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
Pvu11g1488 . . . . . . . . . . . Apr5g0016 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01636 . . . . . . Spst11g00740 . . . . . . . Vimu5g00423 . . Vra2g1093
Pvu11g1489 . . . . . . . . . . . Apr5g0017 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g03760 . . . Spst11g00738 . . . . . . . Vimu5g01075 . Vivi7g01274 Vra2g1091
Pvu11g1490 . . . . . . . . . . . Apr5g0018 . . . . . . . . . . . . . . . . . . . . . Lasa7g02760 . . . . . . . . . . . Phco9g01637 . . . . . . . . . . . . . . . . Vivi7g01268 .
Pvu11g1491 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1492 . . . Aed5g1042 . . . . . . . Apr5g0019 . . . . . . . . . . . . . . . . . . . . . Lasa7g02761 . . . . . . . . . . . . . . Pste1g03768 . . . . . . . . . . . Vimu5g01074 . Vivi7g01267 .
Pvu11g1493 . . . . . . . . . . . Apr5g0020 . . . Bva07g01858 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01639 . . Pste1g03773 . . . . . . . . . . . . . . .
Pvu11g1494 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1495 . . . Aed5g1044 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02762 . . . . . . . . . . . . . . Pste1g03960 . . . . Ssu3g1945 . . . . . . Vimu5g01073 . Vivi7g01264 .
Pvu11g1496 . . . Aed5g1045 . . . . . . . Apr5g0022 Arst7g03118 . . Bva07g01856 . . . . . . . . . . . . . . . . . Lasa7g02764 . . . . . . . . . . . Phco9g01640 . . Pste1g03776 . . . . . . . . Tsu02g03071 . . Vimu5g01072 . . Vra2g1173
Pvu11g1497 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu11g1488 Chr11 35275109 35286463 +
Apr Apr5g0016 Chr5 122025 126863 +
Phco Phco9g01636 Chr9 38573687 38576637 +
Spst Spst11g00740 Chr11 30524110 30527749 -
Vimu Vimu5g00423 Chr5 4070396 4075170 +
Vra Vra2g1093 Chr2 12853531 12857665 +
Pvu Pvu11g1489 Chr11 35468495 35473572 +
Apr Apr5g0017 Chr5 127460 132277 +
Pste Pste1g03760 Chr1 18453467 18457749 -
Spst Spst11g00738 Chr11 30500924 30504810 +
Vimu Vimu5g01075 Chr5 17661413 17666082 -
Vivi Vivi7g01274 Chr7 65412250 65413017 -
Vra Vra2g1091 Chr2 12769247 12774270 +
Pvu Pvu11g1490 Chr11 35642400 35649458 +
Apr Apr5g0018 Chr5 132885 137708 +
Lasa Lasa7g02760 Chr7 545427563 545429902 -
Phco Phco9g01637 Chr9 38577871 38578665 +
Vivi Vivi7g01268 Chr7 65217529 65220224 -
Pvu Pvu11g1491 Chr11 36190776 36191026 +
Pvu Pvu11g1492 Chr11 36428614 36431382 +
Aed Aed5g1042 Chr5 8299156 8303529 +
Apr Apr5g0019 Chr5 138305 143017 +
Lasa Lasa7g02761 Chr7 545474289 545476731 +
Pste Pste1g03768 Chr1 18517705 18521000 -
Vimu Vimu5g01074 Chr5 17611270 17615434 +
Vivi Vivi7g01267 Chr7 65217529 65220224 -
Pvu Pvu11g1493 Chr11 36598314 36600114 +
Apr Apr5g0020 Chr5 143753 152374 +
Bva Bva07g01858 Chr07 16778680 16779858 -
Phco Phco9g01639 Chr9 38650501 38655915 +
Pste Pste1g03773 Chr1 18541683 18555007 -
Pvu Pvu11g1494 Chr11 36608031 36608106 +
Pvu Pvu11g1495 Chr11 36609103 36611970 +
Aed Aed5g1044 Chr5 8332928 8337361 +
Lasa Lasa7g02762 Chr7 545498741 545499778 +
Pste Pste1g03960 Chr1 20746956 20755314 +
Ssu Ssu3g1945 Chr3 61961009 61961656 -
Vimu Vimu5g01073 Chr5 17496844 17497878 +
Vivi Vivi7g01264 Chr7 65112993 65116301 -
Pvu Pvu11g1496 Chr11 36865598 36870966 +
Aed Aed5g1045 Chr5 8349581 8352873 +
Apr Apr5g0022 Chr5 158762 164026 +
Arst Arst7g03118 Chr7 77465113 77466548 -
Bva Bva07g01856 Chr07 16766074 16771795 -
Lasa Lasa7g02764 Chr7 545879985 545882969 +
Phco Phco9g01640 Chr9 38721428 38726442 +
Pste Pste1g03776 Chr1 18589986 18594744 -
Tsu Tsu02g03071 Chr02 34062505 34069099 +
Vimu Vimu5g01072 Chr5 17483095 17483648 +
Vra Vra2g1173 Chr2 15548464 15552038 -
Pvu Pvu11g1497 Chr11 36899245 36900770 -