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
Vvi17g0703 . . . . . . . . . . . Ahy20g2656 . Aip10g03099 . . . Amo20g3436 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0704 . . . . . . . . . . . Ahy20g2657 . Aip10g03100 . . . Amo20g3440 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g2288 . . . . . . . Mtr3g2533 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0705 . . . . . . . . . . . Ahy20g2665 . Aip10g03103 . . . . . . . . . . . . . . . . . . . . . Dod02g2413 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0706 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0707 . . . . . . . . . . . Ahy20g2667 . Aip10g03107 . . . Amo20g3452 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g2291 . . . . . . . Mtr3g2530 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0708 . . . . . . . . . . . Ahy20g2668 . Aip10g03109 . . . Amo20g3456 . . . . . . . . . . . . . . . . . Dod02g2412 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g2293 . . . . . . . Mtr3g2527 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0709 . . . . . . . . . . . Ahy20g2443 . Aip10g02876 . . . . Apr1g0966 . . . . . . . Bva06g01161 . . Car05g00736 Cca03g00643 . . . . Dod09g0468 . . . . Gma06g01810 . . . Gso6g1707 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5574 . . Mal2g5050 . Mepo5g02850 . . . . . Mtr3g0600 . . . Phco7g02319 . . . Psa5g4657 . Pste2g00496 . . . Pte1g02286 . . . Pvu9g1997 . . . . . . Ssu1g2053 . Sto3g1607 . . . . Trre5g01755 . Tsu03g00575 . . . . . . . . . . Vra3g1127 .
Vvi17g0710 . . . . Adu03g03499 . . . . . . . . . . . . . . Apr9g2965 . . . . . . . Bva05g00536 Car07g00901 . . Cca11g02002 . . . . . . . . . . Gma05g00217 Gma17g00730 . . . . . . Lal14g1890 . . . . . . . . . . . . . . . . . . . . . . Lja4g2096 Mal5g4312 . . . . . . . Mtr4g3972 . . . Phco8g02782 . . . Psa4g1120 . . . . . . . . . Pvu3g0609 . . . . . Spst3g02089 . . Ssu6g1213 . . Tpr5g3079 . . . Tsu04g03744 . . . . . Vimu11g01142 . . . . . . Vra7g1932
Vvi17g0711 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0712 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto12g0954 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu03g03499 Chr03 122443849 122447665 -
Phco Phco8g02782 Chr8 40981487 40985637 +
Pvu Pvu3g0609 Chr3 7863232 7868107 -
Spst Spst3g02089 Chr3 57385896 57390090 -
Vimu Vimu11g01142 Chr11 12222830 12227158 +
Vvi Vvi17g0703 Chr17 7760046 7761340 -
Ahy Ahy20g2656 Chr20 136089451 136092543 -
Aip Aip10g03099 Chr10 128221421 128224344 -
Amo Amo20g3436 Chr20 143801195 143804254 -
Vvi Vvi17g0704 Chr17 7777018 7784341 -
Ahy Ahy20g2657 Chr20 136140226 136144143 -
Aip Aip10g03100 Chr10 128261282 128327482 -
Amo Amo20g3440 Chr20 143851782 143855529 -
Mal Mal2g2288 Chr2 28456099 28463660 +
