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
Vvi16g1049 . . . . . . . . . . . . . . . . . . . Apr6g0303 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco5g01525 . . . . . Pste9g00280 . . . . . . . Pvu4g0487 . . . . . . . . . . . . . . . . . . . . . Vimu8g00688 . . . . . . .
Vvi16g1050 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1051 . . . . . . Aed1g2323 . . . . . . . . . . . . . . . . . . . . . . . Cca02g02198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu7g0849 . . . . . . . . . . . . . . . . . . . Vra8g2179 .
Vvi16g1052 . . . . . . . . . . . . . . . . . . . Apr6g0301 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g1890 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1053 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca02g02195 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1055 . . . . . . . . . Aev09g2167 . Ahy19g3596 . Aip09g04055 . . . . Apr1g0708 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g2121 . . . . . . . Mtr1g3684 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu01g04351 . . . . . . . . . . . . .
Vvi16g1056 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1057 . . . . . . . . . . . . . . . . . . . . Arst5g04434 . . . . . . . . . Cca02g02193 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco5g00823 . . . . . . . . . . . . . Pvu4g1101 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1058 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vra Vra8g2179 Chr8 40158051 40162504 -
Arst Arst5g04434 Chr5 105638821 105644171 +
Phco Phco5g00823 Chr5 10099490 10101838 +
Pvu Pvu4g1101 Chr4 32683594 32685287 -
Vvi Vvi16g1049 Chr16 18849598 18853118 +
Apr Apr6g0303 Chr6 3177384 3179567 +
Phco Phco5g01525 Chr5 51066947 51069865 -
Pste Pste9g00280 Chr9 1287474 1294855 +
Pvu Pvu4g0487 Chr4 5047070 5050384 +
Vimu Vimu8g00688 Chr8 13627993 13641932 -
Vvi Vvi16g1050 Chr16 18855546 18856034 +
Vvi Vvi16g1051 Chr16 18856483 18860368 +
Aed Aed1g2323 Chr1 19273287 19274375 +
Cca Cca02g02198 Chr02 42486545 42490314 -
Ssu Ssu7g0849 Chr7 17110625 17117472 +
Vra Vra8g2179 Chr8 40158051 40162504 -
Vvi Vvi16g1052 Chr16 18879627 18886900 +
Apr Apr6g0301 Chr6 3136373 3146501 +
Psa Psa5g1890 Chr5 146058028 146060457 -
Vvi Vvi16g1053 Chr16 18887041 18887384 +
Vvi Vvi16g1054 Chr16 18902562 18905654 +
Cca Cca02g02195 Chr02 42468646 42471269 +
Vvi Vvi16g1055 Chr16 18910683 18911407 +
Aev Aev09g2167 Chr09 24601816 24605392 -
Ahy Ahy19g3596 Chr19 158555950 158559777 -
Aip Aip09g04055 Chr09 146804839 146808516 -
Apr Apr1g0708 Chr1 8469255 8470467 -
Mal Mal1g2121 Chr1 27733173 27737537 +
Mtr Mtr1g3684 Chr1 48522570 48526858 -
Tsu Tsu01g04351 Chr01 51445395 51449317 -
Vvi Vvi16g1056 Chr16 18911455 18911766 +
Vvi Vvi16g1057 Chr16 18944487 18946301 +
Arst Arst5g04434 Chr5 105638821 105644171 +
Cca Cca02g02193 Chr02 42451867 42454543 +
Phco Phco5g00823 Chr5 10099490 10101838 +
Pvu Pvu4g1101 Chr4 32683594 32685287 -
Vvi Vvi16g1058 Chr16 18965534 18966019 +
Mal Mal1g2121 Chr1 27733173 27737537 +
Mtr Mtr1g3684 Chr1 48522570 48526858 -
Tsu Tsu01g04351 Chr01 51445395 51449317 -