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
Vvi1g1551 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01692 Bva05g00087 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3046 . . . . . . . Mtr7g2250 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2106 . Tpr6g1002 . . . Tsu07g02814 . . . . . . . . . . . . .
Vvi1g1552 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1553 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01691 Bva05g00088 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2130 . . . . . . . . . . . . . . . . . . .
Vvi1g1554 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1555 . . . . . . Aed3g0002 . . . . . . . . . . . Apr4g2814 . . . . . . . Bva06g01690 Bva05g00089 . . Cca07g02563 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa3g00045 . . . . . . . . . . . . . . . . . . . . . . . Phco3g03298 . . . . . Pste5g00003 . . . . . Pumo5g00362 . Pvu8g0004 . Rops8g00006 . Seca2g00028 . Spst1g01776 Ssu3g0002 . Sto3g2139 . . . . . . . . Vian2g00004 . . . Vimu6g01409 . Viun5g00004 . Vivi6g00002 Vra4g1412 .
Vvi1g1556 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00090 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3048 . . . . . . . Mtr7g2252 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr6g1005 . . . Tsu07g02823 . . . . . . . . . . . . .
Vvi1g1557 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1558 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1559 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01689 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2150 . . . . . . . . . . . . . . . . . . .
Vvi1g1560 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3054 . . . . . . . Mtr7g2255 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr6g1007 . . . Tsu07g02825 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1551 Chr1 22216468 22220026 -
Bva Bva06g01692 Chr06 11862950 11866333 +
Bva Bva05g00087 Chr05 436593 440127 -
Mal Mal3g3046 Chr3 105437173 105439450 -
Mtr Mtr7g2250 Chr7 38894271 38899035 -
Sto Sto3g2106 Chr3 17818527 17822261 -
Tpr Tpr6g1002 Chr6 9196953 9201893 -
Tsu Tsu07g02814 Chr07 33164265 33168716 -
Vvi Vvi1g1552 Chr1 22225548 22227197 -
Vvi Vvi1g1553 Chr1 22236293 22240336 -
Bva Bva06g01691 Chr06 11860015 11862075 +
Bva Bva05g00088 Chr05 441246 442624 -
Sto Sto3g2130 Chr3 18185059 18186615 -
Vvi Vvi1g1554 Chr1 22258690 22259169 +
Vvi Vvi1g1555 Chr1 22268200 22269408 +
Aed Aed3g0002 Chr3 22595 24627 -
Apr Apr4g2814 Chr4 36691528 36692878 +
Bva Bva06g01690 Chr06 11857200 11858346 -
Bva Bva05g00089 Chr05 445591 446955 +
Cca Cca07g02563 Chr07 54750896 54752318 +
Lasa Lasa3g00045 Chr3 9187344 9188311 -
Phco Phco3g03298 Chr3 58606747 58608620 +
Pste Pste5g00003 Chr5 53578 58071 -
Pumo Pumo5g00362 Chr5 8483637 8485702 -
Pvu Pvu8g0004 Chr8 149428 151581 -
Rops Rops8g00006 Chr8 231034 237638 -
Seca Seca2g00028 Chr2 542334 543573 -
Spst Spst1g01776 Chr1 22898419 22899632 -
Ssu Ssu3g0002 Chr3 82204 83403 -
Sto Sto3g2139 Chr3 18370400 18371827 +
Vian Vian2g00004 Chr2 58143 60042 -
Vimu Vimu6g01409 Chr6 13601838 13602170 +
Viun Viun5g00004 Chr5 53142 54773 -
Vivi Vivi6g00002 Chr6 277279 278956 -
Vra Vra4g1412 Chr4 20792683 20794693 +
Vvi Vvi1g1556 Chr1 22277196 22278155 -
Bva Bva05g00090 Chr05 450739 452147 -
Mal Mal3g3048 Chr3 105454728 105456824 -
Mtr Mtr7g2252 Chr7 38918341 38921430 -
Tpr Tpr6g1005 Chr6 9225995 9228877 -
Tsu Tsu07g02823 Chr07 33245330 33248338 -
Vvi Vvi1g1557 Chr1 22279652 22280104 +
Vvi Vvi1g1558 Chr1 22299990 22304575 -
Vvi Vvi1g1559 Chr1 22304970 22306913 -
Bva Bva06g01689 Chr06 11852527 11854209 -
Sto Sto3g2150 Chr3 18598514 18598837 +
Vvi Vvi1g1560 Chr1 22308750 22311393 -
Mal Mal3g3054 Chr3 105507032 105509768 -
Mtr Mtr7g2255 Chr7 38937202 38940624 -
Tpr Tpr6g1007 Chr6 9237239 9240705 -
Tsu Tsu07g02825 Chr07 33256637 33260291 -