Hierarchical alignments with the P. vulgaris 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 Pvu Acco Accr Adu Aed Aev Ahy_1 Ahy_2 Aip Alju Amo_1 Amo_2 Apr Arst Bach Bisa Bva Car Cca Dere Dod Enph Glsi Gma_1 Gma_2 Gso_1 Gso_2 Lal_1 Lal_2 Lal_3 Lan_1 Lan_2 Lan_3 Lapu Lasa Lele_1 Lele_2 Lele_3 Lele_4 Lja Mal Mepo Mesa Mibi Mtr Phac Phco Prci Psa Pste Pumo Rops Seca Spst Ssu Sto Tpr Trre Tsu Vian Vifa Vimu Viun Vivi Vra
Pvu9g1978 . . . . . . . . . . . . . . . . Car05g00624 . . . . . . . . . . Lal21g0823 . . . . . . . . . . . . Mepo5g02867 Mesa9g00752 . Mtr3g0612 . Phco7g02309 . . Pste2g00469 . . . . . . . Trre5g01765 . . . Vimu10g00984 . . Vra3g1119
Pvu9g1979 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1980 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1981 . . . . . Ahy20g2437 Ahy10g1956 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02310 . . Pste2g00471 . . . . . . . . Tsu03g00566 . . Vimu10g00983 . . Vra3g1120
Pvu9g1982 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1983 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1984 . . . . . . . . . . . . . . . . Car05g00623 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02311 . . Pste2g00472 . . . . . . Tpr5g3085 . . . . Vimu10g00980 . . Vra3g1121
Pvu9g1985 . . . . . Ahy20g2440 Ahy10g1958 . . . . . . . . . Car05g00619 . . . . . . . . . . . . . . . . . . . . . . . Mepo5g02866 Mesa9g00748 . Mtr3g0611 . Phco7g02312 . Psa5g4336 Pste2g00474 . . . . . . . Trre5g01762 Tsu03g00567 . . Vimu10g00979 . . Vra3g1122
Pvu9g1986 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02313 . . . . . . . . . . . . . . . . . .
Pvu9g1987 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02314 . . Pste2g00199 . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Tpr Tpr5g3085 Chr5 53674872 53678874 +
Pvu Pvu9g1978 Chr9 28371958 28376135 -
Car Car05g00624 Chr05 34319852 34331104 +
Lal Lal21g0823 Chr21 7363396 7371494 +
Mepo Mepo5g02867 Chr5 34835798 34840957 -
Mesa Mesa9g00752 Chr9 16245642 16250089 -
Mtr Mtr3g0612 Chr3 8225778 8233546 -
Phco Phco7g02309 Chr7 40577526 40585222 -
Pste Pste2g00469 Chr2 4300898 4301957 +
Trre Trre5g01765 Chr5 13032923 13037768 -
Vimu Vimu10g00984 Chr10 8965748 8969706 +
Vra Vra3g1119 Chr3 11624558 11635584 -
Pvu Pvu9g1979 Chr9 28381562 28383566 -
Pvu Pvu9g1980 Chr9 28387842 28390878 +
Pvu Pvu9g1981 Chr9 28394583 28400172 -
Ahy Ahy20g2437 Chr20 130101108 130109502 -
Ahy Ahy10g1956 Chr10 105645165 105650649 -
Phco Phco7g02310 Chr7 40593564 40604477 -
Pste Pste2g00471 Chr2 4314605 4315535 +
Tsu Tsu03g00566 Chr03 4827137 4832422 +
Vimu Vimu10g00983 Chr10 8945129 8957166 +
Vra Vra3g1120 Chr3 11643421 11652440 -
Pvu Pvu9g1982 Chr9 28402147 28402606 -
Pvu Pvu9g1983 Chr9 28409019 28413448 -
Pvu Pvu9g1984 Chr9 28416875 28417639 -
Car Car05g00623 Chr05 34296193 34304243 +
Phco Phco7g02311 Chr7 40611961 40621925 -
Pste Pste2g00472 Chr2 4326105 4334155 -
Tpr Tpr5g3085 Chr5 53674872 53678874 +
Vimu Vimu10g00980 Chr10 8921933 8922577 +
Vra Vra3g1121 Chr3 11663750 11668326 -
Pvu Pvu9g1985 Chr9 28419311 28454076 +
Ahy Ahy20g2440 Chr20 130156743 130179781 +
Ahy Ahy10g1958 Chr10 105713638 105736198 +
Car Car05g00619 Chr05 33797208 33801361 -
Mepo Mepo5g02866 Chr5 34780034 34813422 -
Mesa Mesa9g00748 Chr9 16173603 16204998 -
Mtr Mtr3g0611 Chr3 8181404 8211937 -
Phco Phco7g02312 Chr7 40631803 40682061 +
Psa Psa5g4336 Chr5 363052345 363052734 +
Pste Pste2g00474 Chr2 4343901 4385230 +
Trre Trre5g01762 Chr5 12973998 12998249 -
Tsu Tsu03g00567 Chr03 4842760 4873617 +
Vimu Vimu10g00979 Chr10 8870821 8909957 -
Vra Vra3g1122 Chr3 11675357 11725432 +
Pvu Pvu9g1986 Chr9 28454748 28455512 -
Phco Phco7g02313 Chr7 40683153 40683706 -
Pvu Pvu9g1987 Chr9 28460380 28469219 -
Phco Phco7g02314 Chr7 40688845 40698322 -
Pste Pste2g00199 Chr2 1048138 1058658 -