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
Vvi2g0002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3445 . . . . . . . . . . . . . . . . . . .
Vvi2g0003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0004 . . . . . . . . . . . . . . . . . . Apr7g0722 . . . . . . . . Bva11g01937 . . . . . . . . . . . . . Gma11g00209 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g1662 . . . . . . . Mtr5g0287 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu05g00266 . . . . . . . . . . . . .
Vvi2g0005 . . . . . . . . . . . . . . . . . . Apr7g0721 . . . . . . . Bva08g00144 . . Car07g01275 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0006 . . . . . . . . . . . . . . . . . . Apr7g0720 . . . . . . . . Bva11g01938 . . . . . . . . . . . . . . . . . . . . Lal15g0068 . . . . . Lan18g1106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3435 . . . . . . . . . . . . . . . . . . .
Vvi2g0007 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g01939 . Car07g01274 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3434 . . . . . . . . . . . . . . . . . . .
Vvi2g0008 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car08g00260 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0010 . . . . . . . . . . . . . . . . . . Apr7g0719 . . . . . . . . Bva11g01940 . Car07g01273 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3433 . . . . . . . . . . . . . . . . . . .
Vvi2g0011 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Car Car07g01275 Chr07 11615031 11620167 +
Vvi Vvi2g0002 Chr2 24214 35046 +
Sto Sto6g3445 Chr6 40181995 40185666 +
Vvi Vvi2g0003 Chr2 36620 40013 +
Vvi Vvi2g0004 Chr2 59724 77831 +
Apr Apr7g0722 Chr7 14128508 14138107 -
Bva Bva11g01937 Chr11 16625756 16633458 +
Gma Gma11g00209 Chr11 1664130 1666118 +
Mal Mal6g1662 Chr6 30679643 30683799 +
Mtr Mtr5g0287 Chr5 2662738 2664602 -
Tsu Tsu05g00266 Chr05 1969201 1970978 -
Vvi Vvi2g0005 Chr2 79688 80318 -
Apr Apr7g0721 Chr7 14124198 14127365 +
Bva Bva08g00144 Chr08 696796 699344 +
Car Car07g01275 Chr07 11615031 11620167 +
Vvi Vvi2g0006 Chr2 94935 97046 +
Apr Apr7g0720 Chr7 14109726 14116469 -
Bva Bva11g01938 Chr11 16634172 16636362 +
Lal Lal15g0068 Chr15 462390 479339 -
Lan Lan18g1106 Chr18 16106126 16109886 +
Sto Sto6g3435 Chr6 40123265 40125612 -
Vvi Vvi2g0007 Chr2 98813 103462 +
Bva Bva11g01939 Chr11 16638822 16642499 +
Car Car07g01274 Chr07 11608439 11612323 -
Sto Sto6g3434 Chr6 40112772 40114951 -
Vvi Vvi2g0008 Chr2 110088 111017 +
Vvi Vvi2g0009 Chr2 117104 118883 -
Car Car08g00260 Chr08 2087336 2093745 +
Vvi Vvi2g0010 Chr2 125134 139861 +
Apr Apr7g0719 Chr7 14104505 14108345 -
Bva Bva11g01940 Chr11 16643199 16647108 +
Car Car07g01273 Chr07 11603001 11606638 -
Sto Sto6g3433 Chr6 40108832 40111906 -
Vvi Vvi2g0011 Chr2 140610 141011 -
Gma Gma11g00209 Chr11 1664130 1666118 +
Mal Mal6g1662 Chr6 30679643 30683799 +
Mtr Mtr5g0287 Chr5 2662738 2664602 -
Tsu Tsu05g00266 Chr05 1969201 1970978 -
Lal Lal15g0068 Chr15 462390 479339 -
Lan Lan18g1106 Chr18 16106126 16109886 +
Lan Lan18g1106 Chr18 16106126 16109886 +