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
Vvi16g0579 . . . . Adu03g00893 . Aed5g0131 . . . Ahy13g1122 . Aip03g01231 . . . Amo13g1164 . Apr5g0578 . Arst3g01159 . Bach9g01402 . . . . Bva07g00935 . Car06g03014 Cca04g00149 . . . Dod03g2599 . . . . . Gma09g02048 . . . Gso9g1832 . . . . . . . . . . . . . . . Lapu11g01029 . Lasa7g00955 . . . . . . . . . Lja3g0160 . . . . . . . . . Mtr4g1212 . . . Phco9g00199 . . . . . Pste1g00631 . . . . . Pumo11g02179 . Pvu11g0168 . Rops3g00181 . Seca6g00297 . Spst2g02876 . Ssu3g3196 . Sto7g2393 . . . . . . . Vian5g01766 . Vifa6g00096 . Vimu5g02706 . Viun11g02843 . Vivi5g01644 . Vra2g0151 .
Vvi16g0580 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0581 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0582 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0583 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0584 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0585 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0586 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0587 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0588 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00937 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g2396 Sto4g2472 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Apr Apr5g0578 Chr5 7897628 7901214 -
Vvi Vvi16g0579 Chr16 11684809 11686894 +
Adu Adu03g00893 Chr03 8864660 8867694 -
Aed Aed5g0131 Chr5 961978 971105 +
Ahy Ahy13g1122 Chr13 12646252 12649277 -
Aip Aip03g01231 Chr03 12202834 12204528 -
Amo Amo13g1164 Chr13 15129210 15132507 +
Apr Apr5g0578 Chr5 7897628 7901214 -
Arst Arst3g01159 Chr3 8947371 8950357 -
Bach Bach9g01402 Chr9 12282569 12286686 -
Bva Bva07g00935 Chr07 11416914 11420250 +
Car Car06g03014 Chr06 51720565 51722115 +
Cca Cca04g00149 Chr04 1356169 1362426 +
Dod Dod03g2599 Chr03 57581599 57585110 +
Gma Gma09g02048 Chr09 46145329 46149490 -
Gso Gso9g1832 Chr9 42763683 42766897 -
Lapu Lapu11g01029 Chr11 12612674 12616606 -
Lasa Lasa7g00955 Chr7 114636798 114638441 +
Lja Lja3g0160 Chr3 1654189 1658027 +
Mtr Mtr4g1212 Chr4 17504069 17506938 -
Phco Phco9g00199 Chr9 1289667 1290930 +
Pste Pste1g00631 Chr1 2030789 2033594 +
Pumo Pumo11g02179 Chr11 54225777 54229646 -
Pvu Pvu11g0168 Chr11 1278312 1281356 +
Rops Rops3g00181 Chr3 2431682 2435055 +
Seca Seca6g00297 Chr6 7692535 7696366 +
Spst Spst2g02876 Chr2 28589476 28591163 -
Ssu Ssu3g3196 Chr3 88106188 88107911 -
Sto Sto7g2393 Chr7 29483831 29485501 +
Vian Vian5g01766 Chr5 39939536 39941229 -
Vifa Vifa6g00096 Chr6 28260073 28261708 +
Vimu Vimu5g02706 Chr5 36875747 36877437 -
Viun Viun11g02843 Chr11 40492834 40495824 -
Vivi Vivi5g01644 Chr5 55122218 55124888 +
Vra Vra2g0151 Chr2 1169788 1172654 +
Vvi Vvi16g0580 Chr16 11693051 11693600 -
Vvi Vvi16g0581 Chr16 11701656 11701976 -
Vvi Vvi16g0582 Chr16 11754965 11757236 +
Vvi Vvi16g0583 Chr16 11765864 11766160 +
Vvi Vvi16g0584 Chr16 11804407 11804547 -
Vvi Vvi16g0585 Chr16 11804831 11807022 +
Vvi Vvi16g0586 Chr16 11852918 11853088 -
Vvi Vvi16g0587 Chr16 11882931 11883940 +
Vvi Vvi16g0588 Chr16 11900142 11912172 -
Bva Bva07g00937 Chr07 11429601 11437226 +
Sto Sto7g2396 Chr7 29505198 29511656 +
Sto Sto4g2472 Chr4 26109392 26116806 -