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
Vvi3g0443 . . . . . . . . Aev03g0250 Aev05g0659 Ahy20g1618 Ahy15g0627 Aip10g01890 Aip05g00631 . . . . Apr3g1644 . . . . . . . Bva13g00306 . Car06g01740 Car08g00489 . . . . . Dod02g0719 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0323 Mal7g3345 . . . . . . . Mtr4g2782 . . . . Phco8g02926 . . Psa7g2900 Psa2g3811 . . . . . . . . . Pvu3g0499 . . . . . Spst3g02202 . . Sto2g0592 . Tpr2g3597 . . . Tsu02g03316 . . . . . . Vimu11g01215 . . . . . .
Vvi3g0444 . . . . . . . . Aev03g0249 . Ahy20g1626 . Aip10g01894 . . . Amo20g1911 . Apr3g1645 . . . . . . . Bva13g00305 Bva14g00383 Car06g01738 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3346 . . . . . . . Mtr4g2783 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0593 Sto10g0263 Tpr2g3596 . . . Tsu02g03319 . . . . . . . . . . . . .
Vvi3g0445 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0446 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0447 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0448 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0449 . . . . . . . . Aev03g0910 . Ahy20g1373 . Aip10g01535 . . . Amo20g1427 . Apr3g1646 . . . . . . . Bva13g00304 Bva14g00382 Car06g01737 . . . . . Dod04g0375 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3347 . . . . . . . Mtr4g2784 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0262 Tpr2g3595 . . . Tsu02g03320 . . . . . . . . . . . . .
Vvi3g0450 . . . . . . . . . . Ahy20g1629 . Aip10g01899 . . . . . Apr3g1648 . . . . . . . Bva13g00302 Bva14g00381 Car06g01735 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3349 . . . . . . . Mtr4g2786 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0594 Sto10g0261 Tpr2g3591 . . . Tsu02g03322 . . . . . . . . . . . . .
Vvi3g0451 . . . . . . . . . . . . Aip10g01961 . . . . . Apr3g1649 . . . . . . . Bva13g00301 . Car06g01734 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02483 . . . . . . . . . . . . Mal7g3350 . . . . . . . Mtr4g2787 . . . . Phco8g00073 . . Psa7g2893 . . . . . . . . . . Pvu3g3001 . . . . . Spst3g02195 . . Sto2g0595 . Tpr2g3590 . . . Tsu02g03323 . . . . . . Vimu11g01205 . . . . . .
Vvi3g0452 . . . . . Adu10g01383 . . . . . . . . . . . . Apr3g1650 . . . . . . . Bva13g00300 . Car06g01733 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02482 . . . . . . . . . . . . Mal7g3351 . . . . . . . Mtr4g2788 . . . . Phco8g00072 . . . . . . . . . . . . . Pvu3g3002 . . . . . Spst3g02194 . . Sto2g0596 . Tpr2g3588 . . . Tsu02g03325 . . . . . . Vimu11g01203 . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0443 Chr3 3812983 3816356 -
Aev Aev03g0250 Chr03 1922441 1925394 +
Aev Aev05g0659 Chr05 4570934 4573733 -
Ahy Ahy20g1618 Chr20 61962247 61970359 -
Ahy Ahy15g0627 Chr15 8119563 8123438 +
Aip Aip10g01890 Chr10 58809978 58817478 -
Aip Aip05g00631 Chr05 7839106 7842844 +
Apr Apr3g1644 Chr3 31957667 31961894 -
Bva Bva13g00306 Chr13 1439258 1441968 +
Car Car06g01740 Chr06 17207731 17211630 +
Car Car08g00489 Chr08 4105500 4110482 -
Dod Dod02g0719 Chr02 9356545 9360881 -
Lja Lja2g0323 Chr2 2909192 2913525 +
Mal Mal7g3345 Chr7 98212346 98215410 -
Mtr Mtr4g2782 Chr4 41513836 41516263 -
Phco Phco8g02926 Chr8 43088957 43092426 +
Psa Psa7g2900 Chr7 207998436 208000550 -
Psa Psa2g3811 Chr2 403319460 403323339 +
Pvu Pvu3g0499 Chr3 5787258 5791131 -
Spst Spst3g02202 Chr3 61559172 61562925 +
Sto Sto2g0592 Chr2 5013404 5018327 -
Tpr Tpr2g3597 Chr2 39076315 39079143 +
Tsu Tsu02g03316 Chr02 37133328 37135451 -
Vimu Vimu11g01215 Chr11 13231131 13234845 +
