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
Vvi4g0784 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g2856 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g1563 . . . Tsu01g03359 . . . . . . . . . . . .
Vvi4g0785 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0786 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0787 Acco10g2091 Acco05g2364 Accr4g00702 Accr3g00653 Adu08g02405 . . Aed6g1050 . . . . . . Alju08g0715 Alju07g2329 . . . Apr9g0095 Arst8g03305 . Bach12g00570 Bach3g01871 Bisa09g1301 Bisa05g1343 Bva10g00269 Bva06g02493 Car05g03041 . . Cca05g00624 Dere04g0664 Dere05g2052 . . Enph1g1453 Enph7g1035 Glsi08g1494 Glsi10g0811 Gma14g01230 Gma17g01869 . . . . . . . . . . . . . . . . . . Lapu9g01806 Lapu8g00531 Lasa5g04182 Lasa5g04182 Lele01g0568 Lele02g0562 Lele03g0574 Lele04g0581 Lele25g0541 Lele26g0558 Lele27g1535 Lele28g0548 . . Mal2g0761 . Mepo3g07530 Mepo4g00749 Mesa9g05214 Mesa1g00789 Mibi05g0635 Mibi08g2047 Mtr3g4009 . . . Phco7g00851 Phco2g00702 Prci15g0885 Prci2g0870 . . . Pste8g00517 . . . Pte2g02201 . Pumo9g00751 Pvu9g1045 Pvu1g0618 . Rops9g01799 . Seca4g00816 Spst9g00887 Spst8g01678 . Ssu5g0670 . . . . Trre5g05352 Trre1g00825 . . . Vian7g00339 . . Vimu10g02828 Vimu1g02480 . Viun8g00910 Vivi4g04957 . . Vra6g1484
Vvi4g0788 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0789 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0790 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0791 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0792 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4015 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0793 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja1g4015 Chr1 50911167 50912503 +
Aed Aed6g1050 Chr6 14924936 14926967 +
Car Car05g03041 Chr05 75267455 75269283 -
Cca Cca05g00624 Chr05 14684805 14686970 -
Gma Gma14g01230 Chr14 20031459 20034581 -
Mal Mal2g0761 Chr2 8877517 8877916 +
Mtr Mtr3g4009 Chr3 53831854 53833652 -
Ssu Ssu5g0670 Chr5 15835142 15837571 -
Vra Vra6g1484 Chr6 29446045 29448470 +
Vvi Vvi4g0784 Chr4 9060650 9111499 +
Mtr Mtr1g2856 Chr1 39746433 39749645 +
Tpr Tpr1g1563 Chr1 14469831 14473121 -
Tsu Tsu01g03359 Chr01 41578332 41581279 +
Vvi Vvi4g0785 Chr4 9132360 9137098 +
Vvi Vvi4g0786 Chr4 9139429 9153875 +
Vvi Vvi4g0787 Chr4 9363343 9364925 -
Acco Acco10g2091 Chr10 33182131 33183787 -
Acco Acco05g2364 Chr05 39431056 39432564 -
Accr Accr4g00702 Chr4 6761876 6763489 +
Accr Accr3g00653 Chr3 7337953 7339481 +
Adu Adu08g02405 Chr08 39729329 39731802 +
Aed Aed6g1050 Chr6 14924936 14926967 +
Alju Alju08g0715 Chr08 5360745 5362358 +
Alju Alju07g2329 Chr07 49100795 49102319 -
Apr Apr9g0095 Chr9 1189569 1191719 +
Arst Arst8g03305 Chr8 44094369 44096713 +
Bach Bach12g00570 Chr12 3891019 3892582 -
