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
Pvu11g1258 . . Adu03g01479 Aed5g0901 . . . . . . Amo03g0496 Apr3g1018 Arst3g01939 . . Bva07g01958 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g03530 . . . Spst11g00926 . . . . . . . . . . Vra2g1081
Pvu11g1259 . . . Aed5g0901 . . . . . . . Apr3g1010 Arst3g02078 . . Bva07g00168 . . . . . . . . . . . . . Lan7g0545 . . . Lasa7g01169 . . . . . . . . . . . . . . Pste1g03535 . . . Spst11g00925 . . . . Tsu02g01998 . . . . Vivi5g03464 Vra2g1082
Pvu11g1260 . . Adu03g01480 Aed5g0903 . . . Aip03g01828 . . . Apr3g1009 . Bach9g01365 . Bva07g01003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g03541 . . . Spst11g00923 . . . . Tsu02g02934 . . . . Vivi5g03361 .
Pvu11g1261 . . Adu03g01481 Aed5g0900 . . . Aip03g01830 . . Amo03g0492 Apr3g1008 . . . Bva07g00165 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g03544 . . . Spst11g00921 . . . . Tsu02g01996 . . . . . .
Pvu11g1262 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1263 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01409 . . . . . . . . . . . . . . . . . .
Pvu11g1264 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1265 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1266 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1267 . . . Aed5g0899 Aev04g2637 . . . . . . . Arst3g01934 . . . . . . . . . . . . . . . . . . . Lapu5g00450 . . . . . Lja3g2907 . . . . . . Phco9g01410 . . . . . . . . . . . . . . . . Vivi5g03358 .
   
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Select Species Gene Chromosome Start End Strand
Vra Vra2g1082 Chr2 12177567 12179678 -
Lapu Lapu5g00450 Chr5 3840603 3848074 +
Lja Lja3g2907 Chr3 49760515 49764989 +
Vivi Vivi5g03361 Chr5 124810078 124812348 +
Lapu Lapu5g00450 Chr5 3840603 3848074 +
Lja Lja3g2907 Chr3 49760515 49764989 +
Aed Aed5g0903 Chr5 6872808 6874517 -
Pvu Pvu11g1258 Chr11 21507492 21507751 -
Adu Adu03g01479 Chr03 22465706 22466296 -
Aed Aed5g0901 Chr5 6861706 6862818 -
Amo Amo03g0496 Chr03 9338488 9349245 +
Apr Apr3g1018 Chr3 24965614 24967595 -
Arst Arst3g01939 Chr3 22785474 22786110 -
Bva Bva07g01958 Chr07 17263470 17265411 +
Pste Pste1g03530 Chr1 16645022 16646227 -
Spst Spst11g00926 Chr11 33398682 33399832 -
Vra Vra2g1081 Chr2 12112997 12116982 -
Pvu Pvu11g1259 Chr11 21628581 21629202 -
Aed Aed5g0901 Chr5 6861706 6862818 -
Apr Apr3g1010 Chr3 24897644 24899279 +
Arst Arst3g02078 Chr3 25209351 25215812 +
Bva Bva07g00168 Chr07 2859913 2861485 +
Lan Lan7g0545 Chr7 4116640 4120665 +
Lasa Lasa7g01169 Chr7 214957172 214961501 +
Pste Pste1g03535 Chr1 16671201 16680962 -
Spst Spst11g00925 Chr11 33318069 33319309 +
Tsu Tsu02g01998 Chr02 19390149 19392008 -
Vivi Vivi5g03464 Chr5 126477934 126482177 -
Vra Vra2g1082 Chr2 12177567 12179678 -
Pvu Pvu11g1260 Chr11 21629431 21629767 -
Adu Adu03g01480 Chr03 22567525 22569853 -
Aed Aed5g0903 Chr5 6872808 6874517 -
Aip Aip03g01828 Chr03 22968867 22978113 -
Apr Apr3g1009 Chr3 24893225 24894666 +
Bach Bach9g01365 Chr9 11589227 11590974 -
Bva Bva07g01003 Chr07 11806388 11807977 +
Pste Pste1g03541 Chr1 16718617 16727240 -
Spst Spst11g00923 Chr11 33297945 33302725 +
Tsu Tsu02g02934 Chr02 32301293 32302281 +
Vivi Vivi5g03361 Chr5 124810078 124812348 +
Pvu Pvu11g1261 Chr11 22303320 22304088 +
Adu Adu03g01481 Chr03 22618446 22620775 -
Aed Aed5g0900 Chr5 6855923 6857738 -
Aip Aip03g01830 Chr03 23058865 23061623 -
Amo Amo03g0492 Chr03 9214957 9217360 +
Apr Apr3g1008 Chr3 24884138 24885360 +
Bva Bva07g00165 Chr07 2830223 2832271 +
Pste Pste1g03544 Chr1 16752338 16753722 -
Spst Spst11g00921 Chr11 33147667 33148033 +
Tsu Tsu02g01996 Chr02 19375478 19376759 +
Pvu Pvu11g1262 Chr11 22305735 22305752 +
Pvu Pvu11g1263 Chr11 22573264 22574265 +
Phco Phco9g01409 Chr9 30962695 30963105 -
Pvu Pvu11g1264 Chr11 22691175 22693465 -
Pvu Pvu11g1265 Chr11 22691350 22691535 +
Pvu Pvu11g1266 Chr11 22693297 22693482 +
Pvu Pvu11g1267 Chr11 23356990 23362143 +
Aed Aed5g0899 Chr5 6844143 6849604 -
Aev Aev04g2637 Chr04 26138354 26161544 +
Arst Arst3g01934 Chr3 22731349 22739095 -
Lapu Lapu5g00450 Chr5 3840603 3848074 +
Lja Lja3g2907 Chr3 49760515 49764989 +
Phco Phco9g01410 Chr9 31148163 31153228 +
Vivi Vivi5g03358 Chr5 124769297 124774475 -
Arst Arst3g02078 Chr3 25209351 25215812 +
Lan Lan7g0545 Chr7 4116640 4120665 +