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
Vvi3g0893 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0894 . . . . . . . . . . . . Aip10g00598 . . . Amo20g0767 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0895 . . . . . . . . . . Ahy20g0600 . Aip10g00600 . . . Amo20g0765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g2839 . . . . . . . . . . . . . . . . . . .
Vvi3g0896 . . . . . . . . . . Ahy20g0629 . Aip10g00633 . . . . . . . . . . . . . . . . . . . . . Dod03g0280 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g2839 . . . . . . . . . . . . . . . . . . .
Vvi3g0897 . . . . . . . . Aev04g0716 . . . Aip10g00634 . . . Amo20g0725 . . . . . . . . . . . . . . . . . Dod03g0279 . . . . . Gma15g00595 . . . Gso15g0538 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0898 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car01g00212 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g2838 . . . . . . . . . . . . . . . . . . .
Vvi3g0899 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0900 . . . . . . . . . . Ahy20g0631 . Aip10g00637 . . . . . . . . . . . . . . . . . . . . . Dod03g0277 . . . . . Gma15g00593 . . . Gso15g0537 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0901 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0902 . . . . . . . . . . Ahy20g0633 . Aip10g00639 . . . . . . . . . . . . . . Bva14g01164 . Car01g00211 . . . . Dod03g0275 . . . . . . Gma13g02240 . . . . . . . . . . . . . . . . . . Lapu6g01106 . Lasa1g00238 . . . . . . . . . . . . . Mepo6g00234 . Mesa5g04426 . . . . . Phac6g02900 . Phco11g00233 . . . . . . . . . . . Pumo2g01022 . Pvu6g2090 . Rops11g00320 . Seca6g05090 . Spst6g00604 . . . . . . . Trre3g00257 . . . Vian6g01931 . Vifa1g10714 . Vimu2g00464 . Viun6g03007 . Vivi1g08549 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0893 Chr3 8880835 8881269 +
Vvi Vvi3g0894 Chr3 8883958 8884449 -
Aip Aip10g00598 Chr10 6121500 6121940 -
Amo Amo20g0767 Chr20 11112879 11113319 +
Vvi Vvi3g0895 Chr3 8895286 8909155 -
Ahy Ahy20g0600 Chr20 6427202 6427765 -
Aip Aip10g00600 Chr10 6230166 6230666 -
Amo Amo20g0765 Chr20 10998111 10998611 +
Sto Sto2g2839 Chr2 41882130 41882591 -
Vvi Vvi3g0896 Chr3 8911589 8912074 -
Ahy Ahy20g0629 Chr20 6834967 6835811 -
Aip Aip10g00633 Chr10 6607230 6608107 -
Dod Dod03g0280 Chr03 3026673 3027484 +
Sto Sto2g2839 Chr2 41882130 41882591 -
Vvi Vvi3g0897 Chr3 8916375 8916860 -
Aev Aev04g0716 Chr04 4420942 4421454 -
Aip Aip10g00634 Chr10 6611418 6612016 -
Amo Amo20g0725 Chr20 10552325 10558013 +
Dod Dod03g0279 Chr03 2984219 2984710 +
Gma Gma15g00595 Chr15 4900157 4900645 -
Gso Gso15g0538 Chr15 4810046 4810828 +
Vvi Vvi3g0898 Chr3 8923838 8924209 -
Car Car01g00212 Chr01 1625961 1626452 +
Sto Sto2g2838 Chr2 41869869 41875300 -
Vvi Vvi3g0899 Chr3 8927396 8927983 -
Vvi Vvi3g0900 Chr3 8949703 8950233 -
Ahy Ahy20g0631 Chr20 6858091 6858588 +
Aip Aip10g00637 Chr10 6627604 6628041 +
Dod Dod03g0277 Chr03 2970861 2971415 +
Gma Gma15g00593 Chr15 4892794 4893532 +
Gso Gso15g0537 Chr15 4806116 4806876 +
Vvi Vvi3g0901 Chr3 8955534 8962261 -
Vvi Vvi3g0902 Chr3 8966562 8967065 -
Ahy Ahy20g0633 Chr20 6869411 6869908 +
Aip Aip10g00639 Chr10 6641160 6641597 +
Bva Bva14g01164 Chr14 5667037 5667540 +
Car Car01g00211 Chr01 1618321 1618812 +
Dod Dod03g0275 Chr03 2932615 2933106 +
Gma Gma13g02240 Chr13 37282933 37283697 -
Lapu Lapu6g01106 Chr6 11042304 11045260 -
Lasa Lasa1g00238 Chr1 15809483 15811806 -
Mepo Mepo6g00234 Chr6 2242085 2245215 -
Mesa Mesa5g04426 Chr5 73482195 73484309 +
Phac Phac6g02900 Chr6 25650395 25652947 +
Phco Phco11g00233 Chr11 1497301 1499581 -
Pumo Pumo2g01022 Chr2 15312352 15314542 +
Pvu Pvu6g2090 Chr6 30614703 30617204 +
Rops Rops11g00320 Chr11 4410104 4413895 -
Seca Seca6g05090 Chr6 118162885 118165328 +
Spst Spst6g00604 Chr6 5437365 5439604 +
Trre Trre3g00257 Chr3 1700282 1703293 -
Vian Vian6g01931 Chr6 36534424 36536586 +
Vifa Vifa1g10714 Chr1 1801123776 1801125998 -
Vimu Vimu2g00464 Chr2 2639806 2642133 -
Viun Viun6g03007 Chr6 32902550 32905209 +
Vivi Vivi1g08549 Chr1 244831312 244834476 +
Vifa Vifa1g10714 Chr1 1801123776 1801125998 -