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
Vvi1g1161 . . . . . . . . . . Ahy15g1967 . Aip05g02180 . . . . . . . . . . . . . Bva01g01861 . . . . . . . Dod02g1818 . . . . . . . . . . . . . Lal6g0754 . . . . . Lan11g0762 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1162 . . . . . . Aed11g0527 . . . Ahy15g1968 . Aip05g02181 . . . Amo15g1070 . . . . . . . . . Bva01g01860 . Car02g00903 . Cca06g00492 . . . Dod02g1819 . . . . . Gma02g01133 Gma01g00655 . . Gso2g1029 Gso2g1029 . . Lal6g0753 Lal22g0661 . . . . . . . . . . . . . . . . . . . . . . . . Mal6g2587 . . . . . . . Mtr5g1877 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1409 . . Sto6g2893 Tpr2g2163 . . . Tsu05g02389 . . . . . . . . . . . . .
Vvi1g1163 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01859 Bva11g00872 . Car07g01946 . . . . . . . . . . . . Gma08g02449 . . . . . . . Lal18g0956 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1164 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1165 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1166 . . . . . . Aed11g0529 . . . . . . . . . . . . . . . . . . . . Bva11g00870 Car02g00904 Car07g01943 Cca06g00491 . . . . . . . . . Gma02g01134 . . . Gso2g1030 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g2588 . . . . . . . Mtr5g1879 . . . . . . . Psa2g2227 . . . . . . . . . . . . . . . . . Ssu2g1408 . . Sto6g2891 Tpr4g4742 . . . Tsu05g02388 . . . . . . . . . . . . .
Vvi1g1167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1168 . . . . . . Aed11g0536 . . . Ahy15g1979 . Aip05g02190 . . . Amo15g1089 . Apr7g1562 . . . . . . . . Bva11g00869 Car02g00912 Car07g01941 Cca06g00485 . . . Dod02g1825 . . . . . Gma02g01137 Gma01g00659 . . Gso2g1035 Gso2g1035 . . Lal6g0751 Lal22g0659 Lal18g0957 . . . Lan11g0759 Lan11g0759 Lan11g0759 . . . . . . . . . . . . . . . . . Mal6g2622 . . . . . . . Mtr5g1891 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1401 . . Sto6g2889 Tpr2g2174 . . . Tsu05g02374 . . . . . . . . . . . . .
Vvi1g1169 . . . . . . Aed11g0537 . Aev05g2062 . Ahy15g1981 . Aip05g02192 . . . Amo15g1092 . . . . . . . . . Bva01g01857 . Car02g00914 . Cca06g00482 . . . Dod02g1826 . . . . . Gma02g01139 Gma01g00660 . . Gso2g1036 Gso2g1036 . . Lal6g0750 . . . . . Lan11g0758 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1398 . . . . . . . . . . . . . . . . . . . . .
Vvi1g1170 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Apr Apr7g1562 Chr7 22708925 22711695 +
Vvi Vvi1g1161 Chr1 15756276 15758847 +
Ahy Ahy15g1967 Chr15 104204905 104210041 +
Aip Aip05g02180 Chr05 95883555 95888392 +
Bva Bva01g01861 Chr01 19106736 19110315 -
Dod Dod02g1818 Chr02 24159165 24163650 +
Lal Lal6g0754 Chr6 5020974 5024420 -
Lan Lan11g0762 Chr11 6917533 6922311 -
Vvi Vvi1g1162 Chr1 15794455 15805127 +
Aed Aed11g0527 Chr11 4702958 4710230 +
Ahy Ahy15g1968 Chr15 104239697 104246219 +
Aip Aip05g02181 Chr05 95917937 95924495 +
Amo Amo15g1070 Chr15 83222842 83229377 +
Bva Bva01g01860 Chr01 19100509 19106155 -
Car Car02g00903 Chr02 14488669 14496649 +
Cca Cca06g00492 Chr06 14916862 14924623 -
Dod Dod02g1819 Chr02 24188657 24195452 +
Gma Gma02g01133 Chr02 12444928 12452741 +
Gma Gma01g00655 Chr01 11523441 11534088 +
