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
Vvi16g0759 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0760 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0761 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0762 . . . . . . . . . . . . . . . . . . . Apr6g0770 . . . . . . . . . . . . . . . . . . . . Gma16g01636 . . . Gso16g1602 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2508 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0763 . . . . . . . . . . . . . . . . . . . Apr6g0769 . . . . . . . . . . . . . . . . . . . . Gma16g01635 . . . Gso16g1601 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0764 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0766 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0767 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0768 . . . . Adu05g03281 . . . . . . . . . . . . . . . Arst5g04165 . Bach1g01229 . . . Bva03g01467 . . . . . . . . . . . . . Gma09g01423 . . . Gso9g1223 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2417 . . Mal6g0157 Mepo7g01158 . Mesa22g02385 . . . . Mtr5g0332 . . Phco5g00606 . . . . . Pste9g01236 . . . . . . . Pvu4g1302 . . . . . Spst4g03102 . . . . Sto8g3578 . Tpr2g3838 Trre11g01418 . . Tsu05g00313 . . . . Vimu8g01950 . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Mal Mal6g0157 Chr6 2244670 2249540 -
Mtr Mtr5g0332 Chr5 3120096 3124495 +
Tpr Tpr2g3838 Chr2 41145757 41150887 -
Tsu Tsu05g00313 Chr05 2339779 2345210 +
Vvi Vvi16g0759 Chr16 15357230 15359385 -
Vvi Vvi16g0760 Chr16 15372419 15372634 +
Vvi Vvi16g0761 Chr16 15378970 15379712 -
Vvi Vvi16g0762 Chr16 15385324 15386478 -
Apr Apr6g0770 Chr6 12015363 12017988 +
Gma Gma16g01636 Chr16 37294201 37297187 +
Gso Gso16g1602 Chr16 36607628 36610634 +
Lja Lja2g2508 Chr2 32473312 32476132 +
Vvi Vvi16g0763 Chr16 15417191 15418684 -
Apr Apr6g0769 Chr6 12005925 12011154 +
Gma Gma16g01635 Chr16 37284003 37290402 +
Gso Gso16g1601 Chr16 36597384 36603838 +
Vvi Vvi16g0764 Chr16 15440509 15440760 +
Vvi Vvi16g0765 Chr16 15445031 15445504 -
Vvi Vvi16g0766 Chr16 15463870 15464340 -
Vvi Vvi16g0767 Chr16 15466153 15466356 -
Vvi Vvi16g0768 Chr16 15476652 15482836 -
Adu Adu05g03281 Chr05 105141986 105146294 -
Arst Arst5g04165 Chr5 103817752 103822055 -
Bach Bach1g01229 Chr1 25659129 25665514 +
Bva Bva03g01467 Chr03 13916859 13922337 +
Gma Gma09g01423 Chr09 38424528 38430518 +
Gso Gso9g1223 Chr9 35206964 35213139 +
Lja Lja2g2417 Chr2 29855218 29861227 +
Mal Mal6g0157 Chr6 2244670 2249540 -
Mepo Mepo7g01158 Chr7 18131709 18138991 -
Mesa Mesa22g02385 Chr22 61111367 61117664 +
Mtr Mtr5g0332 Chr5 3120096 3124495 +
Phco Phco5g00606 Chr5 5902367 5908712 -
Pste Pste9g01236 Chr9 10509392 10514836 +
Pvu Pvu4g1302 Chr4 39489170 39495716 +
Spst Spst4g03102 Chr4 70401555 70406920 -
Sto Sto8g3578 Chr8 32977548 32988284 -
Tpr Tpr2g3838 Chr2 41145757 41150887 -
Trre Trre11g01418 Chr11 13856699 13862001 +
Tsu Tsu05g00313 Chr05 2339779 2345210 +
Vimu Vimu8g01950 Chr8 25262612 25266520 -