Vvi Vvi3g0444 Chr3 3822850 3829739 +
Aev Aev03g0249 Chr03 1911324 1916527 -
Ahy Ahy20g1626 Chr20 63303137 63308494 +
Aip Aip10g01894 Chr10 59985502 59990155 +
Amo Amo20g1911 Chr20 69266546 69270621 -
Apr Apr3g1645 Chr3 31975119 31980689 +
Bva Bva13g00305 Chr13 1431578 1436424 -
Bva Bva14g00383 Chr14 1898712 1903507 -
Car Car06g01738 Chr06 17180733 17185872 -
Mal Mal7g3346 Chr7 98222957 98228968 +
Mtr Mtr4g2783 Chr4 41518911 41524420 +
Sto Sto2g0593 Chr2 5023710 5028796 +
Sto Sto10g0263 Chr10 2122134 2125878 -
Tpr Tpr2g3596 Chr2 39064339 39075640 -
Tsu Tsu02g03319 Chr02 37168534 37174166 +
Vvi Vvi3g0445 Chr3 3833048 3835366 -
Vvi Vvi3g0446 Chr3 3842924 3845209 -
Vvi Vvi3g0447 Chr3 3848609 3850918 -
Vvi Vvi3g0448 Chr3 3852062 3854362 -
Vvi Vvi3g0449 Chr3 3855205 3856800 -
Aev Aev03g0910 Chr03 7478163 7480184 +
Ahy Ahy20g1373 Chr20 30358039 30360027 -
Aip Aip10g01535 Chr10 28640554 28642542 -
Amo Amo20g1427 Chr20 31832436 31834424 +
Apr Apr3g1646 Chr3 31981311 31984401 -
Bva Bva13g00304 Chr13 1428638 1431429 +
Bva Bva14g00382 Chr14 1895867 1898593 +
Car Car06g01737 Chr06 17176819 17180223 +
Dod Dod04g0375 Chr04 4962369 4963544 +
Mal Mal7g3347 Chr7 98229912 98231504 -
Mtr Mtr4g2784 Chr4 41524663 41528234 -
Sto Sto10g0262 Chr10 2118988 2120583 +
Tpr Tpr2g3595 Chr2 39060231 39063779 +
Tsu Tsu02g03320 Chr02 37175316 37184851 -
Vvi Vvi3g0450 Chr3 3867153 3870677 -
Ahy Ahy20g1629 Chr20 64213956 64217298 -
Aip Aip10g01899 Chr10 60813744 60817081 -
Apr Apr3g1648 Chr3 31997343 31999436 -
Bva Bva13g00302 Chr13 1425901 1427861 +
Bva Bva14g00381 Chr14 1892295 1895003 +
Car Car06g01735 Chr06 17162596 17164884 +
Mal Mal7g3349 Chr7 98274274 98277073 -
Mtr Mtr4g2786 Chr4 41543946 41547179 -
Sto Sto2g0594 Chr2 5034057 5035682 -
Sto Sto10g0261 Chr10 2111540 2114071 +
Tpr Tpr2g3591 Chr2 39043520 39046496 +
Tsu Tsu02g03322 Chr02 37201202 37204471 -
Vvi Vvi3g0451 Chr3 3872536 3880620 -
Aip Aip10g01961 Chr10 71529100 71531556 -
Apr Apr3g1649 Chr3 32001035 32005824 -
Bva Bva13g00301 Chr13 1421540 1425413 +
Car Car06g01734 Chr06 17155088 17158675 +
Lapu Lapu3g02483 Chr3 46789515 46794772 +
Mal Mal7g3350 Chr7 98279119 98283899 -
Mtr Mtr4g2787 Chr4 41548620 41552329 -
Phco Phco8g00073 Chr8 639570 644142 +
Psa Psa7g2893 Chr7 207075196 207078904 -
Pvu Pvu3g3001 Chr3 51745866 51751608 -
Spst Spst3g02195 Chr3 61512602 61517131 +
Sto Sto2g0595 Chr2 5037234 5041631 -
Tpr Tpr2g3590 Chr2 39038198 39042589 +
Tsu Tsu02g03323 Chr02 37206373 37210524 -
Vimu Vimu11g01205 Chr11 13138666 13143655 +
Vvi Vvi3g0452 Chr3 3882126 3886462 +
Adu Adu10g01383 Chr10 48673364 48676895 +
Apr Apr3g1650 Chr3 32007470 32012092 +
Bva Bva13g00300 Chr13 1418266 1421280 -
Car Car06g01733 Chr06 17150437 17154162 -
Lapu Lapu3g02482 Chr3 46778370 46782530 -
Mal Mal7g3351 Chr7 98285721 98288889 +
Mtr Mtr4g2788 Chr4 41552692 41556117 +
Phco Phco8g00072 Chr8 634407 638197 -
Pvu Pvu3g3002 Chr3 51753237 51757233 +
Spst Spst3g02194 Chr3 61509479 61510188 -
Sto Sto2g0596 Chr2 5044301 5047335 +
Tpr Tpr2g3588 Chr2 39024407 39028322 -
Tsu Tsu02g03325 Chr02 37236587 37240838 +
Vimu Vimu11g01203 Chr11 13129443 13133104 -
Aev Aev05g0659 Chr05 4570934 4573733 -
Ahy Ahy15g0627 Chr15 8119563 8123438 +
Aip Aip05g00631 Chr05 7839106 7842844 +
Dod Dod02g0719 Chr02 9356545 9360881 -
Lja Lja2g0323 Chr2 2909192 2913525 +
Car Car08g00489 Chr08 4105500 4110482 -
Aev Aev03g0910 Chr03 7478163 7480184 +
Ahy Ahy20g1373 Chr20 30358039 30360027 -
Aip Aip10g01535 Chr10 28640554 28642542 -
Amo Amo20g1427 Chr20 31832436 31834424 +
Dod Dod04g0375 Chr04 4962369 4963544 +