Gso Gso2g1029 Chr2 12241322 12249587 +
Gso Gso2g1029 Chr2 12241322 12249587 +
Lal Lal6g0753 Chr6 5012755 5019842 -
Lal Lal22g0661 Chr22 4690823 4697282 -
Mal Mal6g2587 Chr6 64389086 64395463 +
Mtr Mtr5g1877 Chr5 21391051 21398350 +
Ssu Ssu2g1409 Chr2 58682933 58690355 -
Sto Sto6g2893 Chr6 36136241 36142403 -
Tpr Tpr2g2163 Chr2 25916458 25926040 +
Tsu Tsu05g02389 Chr05 31922183 31929384 -
Vvi Vvi1g1163 Chr1 15828712 15857308 +
Bva Bva01g01859 Chr01 19090513 19099553 -
Bva Bva11g00872 Chr11 11099988 11109135 -
Car Car07g01946 Chr07 22334532 22344633 -
Gma Gma08g02449 Chr08 29327297 29334307 +
Lal Lal18g0956 Chr18 12438926 12450465 +
Vvi Vvi1g1164 Chr1 15881099 15887637 -
Vvi Vvi1g1165 Chr1 15889129 15892357 +
Vvi Vvi1g1166 Chr1 15895475 15897568 +
Aed Aed11g0529 Chr11 4714328 4715404 +
Bva Bva11g00870 Chr11 11090796 11092832 -
Car Car02g00904 Chr02 14497590 14500131 +
Car Car07g01943 Chr07 22293505 22296295 -
Cca Cca06g00491 Chr06 14910742 14915122 -
Gma Gma02g01134 Chr02 12459871 12463700 +
Gso Gso2g1030 Chr2 12256402 12260160 +
Mal Mal6g2588 Chr6 64396251 64399175 +
Mtr Mtr5g1879 Chr5 21481883 21483300 +
Psa Psa2g2227 Chr2 245995523 246000755 -
Ssu Ssu2g1408 Chr2 58677869 58680748 -
Sto Sto6g2891 Chr6 36128242 36129208 -
Tpr Tpr4g4742 Chr4 55913207 55914615 +
Tsu Tsu05g02388 Chr05 31917603 31920480 -
Vvi Vvi1g1167 Chr1 15898501 15900732 -
Vvi Vvi1g1168 Chr1 15903199 15906204 -
Aed Aed11g0536 Chr11 4840035 4843451 -
Ahy Ahy15g1979 Chr15 106589665 106597548 +
Aip Aip05g02190 Chr05 98139668 98144276 +
Amo Amo15g1089 Chr15 85001647 85006280 +
Apr Apr7g1562 Chr7 22708925 22711695 +
Bva Bva11g00869 Chr11 11085633 11089717 +
Car Car02g00912 Chr02 14728697 14732791 -
Car Car07g01941 Chr07 22284693 22288045 +
Cca Cca06g00485 Chr06 14688121 14690937 +
Dod Dod02g1825 Chr02 24400368 24404704 -
Gma Gma02g01137 Chr02 12510166 12512973 -
Gma Gma01g00659 Chr01 11746696 11750058 -
Gso Gso2g1035 Chr2 12304570 12309139 -
Gso Gso2g1035 Chr2 12304570 12309139 -
Lal Lal6g0751 Chr6 5002056 5006072 +
Lal Lal22g0659 Chr22 4683533 4691351 +
Lal Lal18g0957 Chr18 12452299 12456428 -
Lan Lan11g0759 Chr11 6897525 6901793 +
Lan Lan11g0759 Chr11 6897525 6901793 +
Lan Lan11g0759 Chr11 6897525 6901793 +
Mal Mal6g2622 Chr6 65944399 65947205 -
Mtr Mtr5g1891 Chr5 21761581 21765459 -
Ssu Ssu2g1401 Chr2 58332652 58335482 +
Sto Sto6g2889 Chr6 36118436 36123517 +
Tpr Tpr2g2174 Chr2 26038076 26042141 -
Tsu Tsu05g02374 Chr05 31574553 31578456 +
Vvi Vvi1g1169 Chr1 15925062 15931152 +
Aed Aed11g0537 Chr11 4860610 4868550 +
Aev Aev05g2062 Chr05 19825671 19829424 +
Ahy Ahy15g1981 Chr15 106784675 106790027 +
Aip Aip05g02192 Chr05 98333532 98338796 +
Amo Amo15g1092 Chr15 85250793 85255924 +
Bva Bva01g01857 Chr01 19079677 19083831 +
Car Car02g00914 Chr02 14809815 14812131 +
Cca Cca06g00482 Chr06 14628658 14636434 -
Dod Dod02g1826 Chr02 24443749 24450946 +
Gma Gma02g01139 Chr02 12532069 12536680 +
Gma Gma01g00660 Chr01 11780465 11785137 +
Gso Gso2g1036 Chr2 12325133 12331858 +
Gso Gso2g1036 Chr2 12325133 12331858 +
Lal Lal6g0750 Chr6 4986046 4991201 -
Lan Lan11g0758 Chr11 6876979 6882371 -
Ssu Ssu2g1398 Chr2 58306916 58311079 -
Vvi Vvi1g1170 Chr1 15952233 15952634 -