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
Vvi2g0892 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0893 Acco11g1318 . . . Adu05g00167 . Aed6g0115 . Aev05g0192 . Ahy15g0155 . Aip05g00154 . Alju09g1329 . . . Apr7g1811 . Arst5g00208 . Bach4g00945 . Bisa11g2052 . Bva08g01101 Bva11g01328 . . Cca06g01041 . Dere09g1330 . Dod02g0205 . Enph13g1618 . Glsi05g1079 . Gma01g00095 Gma09g01957 . . Gso1g0091 Gso1g0091 . . . Lal16g0427 . . . Lal23g1144 . . . . . . Lapu2g00896 . . . Lele49g0878 Lele50g0916 Lele51g0895 Lele52g0895 . . . . Lja2g0776 . Mal6g0616 . Mepo5g01292 . Mesa17g01404 . Mibi12g1114 . Mtr5g1161 . Phac2g02117 . Phco4g00598 . Prci10g1413 . Psa2g3184 . Pste1g00414 . . . . . Pumo8g01493 . Pvu2g1372 . Rops1g01296 . Seca10g01249 . Spst3g02703 . Ssu2g2012 . Sto6g4139 Sto11g1275 Tpr2g1403 . Trre9g01711 . Tsu05g01155 . Vian10g01035 . Vifa1g05972 . Vimu7g03411 . Viun2g01511 . . . Vra11g1007 .
Vvi2g0894 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0895 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0896 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0897 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal23g1151 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0898 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0899 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0900 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0901 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0892 Chr2 10595038 10608456 +
Vvi Vvi2g0893 Chr2 10652606 10716519 -
Acco Acco11g1318 Chr11 27398360 27409105 +
Adu Adu05g00167 Chr05 1905312 1910473 +
Aed Aed6g0115 Chr6 1054015 1059864 -
Aev Aev05g0192 Chr05 1476607 1480997 +
Ahy Ahy15g0155 Chr15 1893594 1898061 +
Aip Aip05g00154 Chr05 1758016 1763161 +
Alju Alju09g1329 Chr09 37043949 37051559 +
Apr Apr7g1811 Chr7 25480637 25487141 +
Arst Arst5g00208 Chr5 1925060 1930144 +
Bach Bach4g00945 Chr4 6330119 6334538 -
Bisa Bisa11g2052 Chr11 43532230 43548009 -
Bva Bva08g01101 Chr08 5618994 5623948 -
Bva Bva11g01328 Chr11 13532525 13537785 +
Cca Cca06g01041 Chr06 24364384 24371545 +
Dere Dere09g1330 Chr09 17362740 17373590 -
Dod Dod02g0205 Chr02 2799868 2805445 +
Enph Enph13g1618 Chr13 21874163 21880825 -
Glsi Glsi05g1079 Chr05 60606511 60615715 +
Gma Gma01g00095 Chr01 1032410 1038113 -
Gma Gma09g01957 Chr09 45202557 45208576 +
Gso Gso1g0091 Chr1 1027700 1033344 -
Gso Gso1g0091 Chr1 1027700 1033344 -
Lal Lal16g0427 Chr16 2587470 2593642 -
Lal Lal23g1144 Chr23 12914815 12921634 +
Lapu Lapu2g00896 Chr2 8281777 8289800 +
Lele Lele49g0878 Chr49 5419106 5430700 -
Lele Lele50g0916 Chr50 5767341 5771597 -
Lele Lele51g0895 Chr51 5498046 5501743 -
Lele Lele52g0895 Chr52 5802915 5807994 -
Lja Lja2g0776 Chr2 7060672 7065944 -
Mal Mal6g0616 Chr6 8490768 8498321 -
Mepo Mepo5g01292 Chr5 13147809 13153933 -
Mesa Mesa17g01404 Chr17 18755734 18759596 -
Mibi Mibi12g1114 Chr12 26379473 26390412 +
Mtr Mtr5g1161 Chr5 11641697 11647910 -
Phac Phac2g02117 Chr2 23006805 23015102 -
Phco Phco4g00598 Chr4 4523521 4533562 +
Prci Prci10g1413 Chr10 9451082 9457433 -
Psa Psa2g3184 Chr2 364800958 364810528 +
Pste Pste1g00414 Chr1 1390137 1401424 -
Pumo Pumo8g01493 Chr8 49528438 49534575 +
Pvu Pvu2g1372 Chr2 26405689 26413669 -
Rops Rops1g01296 Chr1 29361864 29369212 +
Seca Seca10g01249 Chr10 12368382 12377363 -
Spst Spst3g02703 Chr3 76529213 76532618 -
Ssu Ssu2g2012 Chr2 73446512 73455820 +
Sto Sto6g4139 Chr6 44780293 44784812 -
Sto Sto11g1275 Chr11 12486916 12493862 -
Tpr Tpr2g1403 Chr2 16395753 16402684 -
Trre Trre9g01711 Chr9 15289334 15295569 -
Tsu Tsu05g01155 Chr05 10154963 10162352 -
Vian Vian10g01035 Chr10 11438888 11444053 -
Vifa Vifa1g05972 Chr1 934161774 934168055 +
Vimu Vimu7g03411 Chr7 28766034 28770735 -
Viun Viun2g01511 Chr2 25345168 25352387 +
Vra Vra11g1007 Chr11 8997953 9003773 -
Vvi Vvi2g0894 Chr2 10728555 10733826 -
Vvi Vvi2g0895 Chr2 10785023 10786852 -
Vvi Vvi2g0896 Chr2 10833512 10835341 -
Vvi Vvi2g0897 Chr2 10849905 10851759 +
Lal Lal23g1151 Chr23 12961935 12966839 +
Vvi Vvi2g0898 Chr2 10872241 10872519 +
Vvi Vvi2g0899 Chr2 10872893 10872997 +
Vvi Vvi2g0900 Chr2 11021985 11022974 +
Vvi Vvi2g0901 Chr2 11071823 11074833 +