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
Vvi1g1601 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g0521 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1602 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00112 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1603 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1604 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3109 . . . . . . . Mtr7g2302 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr6g1090 . . . Tsu07g02925 . . . . . . . . . . . . .
Vvi1g1605 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3112 . . . . . . . Mtr7g2304 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu07g02928 . . . . . . . . . . . . .
Vvi1g1606 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2537 . . . . . . . . . . . . . . . . . . .
Vvi1g1607 . . . . Adu03g02944 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03496 . . . . . . . . . . . . Lja4g0522 . Mal7g4828 . . . . . . . Mtr8g3365 . . Phco4g03186 . . . . Psa7g0916 Pste3g01353 . . . . . . . Pvu2g2880 . . . . . Spst3g01222 . . . . Sto4g0216 . Tpr3g0742 . . . Tsu02g00566 . . . . Vimu11g04282 . . . . . . .
Vvi1g1608 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1609 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1610 . . . . . . . . . . . . . . . . . . Apr4g2771 . . . . . . . . . . . . . . . . . . . . . . . Gma08g03331 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g1813 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1601 Chr1 22737986 22738689 +
Lja Lja4g0521 Chr4 4270273 4271355 +
Vvi Vvi1g1602 Chr1 22741318 22745389 -
Bva Bva05g00112 Chr05 563682 566766 -
Vvi Vvi1g1603 Chr1 22748079 22750054 +
Vvi Vvi1g1604 Chr1 22751021 22754140 +
Mal Mal3g3109 Chr3 106237203 106238003 +
Mtr Mtr7g2302 Chr7 39434296 39435051 +
Tpr Tpr6g1090 Chr6 10414177 10415001 +
Tsu Tsu07g02925 Chr07 34662044 34663463 +
Vvi Vvi1g1605 Chr1 22755105 22755602 +
Mal Mal3g3112 Chr3 106259540 106260172 +
Mtr Mtr7g2304 Chr7 39442518 39443754 +
Tsu Tsu07g02928 Chr07 34687539 34688873 +
Vvi Vvi1g1606 Chr1 22756441 22762831 +
Sto Sto3g2537 Chr3 29488570 29503597 +
Vvi Vvi1g1607 Chr1 22768963 22773892 +
Adu Adu03g02944 Chr03 111301301 111306290 +
Lapu Lapu3g03496 Chr3 58326633 58337535 -
Lja Lja4g0522 Chr4 4278874 4282085 +
Mal Mal7g4828 Chr7 116766314 116769651 -
Mtr Mtr8g3365 Chr8 44173169 44178366 -
Phco Phco4g03186 Chr4 52585340 52588671 -
Psa Psa7g0916 Chr7 69196947 69201506 +
Pste Pste3g01353 Chr3 8424209 8429074 +
Pvu Pvu2g2880 Chr2 44410675 44414420 -
Spst Spst3g01222 Chr3 15719359 15722878 +
Sto Sto4g0216 Chr4 1614492 1617365 +
Tpr Tpr3g0742 Chr3 7102467 7106140 +
Tsu Tsu02g00566 Chr02 4764965 4769456 +
Vimu Vimu11g04282 Chr11 64230374 64233735 -
Vvi Vvi1g1608 Chr1 22778046 22778864 -
Vvi Vvi1g1609 Chr1 22781826 22782866 +
Vvi Vvi1g1610 Chr1 22783067 22797073 +
Apr Apr4g2771 Chr4 36210605 36212991 +
Gma Gma08g03331 Chr08 50110837 50114088 -
Sto Sto3g1813 Chr3 14351019 14351474 +