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
Vvi1g0501 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0992 . . . . . . . . . . Pvu3g0331 . . . . . . . . Sto11g0543 Sto6g2631 . . . . . . . . . . . . . . . Vivi4g04527 . .
Vvi1g0502 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal6g1050 . . . . . Lan11g1000 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0538 . . . . . . . . . . . . . . . . . . .
Vvi1g0503 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01564 . . . Cca06g00285 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mibi10g1802 . . . . . . . . . . . Pste1g03118 . . . . . Pumo8g00593 . Pvu3g0242 . Rops1g00037 . Seca10g05480 . Spst2g01976 Ssu2g1224 . Sto11g0525 . . . . . . . . . . Vifa3g03971 . . . Viun2g00554 . Vivi4g04544 . .
Vvi1g0504 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01563 . Car04g02879 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0510 Sto6g2626 . . . . . . . . . . . . . . . . . .
Vvi1g0505 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01562 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2625 . . . . . . . . . . . . . . . . . .
Vvi1g0506 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2591 . . . . . . . . . . . . . . . . . .
Vvi1g0507 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01561 Bva11g00615 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2590 . . . . . . . . . . . . . . . . . .
Vvi1g0508 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2589 . . . . . . . . . . . . . . . . . .
Vvi1g0509 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0510 . . . . . . . . . . . . . . . . . . . Apr3g1585 . . . . . . . Bva11g00614 Car06g01786 . . . . . . . . . . . . . . . . . . . . . . . . Lal15g0739 . . . . . . Lapu3g02536 . Lasa7g02942 . . . . . . . . . . . . . Mepo2g03036 . . . . . . . . . Phco4g01837 . . . . . Pste3g04105 . Pte14g00441 . . . . . Pvu2g0989 . . . . . Spst3g02275 . . . . . . . Trre7g01933 . . . . . . . Vimu11g02632 . . . Vivi5g03799 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0501 Chr1 4747886 4748620 +
Bva Bva01g01565 Chr01 17075320 17077260 -
Psa Psa6g0992 Chr6 38126377 38127341 +
Pvu Pvu3g0331 Chr3 3086738 3088652 -
Sto Sto11g0543 Chr11 6579780 6582664 -
Sto Sto6g2631 Chr6 33335902 33339608 -
Vivi Vivi4g04527 Chr4 172644752 172645555 -
Vvi Vvi1g0502 Chr1 4757268 4757989 +
Lal Lal6g1050 Chr6 7616544 7617977 +
Lan Lan11g1000 Chr11 10950697 10951958 -
Sto Sto11g0538 Chr11 6530863 6535336 -
Vvi Vvi1g0503 Chr1 4765651 4766985 +
Bva Bva01g01564 Chr01 17067111 17068252 -
Cca Cca06g00285 Chr06 7482087 7483902 -
Mibi Mibi10g1802 Chr10 40747483 40748614 +
Pste Pste1g03118 Chr1 14066307 14069445 -
Pumo Pumo8g00593 Chr8 20760872 20762882 -
Pvu Pvu3g0242 Chr3 2077713 2079698 +
Rops Rops1g00037 Chr1 1267373 1268616 +
Seca Seca10g05480 Chr10 124031185 124032772 -
Spst Spst2g01976 Chr2 18766095 18768224 -
Ssu Ssu2g1224 Chr2 53673245 53675808 -
Sto Sto11g0525 Chr11 6448408 6449726 -
Vifa Vifa3g03971 Chr3 1170779976 1170780515 -
Viun Viun2g00554 Chr2 13567574 13569528 -
Vivi Vivi4g04544 Chr4 172878311 172879420 -
Vvi Vvi1g0504 Chr1 4774561 4775302 +
Bva Bva01g01563 Chr01 17057029 17059562 -
Car Car04g02879 Chr04 55673942 55676234 -
Sto Sto11g0510 Chr11 6345361 6377484 -
Sto Sto6g2626 Chr6 33297613 33301142 +
Vvi Vvi1g0505 Chr1 4790524 4791907 +
Bva Bva01g01562 Chr01 17045988 17050671 -
Sto Sto6g2625 Chr6 33286259 33288517 +
Vvi Vvi1g0506 Chr1 4810644 4813388 +
Sto Sto6g2591 Chr6 32970510 32974885 -
Vvi Vvi1g0507 Chr1 4819725 4821147 +
Bva Bva01g01561 Chr01 17039039 17041896 -
Bva Bva11g00615 Chr11 9536647 9539384 -
Sto Sto6g2590 Chr6 32959749 32963740 -
Vvi Vvi1g0508 Chr1 4838827 4841552 +
Sto Sto6g2589 Chr6 32949852 32954327 -
Vvi Vvi1g0509 Chr1 4845220 4848344 -
Vvi Vvi1g0510 Chr1 4852951 4856279 -
Apr Apr3g1585 Chr3 30977607 30981301 +
Bva Bva11g00614 Chr11 9531299 9536206 +
Car Car06g01786 Chr06 17733422 17737754 -
Lal Lal15g0739 Chr15 5199055 5203048 -
Lapu Lapu3g02536 Chr3 47506319 47509409 -
Lasa Lasa7g02942 Chr7 561095798 561098315 +
Mepo Mepo2g03036 Chr2 39990507 39994235 +
Phco Phco4g01837 Chr4 35862709 35866106 -
Pste Pste3g04105 Chr3 36207033 36208684 +
Pte Pte14g00441 Chr14 22437716 22438528 +
Pvu Pvu2g0989 Chr2 17623496 17626857 -
Spst Spst3g02275 Chr3 65774526 65777344 -
Trre Trre7g01933 Chr7 15256583 15260310 -
Vimu Vimu11g02632 Chr11 46711979 46714870 -
Vivi Vivi5g03799 Chr5 131976086 131978840 +