Mtr Mtr3g2533 Chr3 39302311 39306544 -
Vvi Vvi17g0705 Chr17 7802591 7804070 -
Ahy Ahy20g2665 Chr20 136266838 136270536 -
Aip Aip10g03103 Chr10 128373374 128385297 -
Dod Dod02g2413 Chr02 53123263 53125831 -
Vvi Vvi17g0706 Chr17 7811243 7816538 -
Vvi Vvi17g0707 Chr17 7856461 7857894 -
Ahy Ahy20g2667 Chr20 136301622 136304078 +
Aip Aip10g03107 Chr10 128416242 128418772 +
Amo Amo20g3452 Chr20 144004361 144006926 +
Mal Mal2g2291 Chr2 28492720 28496580 +
Mtr Mtr3g2530 Chr3 39272719 39275133 -
Vvi Vvi17g0708 Chr17 7861011 7862576 -
Ahy Ahy20g2668 Chr20 136349701 136353838 +
Aip Aip10g03109 Chr10 128457596 128461354 +
Amo Amo20g3456 Chr20 144052573 144056277 +
Dod Dod02g2412 Chr02 53086773 53093350 -
Mal Mal2g2293 Chr2 28529854 28532914 +
Mtr Mtr3g2527 Chr3 39252487 39258765 -
Vvi Vvi17g0709 Chr17 7896602 7901222 -
Ahy Ahy20g2443 Chr20 130274793 130277295 +
Aip Aip10g02876 Chr10 122790662 122793107 +
Apr Apr1g0966 Chr1 14303353 14306274 -
Bva Bva06g01161 Chr06 9173549 9175459 +
Car Car05g00736 Chr05 41703800 41709106 +
Cca Cca03g00643 Chr03 11353497 11359122 -
Dod Dod09g0468 Chr09 6895483 6897131 -
Gma Gma06g01810 Chr06 18885251 18889488 -
Gso Gso6g1707 Chr6 18548644 18552902 -
Lja Lja1g5574 Chr1 97234128 97237405 -
Mal Mal2g5050 Chr2 117918754 117921551 +
Mepo Mepo5g02850 Chr5 34546312 34550992 -
Mtr Mtr3g0600 Chr3 7935966 7938071 -
Phco Phco7g02319 Chr7 40780106 40783092 +
Psa Psa5g4657 Chr5 413423555 413428656 -
Pste Pste2g00496 Chr2 4568635 4574706 +
Pte Pte1g02286 Chr1 43592467 43594619 -
Pvu Pvu9g1997 Chr9 28668624 28671983 +
Ssu Ssu1g2053 Chr1 58269775 58270787 +
Sto Sto3g1607 Chr3 11990412 11990764 -
Trre Trre5g01755 Chr5 12896234 12899761 -
Tsu Tsu03g00575 Chr03 4929782 4932706 +
Vra Vra3g1127 Chr3 11807399 11810780 +
Vvi Vvi17g0710 Chr17 7901600 7907331 +
Adu Adu03g03499 Chr03 122443849 122447665 -
Apr Apr9g2965 Chr9 36528104 36532783 -
Bva Bva05g00536 Chr05 2629546 2633776 +
Car Car07g00901 Chr07 8012313 8016986 -
Cca Cca11g02002 Chr11 45447479 45455963 +
Gma Gma05g00217 Chr05 2000514 2005486 -
Gma Gma17g00730 Chr17 6172741 6176867 +
Lal Lal14g1890 Chr14 18329883 18334339 -
Lja Lja4g2096 Chr4 22535407 22540928 -
Mal Mal5g4312 Chr5 114193922 114197131 +
Mtr Mtr4g3972 Chr4 53474338 53478842 +
Phco Phco8g02782 Chr8 40981487 40985637 +
Psa Psa4g1120 Chr4 80862020 80867176 +
Pvu Pvu3g0609 Chr3 7863232 7868107 -
Spst Spst3g02089 Chr3 57385896 57390090 -
Ssu Ssu6g1213 Chr6 19845634 19850982 -
Tpr Tpr5g3079 Chr5 53624062 53628556 +
Tsu Tsu04g03744 Chr04 46400956 46404126 +
Vimu Vimu11g01142 Chr11 12222830 12227158 +
Vra Vra7g1932 Chr7 38834528 38840887 +
Vvi Vvi17g0711 Chr17 7908220 7909212 -
Vvi Vvi17g0712 Chr17 7909848 7916188 +
Sto Sto12g0954 Chr12 5910118 5915393 +