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
Vvi4g0954 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0955 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g03444 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0956 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0957 . . . . . Adu06g00239 . . . . . . . . . . . . . . . Arst6g00334 . . . . Bva13g03518 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01984 . . . . . . . . . . . . . . . Mepo3g04164 . Mesa25g00127 . . . . . . . Phco11g01285 . . . . . Pste5g03386 . . . . . Pumo5g03853 . Pvu6g1135 . Rops8g04184 . Seca2g05506 . Spst6g00528 . . . . . . . Trre13g05304 . . . Vian6g01014 . . . Vimu2g01606 . Viun6g01708 . Vivi6g05181 . .
Vvi4g0958 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0959 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0960 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03520 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g1636 . Mal1g1272 . . . . . . . Mtr1g2798 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g1613 . . . Tsu01g03267 . . . . . . . . . . . .
Vvi4g0961 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0962 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0963 . . . . . Adu06g00233 . . . . . . . . . . . . . . . . . . . . Bva13g03523 Bva04g03447 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco11g01279 . . . . . . . . . . . Pumo5g03856 . Pvu6g1139 . Rops8g04195 . . . . . . . . . . . Trre13g05307 . . . Vian6g01018 . . . Vimu2g01598 . Viun6g01714 . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0954 Chr4 15645934 15646649 +
Vvi Vvi4g0955 Chr4 15655478 15656628 -
Bva Bva04g03444 Chr04 27366110 27368837 +
Vvi Vvi4g0956 Chr4 15677780 15678497 -
Vvi Vvi4g0957 Chr4 15682355 15686989 +
Adu Adu06g00239 Chr06 2891556 2893597 +
Arst Arst6g00334 Chr6 2944323 2946369 +
Bva Bva13g03518 Chr13 23875248 23878119 -
Lapu Lapu6g01984 Chr6 19611649 19616402 +
Mepo Mepo3g04164 Chr3 50771154 50774891 -
Mesa Mesa25g00127 Chr25 1370478 1374101 +
Phco Phco11g01285 Chr11 9603677 9606616 +
Pste Pste5g03386 Chr5 27258576 27262059 -
Pumo Pumo5g03853 Chr5 88573643 88577185 -
Pvu Pvu6g1135 Chr6 22488320 22492102 -
Rops Rops8g04184 Chr8 84330082 84337404 -
Seca Seca2g05506 Chr2 141570592 141573294 -
Spst Spst6g00528 Chr6 4875154 4878096 -
Trre Trre13g05304 Chr13 58158928 58162137 -
Vian Vian6g01014 Chr6 27457915 27460784 -
Vimu Vimu2g01606 Chr2 11279993 11281530 +
Viun Viun6g01708 Chr6 24720561 24723990 -
Vivi Vivi6g05181 Chr6 156225759 156229230 -
Vvi Vvi4g0958 Chr4 15696534 15697619 +
Vvi Vvi4g0959 Chr4 15699468 15703202 -
Vvi Vvi4g0960 Chr4 15711212 15713817 -
Bva Bva13g03520 Chr13 23881903 23884485 -
Lja Lja5g1636 Chr5 17561910 17565674 -
Mal Mal1g1272 Chr1 16203719 16206721 +
Mtr Mtr1g2798 Chr1 39166359 39170102 +
Tpr Tpr1g1613 Chr1 15119076 15127293 -
Tsu Tsu01g03267 Chr01 40493886 40497062 +
Vvi Vvi4g0961 Chr4 15718682 15718936 +
Vvi Vvi4g0962 Chr4 15730953 15732239 +
Vvi Vvi4g0963 Chr4 15764692 15766500 +
Adu Adu06g00233 Chr06 2842785 2844593 -
Bva Bva13g03523 Chr13 23891932 23896559 +
Bva Bva04g03447 Chr04 27376390 27380117 +
Phco Phco11g01279 Chr11 9578119 9579948 -
Pumo Pumo5g03856 Chr5 88629862 88634122 +
Pvu Pvu6g1139 Chr6 22511681 22516087 +
Rops Rops8g04195 Chr8 84375608 84379648 +
Trre Trre13g05307 Chr13 58170985 58178706 +
Vian Vian6g01018 Chr6 27483905 27485734 +
Vimu Vimu2g01598 Chr2 11237377 11242403 -
Viun Viun6g01714 Chr6 24755032 24764360 +
Adu Adu06g00233 Chr06 2842785 2844593 -
Bva Bva13g03523 Chr13 23891932 23896559 +
Bva Bva04g03447 Chr04 27376390 27380117 +
Phco Phco11g01279 Chr11 9578119 9579948 -
Pumo Pumo5g03856 Chr5 88629862 88634122 +
Pvu Pvu6g1139 Chr6 22511681 22516087 +
Rops Rops8g04195 Chr8 84375608 84379648 +
Trre Trre13g05307 Chr13 58170985 58178706 +
Vian Vian6g01018 Chr6 27483905 27485734 +
Vimu Vimu2g01598 Chr2 11237377 11242403 -
Viun Viun6g01714 Chr6 24755032 24764360 +