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
Vvi4g0894 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0895 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2368 . . . . . . . . . . . . . . . . . .
Vvi4g0896 . . . . . . . Aed3g2008 . . . . . . . . . . . . . . Bach3g01069 . . . Bva13g01362 . . . . Cca05g01419 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01015 . . . . . . . . . . . Lja1g3077 . . . . . . . . . . . . . . . . . . . Pste8g01522 . . Pte8g00600 . . . . Pvu8g2472 . . . . . Spst1g02296 . . Ssu6g2841 . . . . . . . . . . . . Vimu1g01150 . . . . . . Vra6g0753
Vvi4g0897 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0898 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0899 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0900 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g1287 . . . . . . . Mtr1g2814 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g1598 . . . Tsu01g03304 . . . . . . . . . . . .
Vvi4g0901 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03502 Bva04g03430 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g1626 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0902 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0903 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0894 Chr4 13618566 13620032 -
Vvi Vvi4g0895 Chr4 13620285 13635377 +
Sto Sto9g2368 Chr9 26883219 26885794 -
Vvi Vvi4g0896 Chr4 13641255 13649842 -
Aed Aed3g2008 Chr3 24151674 24158425 +
Bach Bach3g01069 Chr3 21070971 21076667 -
Bva Bva13g01362 Chr13 7102502 7107962 +
Cca Cca05g01419 Chr05 32677065 32683607 +
Lapu Lapu6g01015 Chr6 10247881 10254268 +
Lja Lja1g3077 Chr1 37352362 37365518 -
Pste Pste8g01522 Chr8 8463979 8470167 -
Pte Pte8g00600 Chr8 28533368 28537057 +
Pvu Pvu8g2472 Chr8 55324221 55326586 -
Spst Spst1g02296 Chr1 31649533 31654227 -
Ssu Ssu6g2841 Chr6 65918438 65923477 +
Vimu Vimu1g01150 Chr1 8805789 8810579 -
Vra Vra6g0753 Chr6 7280766 7286643 -
Vvi Vvi4g0897 Chr4 13912800 13914134 -
Vvi Vvi4g0898 Chr4 13932136 13938005 +
Vvi Vvi4g0899 Chr4 13963109 13964647 -
Vvi Vvi4g0900 Chr4 13975066 13983461 -
Mal Mal1g1287 Chr1 16424710 16428217 -
Mtr Mtr1g2814 Chr1 39307641 39311142 -
Tpr Tpr1g1598 Chr1 14905905 14922671 +
Tsu Tsu01g03304 Chr01 40922643 40925789 -
Vvi Vvi4g0901 Chr4 13993214 14018111 -
Bva Bva13g03502 Chr13 23804727 23806599 +
Bva Bva04g03430 Chr04 27260022 27263047 +
Lja Lja5g1626 Chr5 17465014 17468214 +
Vvi Vvi4g0902 Chr4 14052084 14053985 +
Vvi Vvi4g0903 Chr4 14057810 14059841 +
Lja Lja1g3077 Chr1 37352362 37365518 -