Bach Bach3g01871 Chr3 26859377 26861000 +
Bisa Bisa09g1301 Chr09 18737116 18738583 -
Bisa Bisa05g1343 Chr05 23706727 23708603 +
Bva Bva10g00269 Chr10 3662971 3664706 +
Bva Bva06g02493 Chr06 15830552 15831319 -
Car Car05g03041 Chr05 75267455 75269283 -
Cca Cca05g00624 Chr05 14684805 14686970 -
Dere Dere04g0664 Chr04 6606545 6608094 -
Dere Dere05g2052 Chr05 30597623 30599140 +
Enph Enph1g1453 Chr1 39916025 39918518 -
Enph Enph7g1035 Chr7 16022373 16026488 -
Glsi Glsi08g1494 Chr08 10851152 10852646 +
Glsi Glsi10g0811 Chr10 5190289 5191750 -
Gma Gma14g01230 Chr14 20031459 20034581 -
Gma Gma17g01869 Chr17 32246921 32249898 +
Lapu Lapu9g01806 Chr9 32874100 32876006 +
Lapu Lapu8g00531 Chr8 22486122 22489222 +
Lasa Lasa5g04182 Chr5 638713116 638714621 -
Lasa Lasa5g04182 Chr5 638713116 638714621 -
Lele Lele01g0568 Chr01 3361393 3362993 +
Lele Lele02g0562 Chr02 3382519 3384119 +
Lele Lele03g0574 Chr03 3392358 3393962 +
Lele Lele04g0581 Chr04 3520131 3521723 +
Lele Lele25g0541 Chr25 3447364 3448875 +
Lele Lele26g0558 Chr26 3551281 3552795 +
Lele Lele27g1535 Chr27 21247003 21248617 -
Lele Lele28g0548 Chr28 3491018 3492519 +
Mal Mal2g0761 Chr2 8877517 8877916 +
Mepo Mepo3g07530 Chr3 88665992 88667645 -
Mepo Mepo4g00749 Chr4 9927475 9930132 -
Mesa Mesa9g05214 Chr9 86903326 86905042 -
Mesa Mesa1g00789 Chr1 10249933 10252248 -
Mibi Mibi05g0635 Chr05 6132168 6133999 +
Mibi Mibi08g2047 Chr08 37737413 37739473 -
Mtr Mtr3g4009 Chr3 53831854 53833652 -
Phco Phco7g00851 Chr7 6753198 6754477 -
Phco Phco2g00702 Chr2 7219768 7222315 -
Prci Prci15g0885 Chr15 5726828 5728722 +
Prci Prci2g0870 Chr2 6564007 6565814 +
Pste Pste8g00517 Chr8 2679216 2682813 +
Pte Pte2g02201 Chr2 41862957 41865085 -
Pumo Pumo9g00751 Chr9 14615146 14617929 -
Pvu Pvu9g1045 Chr9 15494961 15496400 -
Pvu Pvu1g0618 Chr1 7241162 7243932 -
Rops Rops9g01799 Chr9 32234936 32236782 +
Seca Seca4g00816 Chr4 13578985 13581238 +
Spst Spst9g00887 Chr9 7760290 7761734 -
Spst Spst8g01678 Chr8 19619338 19621905 -
Ssu Ssu5g0670 Chr5 15835142 15837571 -
Trre Trre5g05352 Chr5 54306455 54307767 -
Trre Trre1g00825 Chr1 6258558 6261200 -
Vian Vian7g00339 Chr7 9509822 9512124 +
Vimu Vimu10g02828 Chr10 39595358 39596712 +
Vimu Vimu1g02480 Chr1 35942856 35944999 +
Viun Viun8g00910 Chr8 9262764 9265274 -
Vivi Vivi4g04957 Chr4 179692361 179694066 -
Vra Vra6g1484 Chr6 29446045 29448470 +
Vvi Vvi4g0788 Chr4 9378968 9380842 -
Vvi Vvi4g0789 Chr4 9387927 9388566 +
Vvi Vvi4g0790 Chr4 9388596 9389860 +
Vvi Vvi4g0791 Chr4 9395409 9395789 -
Vvi Vvi4g0792 Chr4 9399944 9400908 -
Lja Lja1g4015 Chr1 50911167 50912503 +
Vvi Vvi4g0793 Chr4 9409805 9411257 -
Mtr Mtr1g2856 Chr1 39746433 39749645 +
Tpr Tpr1g1563 Chr1 14469831 14473121 -
Tsu Tsu01g03359 Chr01 41578332 41581279 +