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
Vvi16g1299 . . . . . . . . Aev08g0767 . Ahy17g2548 . Aip07g02735 . . . Amo17g2447 . Apr1g0635 . . . . . . . Bva12g01913 Bva06g03008 . . . . . . . . . . . . . . . . . . . . Lal17g0587 Lal4g0514 Lal21g0580 . . . Lan15g0657 Lan15g0657 Lan15g0657 . . . . . . . . . . . . . . . Lja1g4776 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2714 . . . . . . . . . . . . . . . . . . .
Vvi16g1300 . . . . . . . . . . Ahy17g2549 . Aip07g02736 . . . Amo17g2448 . Apr1g0636 . . . . . . . Bva12g01914 Bva06g03007 . . . . . . . . . . . . . . . . . . . . . . Lal21g0579 . . . . . . . . . . . . . . . . . . . . . Lja1g4778 . . . . . . . . . . . . . . . . . Psa5g1748 . . . . . . . . . . . . . . . . . . . Sto9g2715 . . . . . . . . . . . . . . . . . . .
Vvi16g1301 . . . . . . . . Aev08g0768 . Ahy17g2551 . Aip07g02738 . . . . . Apr1g0637 . . . . . . . Bva12g01915 . . . . . . . . . . . . . . . . . . . . . Lal17g0586 . . . . . Lan15g0658 . . . . . . . . . . . . . . . . . Lja1g4780 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1314 . . . . . . . . . . . . . . . . . .
Vvi16g1302 . . . . . . . . Aev08g0769 . Ahy17g2553 . Aip07g02742 . . . Amo17g2454 . Apr1g0638 . . . . . . . . Bva06g03005 . . . . . . . . . . . . . . . . . . . . . Lal4g0513 Lal21g0578 . . . . . . . . . . . . . . . . . . . . . Lja1g4784 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2717 Sto5g1312 . . . . . . . . . . . . . . . . . .
Vvi16g1303 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1304 . . . . . . . . . . . . . . . . . . Apr1g0640 . . . . . . . Bva12g01916 Bva06g03004 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4788 . . . . . . . . . . . . . . . . . Psa5g1754 . . . . . . . . . . . . . . . . . . . Sto9g2718 . . . . . . . . . . . . . . . . . . .
Vvi16g1305 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1306 . . . . . . . . . . . . . . . . . . Apr1g0641 . . . . . . . Bva12g01917 Bva06g03003 . . . . . . . . . . . . . . . . . . . . Lal17g0585 Lal4g0511 . . . . Lan15g0659 Lan15g0659 . . . . . . . . . . . . . . . . Lja1g4789 . . . . . . . . . . . . . . . . . Psa5g1756 . . . . . . . . . . . . . . . . . . . Sto9g2720 . . . . . . . . . . . . . . . . . . .
Vvi16g1307 . . . . . . . . Aev08g0773 . Ahy17g2555 . Aip07g02744 . . . Amo17g2456 . . . . . . . . . Bva12g01919 Bva06g03002 . . . . . . . . . . . . . . . . . . . . . Lal4g0509 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1311 . . . . . . . . . . . . . . . . . .
Vvi16g1308 . . . . . . . . . . . . . . . . . . Apr1g0643 . . . . . . . Bva12g01921 . . . . . . . . . . . . . . . . . . . . . Lal17g0584 . . . . . Lan15g0660 . . . . . . . . . . . . . . . . . Lja1g4790 . . . . . . . . . . . . . . . . . Psa5g1759 . . . . . . . . . . . . . . . . . . . Sto9g2722 Sto5g1310 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g1299 Chr16 21544218 21547961 +
Aev Aev08g0767 Chr08 4410990 4414212 +
Ahy Ahy17g2548 Chr17 120850014 120854055 +
Aip Aip07g02735 Chr07 112218110 112220436 +
Amo Amo17g2447 Chr17 121640742 121644786 +
Apr Apr1g0635 Chr1 7633347 7638078 +
Bva Bva12g01913 Chr12 15292561 15297484 +
Bva Bva06g03008 Chr06 18708217 18713106 -
Lal Lal17g0587 Chr17 4195729 4206702 -
