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
Vvi1g1531 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01705 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa6g05037 . . . . . . . . . . . . . . . . . . . . . . . Phco6g03232 . . . . . Pste4g00035 . . . . . Pumo3g00019 . Pvu7g0010 . Rops6g03635 . Seca8g08260 . Spst10g01741 . . . Sto3g2044 . . . . . . . Vian3g00009 . . . . . Viun7g04235 . . . . .
Vvi1g1532 . . . . . . . . . . . . . . . . . . Apr4g2804 . . . . . . . Bva06g01704 Bva05g00078 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa3g00061 . . . . . . . . . . . . . Mepo3g00013 . Mesa25g04850 . . . . . . . Phco3g03283 . . . Psa7g0867 . . . . . . . Pumo5g00371 . Pvu8g0015 . Rops8g00016 . Seca2g00038 . . . . . . . . . Trre13g00018 . . . Vian2g00014 . . . . . Viun5g00017 . Vivi6g00013 . .
Vvi1g1533 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1534 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1535 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2051 . . . . . . . . . . . . . . . . . . .
Vvi1g1536 . . . . . . . . . . . . . . . . . . Apr4g2800 . . . . . . . Bva06g01703 . . . Cca07g02553 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g0012 . . . . . . . . . . . . . . . . . . . Vra4g1401 .
Vvi1g1537 . . . . . Adu04g03205 Aed3g0156 . . . . . . . . . . . Apr4g2663 . . Arst4g04194 . . . . Bva06g01702 . . . Cca07g02396 . . . . . . . . . Gma02g00872 . . . Gso2g0800 . . . Lal6g1666 . . . . . . . . . . . . Lapu1g01137 . Lasa3g00525 . . . . . . . . . . . . . . . . . . . . . . . Phco3g03089 . . . . . Pste5g00359 . . . . . Pumo5g00558 . Pvu8g0167 . Rops8g00261 . Seca2g00258 . . Ssu3g0203 . . . . . . . . . . Vian2g00165 . Vifa1g00789 . Vimu6g01198 . Viun5g00251 . . Vra4g1246 .
Vvi1g1538 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1539 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1540 . . . . . . . . . . . . . . . . . . Apr4g2805 . . . . . . . Bva06g01701 Bva05g00080 . . Cca07g02555 . . . . . . . . . . . Gma08g03307 . . . . . . . Lal18g0677 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g0010 . Sto3g2058 . . . . . . . . . . . . . . . . . Vra4g1403 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Apr Apr4g2805 Chr4 36582795 36587496 +
Vvi Vvi1g1531 Chr1 21945914 21956734 -
Bva Bva06g01705 Chr06 11919191 11923496 +
Lasa Lasa6g05037 Chr6 682285908 682290083 -
Phco Phco6g03232 Chr6 52775019 52781445 -
Pste Pste4g00035 Chr4 349230 362690 +
Pumo Pumo3g00019 Chr3 383377 385564 +
Pvu Pvu7g0010 Chr7 53920 59934 +
Rops Rops6g03635 Chr6 61442556 61449888 -
Seca Seca8g08260 Chr8 180324905 180328455 -
Spst Spst10g01741 Chr10 17831502 17835940 -
Sto Sto3g2044 Chr3 17003333 17011826 -
Vian Vian3g00009 Chr3 56701 62286 +
Viun Viun7g04235 Chr7 40770354 40771564 -
Vvi Vvi1g1532 Chr1 21966617 21967078 -
Apr Apr4g2804 Chr4 36578712 36579529 -
Bva Bva06g01704 Chr06 11916527 11917661 +
Bva Bva05g00078 Chr05 390829 391341 -
Lasa Lasa3g00061 Chr3 9665935 9666432 -
Mepo Mepo3g00013 Chr3 307463 308589 +
Mesa Mesa25g04850 Chr25 88105215 88105712 -
Phco Phco3g03283 Chr3 58509230 58509718 -
Psa Psa7g0867 Chr7 63800926 63801582 -
Pumo Pumo5g00371 Chr5 8603971 8605032 +
Pvu Pvu8g0015 Chr8 226631 227415 +
Rops Rops8g00016 Chr8 485277 485777 +
Seca Seca2g00038 Chr2 639761 640240 +
Trre Trre13g00018 Chr13 217259 217756 +
Vian Vian2g00014 Chr2 134915 135421 +
Viun Viun5g00017 Chr5 119425 120353 +
Vivi Vivi6g00013 Chr6 634493 635356 -
Vvi Vvi1g1533 Chr1 21993554 21995256 +
Vvi Vvi1g1534 Chr1 22005080 22006285 -
Vvi Vvi1g1535 Chr1 22022632 22023096 +
Sto Sto3g2051 Chr3 17063323 17064103 -
Vvi Vvi1g1536 Chr1 22031147 22032416 -
Apr Apr4g2800 Chr4 36521979 36522935 +
Bva Bva06g01703 Chr06 11913838 11914431 +
Cca Cca07g02553 Chr07 54566804 54568510 +
Ssu Ssu3g0012 Chr3 281485 282438 -
Vra Vra4g1401 Chr4 20710464 20712144 +
Vvi Vvi1g1537 Chr1 22035762 22036232 -
Adu Adu04g03205 Chr04 120132713 120133114 +
Aed Aed3g0156 Chr3 1136521 1136943 -
Apr Apr4g2663 Chr4 35341400 35341795 +
Arst Arst4g04194 Chr4 120095792 120096314 +
Bva Bva06g01702 Chr06 11911723 11912247 +
Cca Cca07g02396 Chr07 52646554 52647269 +
Gma Gma02g00872 Chr02 8775010 8775429 -
Gso Gso2g0800 Chr2 8579886 8580618 -
Lal Lal6g1666 Chr6 19436183 19436596 +
Lapu Lapu1g01137 Chr1 24378449 24378850 -
Lasa Lasa3g00525 Chr3 38392859 38393257 -
Phco Phco3g03089 Chr3 56978420 56979116 +
Pste Pste5g00359 Chr5 2399949 2400597 -
Pumo Pumo5g00558 Chr5 11320428 11320841 -
Pvu Pvu8g0167 Chr8 1408132 1408533 -
Rops Rops8g00261 Chr8 5231093 5231482 -
Seca Seca2g00258 Chr2 3680578 3680967 -
Ssu Ssu3g0203 Chr3 3671730 3672143 -
Vian Vian2g00165 Chr2 1579941 1580621 -
Vifa Vifa1g00789 Chr1 131144673 131145068 -
Vimu Vimu6g01198 Chr6 12188832 12189173 +
Viun Viun5g00251 Chr5 1446365 1447029 -
Vra Vra4g1246 Chr4 19426809 19428312 +
Vvi Vvi1g1538 Chr1 22044691 22044819 +
Vvi Vvi1g1539 Chr1 22058282 22060336 +
Vvi Vvi1g1540 Chr1 22069096 22071688 +
Apr Apr4g2805 Chr4 36582795 36587496 +
Bva Bva06g01701 Chr06 11904503 11909248 -
Bva Bva05g00080 Chr05 400179 405183 +
Cca Cca07g02555 Chr07 54580630 54583591 +
Gma Gma08g03307 Chr08 49852970 49857906 -
Lal Lal18g0677 Chr18 5867171 5872698 +
Ssu Ssu3g0010 Chr3 247065 251857 -
Sto Sto3g2058 Chr3 17165339 17169888 +
Vra Vra4g1403 Chr4 20720723 20724688 +