvi4g0223 Chr4 1954099 1957566 +
Ahy Ahy18g2534 Chr18 126896875 126897990 -
Aip Aip08g02921 Chr08 117446535 117448038 -
Amo Amo18g3319 Chr18 134577958 134579748 -
Car Car05g03037 Chr05 75235445 75237380 +
Dod Dod09g1014 Chr09 30530450 30532760 +
Mal Mal2g0768 Chr2 8932923 8933969 -
Mtr Mtr3g4005 Chr3 53795864 53797656 +
Tpr Tpr7g0508 Chr7 4286666 4289236 -
Tsu Tsu07g00542 Chr07 4226569 4228660 -