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
Vvi4g0474 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0475 . . . . . . . . . . . . . . . . . . Apr5g1140 . . . . . . . . . . Car04g03156 . . . . . . . . . . . . . . . . . . . . . . . Lal10g0011 . . . . . . . . . . . . . . . . . . . Lja5g2089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3275 . . . . . . . . . . . . . . . . . .
Vvi4g0476 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0477 . . . . . . . . . Aev08g2641 . Ahy18g2605 . Aip08g03000 . . . . . . . . . . . . . . . . Cca03g01527 . . . . Dod09g0961 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0478 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0479 . . . . . . Aed4g1828 . . . . . . . . . . . . . . . . . . . . . . . Cca03g01528 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g3839 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0805 . . . . . . . . . . . . . . . . . . .
Vvi4g0480 . Acco05g2299 . Accr3g00705 . Adu06g02774 . . . . . . . . . Alju07g2264 . . . . . . . Bach3g01919 . . . . . . . . . Dere05g2121 . . . Enph7g0990 . Glsi10g0740 . . . . . . . . . . . . . Lal10g0012 . . . . . . . . . Lasa5g04116 . . . . Lele25g0593 Lele26g0607 Lele27g1489 Lele28g0594 . . . . . Mepo4g00670 . Mesa1g00704 . . . . . . . . . . Psa5g0633 . . . . . . . . . . Pvu1g0561 . . . . . Spst8g01598 . . . . . . . Trre1g00735 . . . . . . . . . . . Vivi3g01271 . .
Vvi4g0481 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma06g00644 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0482 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal25g1074 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0483 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car05g02997 . . . . . . . . . . . . . . . . . . . . . Lal17g0250 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Apr Apr5g1140 Chr5 15973815 15977270 -
Vvi Vvi4g0474 Chr4 4318172 4319381 +
Vvi Vvi4g0475 Chr4 4330633 4333507 +
Apr Apr5g1140 Chr5 15973815 15977270 -
Car Car04g03156 Chr04 59797852 59799262 -
Lal Lal10g0011 Chr10 113060 115316 +
Lja Lja5g2089 Chr5 28232909 28235212 -
Sto Sto9g3275 Chr9 32909768 32911711 -
Vvi Vvi4g0476 Chr4 4352151 4353580 +
Vvi Vvi4g0477 Chr4 4367345 4383995 +
Aev Aev08g2641 Chr08 24821537 24830503 +
Ahy Ahy18g2605 Chr18 128384093 128392496 -
Aip Aip08g03000 Chr08 118938851 118948628 -
Cca Cca03g01527 Chr03 33913472 33917342 -
Dod Dod09g0961 Chr09 29788907 29794173 +
Vvi Vvi4g0478 Chr4 4388604 4388836 +
Vvi Vvi4g0479 Chr4 4396330 4409328 +
Aed Aed4g1828 Chr4 22495080 22504543 +
Cca Cca03g01528 Chr03 33922298 33926283 -
Lja Lja1g3839 Chr1 48471397 48480747 -
Sto Sto5g0805 Chr5 5463948 5473517 -
Vvi Vvi4g0480 Chr4 4415921 4417521 +
Acco Acco05g2299 Chr05 38938431 38940012 +
Accr Accr3g00705 Chr3 7927971 7929725 -
Adu Adu06g02774 Chr06 104752636 104757703 -
Alju Alju07g2264 Chr07 48563492 48565155 +
Bach Bach3g01919 Chr3 27224176 27225330 -
Dere Dere05g2121 Chr05 31318472 31319953 -
Enph Enph7g0990 Chr7 15563003 15563938 +
Glsi Glsi10g0740 Chr10 4694593 4696668 +
Lal Lal10g0012 Chr10 123998 129867 +
Lasa Lasa5g04116 Chr5 631548407 631549584 +
Lele Lele25g0593 Chr25 3769066 3769539 -
Lele Lele26g0607 Chr26 3873807 3875187 -
Lele Lele27g1489 Chr27 20930884 20932236 +
Lele Lele28g0594 Chr28 3797109 3798499 -
Mepo Mepo4g00670 Chr4 9027443 9028093 +
Mesa Mesa1g00704 Chr1 9102631 9103452 +
Psa Psa5g0633 Chr5 50292083 50293635 -
Pvu Pvu1g0561 Chr1 6335261 6338062 +
Spst Spst8g01598 Chr8 18381497 18382708 -
Trre Trre1g00735 Chr1 5565136 5568760 +
Vivi Vivi3g01271 Chr3 21133609 21134751 -
Vvi Vvi4g0481 Chr4 4420053 4428427 +
Gma Gma06g00644 Chr06 5830512 5835818 +
Vvi Vvi4g0482 Chr4 4431520 4432859 -
Lal Lal25g1074 Chr25 14054090 14056618 -
Vvi Vvi4g0483 Chr4 4436870 4443097 -
Car Car05g02997 Chr05 74839821 74844392 -
Lal Lal17g0250 Chr17 1553185 1557163 -
Lja Lja5g2089 Chr5 28232909 28235212 -