Lal Lal4g0514 Chr4 3725070 3730318 -
Lal Lal21g0580 Chr21 4321034 4326219 -
Lan Lan15g0657 Chr15 15141586 15145883 +
Lan Lan15g0657 Chr15 15141586 15145883 +
Lan Lan15g0657 Chr15 15141586 15145883 +
Lja Lja1g4776 Chr1 64614485 64619795 +
Sto Sto9g2714 Chr9 29071859 29076279 +
Vvi Vvi16g1300 Chr16 21549290 21553364 -
Ahy Ahy17g2549 Chr17 120855033 120856552 -
Aip Aip07g02736 Chr07 112221740 112224833 -
Amo Amo17g2448 Chr17 121645826 121647283 -
Apr Apr1g0636 Chr1 7639825 7643259 -
Bva Bva12g01914 Chr12 15297988 15300327 -
Bva Bva06g03007 Chr06 18706146 18707645 +
Lal Lal21g0579 Chr21 4315320 4317102 +
Lja Lja1g4778 Chr1 64654620 64657074 -
Psa Psa5g1748 Chr5 135472322 135473910 +
Sto Sto9g2715 Chr9 29077241 29079017 -
Vvi Vvi16g1301 Chr16 21554672 21568905 -
Aev Aev08g0768 Chr08 4415289 4429359 -
Ahy Ahy17g2551 Chr17 120877839 120889531 -
Aip Aip07g02738 Chr07 112244143 112254086 -
Apr Apr1g0637 Chr1 7642001 7658207 -
Bva Bva12g01915 Chr12 15300730 15312718 -
Lal Lal17g0586 Chr17 4188127 4203489 +
Lan Lan15g0658 Chr15 15147359 15165381 -
Lja Lja1g4780 Chr1 64665996 64679491 -
Sto Sto5g1314 Chr5 8981526 8991080 +
Vvi Vvi16g1302 Chr16 21583560 21588492 +
Aev Aev08g0769 Chr08 4439690 4443369 +
Ahy Ahy17g2553 Chr17 120980408 120984513 +
Aip Aip07g02742 Chr07 112353907 112357337 +
Amo Amo17g2454 Chr17 121774305 121775306 +
Apr Apr1g0638 Chr1 7677502 7683292 +
Bva Bva06g03005 Chr06 18694332 18698829 -
Lal Lal4g0513 Chr4 3717148 3723115 -
Lal Lal21g0578 Chr21 4302119 4313134 -
Lja Lja1g4784 Chr1 64766257 64770002 +
Sto Sto9g2717 Chr9 29085602 29089408 +
Sto Sto5g1312 Chr5 8954551 8957951 -
Vvi Vvi16g1303 Chr16 21594665 21594883 -
Vvi Vvi16g1304 Chr16 21600143 21602405 -
Apr Apr1g0640 Chr1 7689912 7693558 -
Bva Bva12g01916 Chr12 15315099 15318275 -
Bva Bva06g03004 Chr06 18689427 18693429 +
Lja Lja1g4788 Chr1 64794515 64799022 -
Psa Psa5g1754 Chr5 135983349 135987402 -
Sto Sto9g2718 Chr9 29090080 29092963 -
Vvi Vvi16g1305 Chr16 21607168 21608186 -
Vvi Vvi16g1306 Chr16 21608209 21615189 -
Apr Apr1g0641 Chr1 7707602 7713684 -
Bva Bva12g01917 Chr12 15318948 15323502 -
Bva Bva06g03003 Chr06 18680844 18686244 +
Lal Lal17g0585 Chr17 4176836 4183508 +
Lal Lal4g0511 Chr4 3705211 3715970 +
Lan Lan15g0659 Chr15 15173967 15179196 -
Lan Lan15g0659 Chr15 15173967 15179196 -
Lja Lja1g4789 Chr1 64824667 64838289 -
Psa Psa5g1756 Chr5 136040788 136046878 -
Sto Sto9g2720 Chr9 29101001 29106002 -
Vvi Vvi16g1307 Chr16 21618155 21619392 +
Aev Aev08g0773 Chr08 4459164 4460631 +
Ahy Ahy17g2555 Chr17 120989604 120991906 +
Aip Aip07g02744 Chr07 112362293 112364653 +
Amo Amo17g2456 Chr17 121780558 121782923 +
Bva Bva12g01919 Chr12 15324460 15326138 +
Bva Bva06g03002 Chr06 18677625 18679366 -
Lal Lal4g0509 Chr4 3692244 3694429 -
Sto Sto5g1311 Chr5 8951295 8952902 -
Vvi Vvi16g1308 Chr16 21621859 21623043 +
Apr Apr1g0643 Chr1 7716504 7719080 +
Bva Bva12g01921 Chr12 15328113 15330394 +
Lal Lal17g0584 Chr17 4172182 4175196 -
Lan Lan15g0660 Chr15 15181419 15185121 +
Lja Lja1g4790 Chr1 64848088 64850520 +
Psa Psa5g1759 Chr5 136123624 136126801 +
Sto Sto9g2722 Chr9 29110835 29112161 +
Sto Sto5g1310 Chr5 8947263 8948941 -
Lal Lal4g0511 Chr4 3705211 3715970 +