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
Vvi16g0649 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0650 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0651 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0652 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0653 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0654 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0655 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00264 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g2447 . . . . . . . . . . . . . . . . . . .
Vvi16g0656 . . . . Adu03g01034 . Aed1g2189 . Aev04g3747 . Ahy13g1264 . Aip03g01383 . . . Amo13g1633 . Apr5g0673 . Arst3g01330 . Bach9g01874 . . . . Bva07g00263 . Car06g03127 Cca02g02332 . . . Dod03g2491 . . . . . Gma10g02295 . . . Gso10g2165 . . . . . Lal9g0017 . . . . . . . . . Lapu11g01121 . Lasa7g00901 . . . . . . . . . Lja3g0041 . Mal1g0801 . . . . . . . Mtr1g3839 . . . Phco9g00081 . . . . . Pste1g00226 . . . . . Pumo11g02285 . Pvu11g0045 . Rops3g00064 . Seca6g00098 . Spst2g02978 . Ssu7g0697 . . . Tpr1g0668 . . . Tsu01g04509 . Vian5g01865 . . . Vimu5g02837 . Viun11g03014 . Vivi7g05009 . Vra8g2311 .
Vvi16g0657 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0658 . . . . . . . . Aev04g3748 Aev05g0903 Ahy13g1265 Ahy15g0963 Aip03g01384 Aip05g00993 . . Amo13g1634 . Apr5g0674 . . . . . . . . . . . Cca04g00044 . . . Dod03g2489 Dod02g1008 . . . . Gma09g02136 . . . Gso9g1913 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0073 . Mal6g1613 . . . . . . . Mtr5g0385 . . . . . . Psa2g4086 . . . . . . . . . . . . . . . . . Ssu3g3309 . . Sto4g2516 . Tpr2g3798 . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev05g0903 Chr05 6378094 6379434 +
Ahy Ahy15g0963 Chr15 14570602 14572272 -
Aip Aip05g00993 Chr05 14085418 14088820 -
Dod Dod02g1008 Chr02 12766326 12768860 +
Lja Lja2g0073 Chr2 544696 546591 -
Mal Mal6g1613 Chr6 29988015 29990014 +
Mtr Mtr5g0385 Chr5 3536362 3538865 -
Psa Psa2g4086 Chr2 418676903 418679633 +
Tpr Tpr2g3798 Chr2 40871099 40872787 +
Vvi Vvi16g0649 Chr16 13353545 13353745 +
Vvi Vvi16g0650 Chr16 13353853 13358244 -
Vvi Vvi16g0651 Chr16 13376054 13376343 -
Vvi Vvi16g0652 Chr16 13378319 13382498 +
Vvi Vvi16g0653 Chr16 13389627 13390119 -
Vvi Vvi16g0654 Chr16 13397151 13399143 +
Vvi Vvi16g0655 Chr16 13400395 13400953 +
Bva Bva07g00264 Chr07 3866382 3868303 -
Sto Sto7g2447 Chr7 29954351 29955910 +
Vvi Vvi16g0656 Chr16 13411903 13412949 -
Adu Adu03g01034 Chr03 10787689 10788941 -
Aed Aed1g2189 Chr1 18285923 18288812 -
Aev Aev04g3747 Chr04 34761734 34762744 -
Ahy Ahy13g1264 Chr13 14827830 14829439 -
Aip Aip03g01383 Chr03 14311233 14312487 -
Amo Amo13g1633 Chr13 22281122 22282670 -
Apr Apr5g0673 Chr5 9224844 9226154 -
Arst Arst3g01330 Chr3 11217861 11219390 -
Bach Bach9g01874 Chr9 26849070 26850116 +
Bva Bva07g00263 Chr07 3857009 3858088 +
Car Car06g03127 Chr06 56881293 56882712 -
Cca Cca02g02332 Chr02 44091691 44094341 +
Dod Dod03g2491 Chr03 56424028 56424351 +
Gma Gma10g02295 Chr10 50550889 50553708 +
Gso Gso10g2165 Chr10 48677731 48680548 +
Lal Lal9g0017 Chr9 93826 94824 +
Lapu Lapu11g01121 Chr11 13281643 13283005 -
Lasa Lasa7g00901 Chr7 94727934 94728983 +
Lja Lja3g0041 Chr3 462124 463527 +
Mal Mal1g0801 Chr1 9579066 9582383 -
Mtr Mtr1g3839 Chr1 49974289 49986361 +
Phco Phco9g00081 Chr9 546221 547267 +
Pste Pste1g00226 Chr1 802836 803843 +
Pumo Pumo11g02285 Chr11 55433742 55435086 -
Pvu Pvu11g0045 Chr11 328771 330869 +
Rops Rops3g00064 Chr3 822988 824004 +
Seca Seca6g00098 Chr6 2501597 2502649 +
Spst Spst2g02978 Chr2 29524982 29526031 -
Ssu Ssu7g0697 Chr7 14086369 14088644 -
Tpr Tpr1g0668 Chr1 5617697 5624356 -
Tsu Tsu01g04509 Chr01 52693051 52699375 +
Vian Vian5g01865 Chr5 40732728 40733771 -
Vimu Vimu5g02837 Chr5 37639663 37641026 -
Viun Viun11g03014 Chr11 41377030 41378353 -
Vivi Vivi7g05009 Chr7 134250066 134251427 +
Vra Vra8g2311 Chr8 41353819 41356593 +
Vvi Vvi16g0657 Chr16 13451181 13454808 +
Vvi Vvi16g0658 Chr16 13468258 13469484 +
Aev Aev04g3748 Chr04 34765323 34766594 +
Aev Aev05g0903 Chr05 6378094 6379434 +
Ahy Ahy13g1265 Chr13 14856798 14859141 +
Ahy Ahy15g0963 Chr15 14570602 14572272 -
Aip Aip03g01384 Chr03 14337014 14339334 +
Aip Aip05g00993 Chr05 14085418 14088820 -
Amo Amo13g1634 Chr13 22294869 22296979 +
Apr Apr5g0674 Chr5 9230892 9232919 +
Cca Cca04g00044 Chr04 430827 432220 -
Dod Dod03g2489 Chr03 56413612 56418787 -
Dod Dod02g1008 Chr02 12766326 12768860 +
Gma Gma09g02136 Chr09 46879326 46882600 +
Gso Gso9g1913 Chr9 43495803 43500235 +
Lja Lja2g0073 Chr2 544696 546591 -
Mal Mal6g1613 Chr6 29988015 29990014 +
Mtr Mtr5g0385 Chr5 3536362 3538865 -
Psa Psa2g4086 Chr2 418676903 418679633 +
Ssu Ssu3g3309 Chr3 89740802 89742067 +
Sto Sto4g2516 Chr4 26530294 26537114 +
Tpr Tpr2g3798 Chr2 40871099 40872787 +