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
Vvi3g0923 . . . . . . . . . . . . . . . . . . Apr3g1928 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3737 . . . . . . . Mtr4g3108 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g1735 . . . Tsu02g01720 . . . . . . . . . . . . .
Vvi3g0924 . . . . . Adu03g03290 Aed10g2012 . . . . . . . . . . . . . . Arst3g04273 . . . . Bva13g00979 Bva14g01153 . . Cca09g01381 . . . . . . . . . . . . . . . . . Lal15g0565 Lal23g0996 . . . . Lan18g0609 Lan18g0609 . . . . . Lapu3g02921 . Lasa7g03435 . . . . . . . . . . . . . Mepo2g03419 . Mesa13g01730 . . . . . Phac2g03279 . Phco4g02482 . . Psa7g2402 . . Pste3g03527 . . . . . Pumo6g01738 . Pvu2g2233 . Rops2g01902 . Seca12g05062 . Spst3g00461 . . . . . . . Trre7g03851 . . . Vian1g03078 . Vifa6g02297 . Vimu11g03427 . Viun3g01639 . Vivi5g04333 Vra7g1573 .
Vvi3g0925 . . . . . Adu03g03289 . . . . . . . . . . . . . . . . . Bach11g00804 . . Bva13g00978 Bva14g01152 Car06g01457 . Cca09g01382 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g3956 . . . Mepo2g03420 . . . . . . . . . Phco4g02481 . . . . . . . . . . . Pumo6g01737 . Pvu2g2232 . Rops2g01900 . . . . . . . . . . . Trre7g03853 . . . Vian1g03077 . . . Vimu11g03426 . Viun3g01640 . . Vra7g1572 .
Vvi3g0926 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0927 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal11g0110 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0928 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0929 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0930 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0931 . . . . Adu10g00442 Adu03g03288 Aed10g2014 . Aev04g0724 . Ahy20g0644 . Aip10g00649 . . . Amo20g0711 . Apr3g1929 Apr1g1297 Arst10g00570 Arst3g04271 . Bach11g00803 . . Bva13g00976 Bva14g01151 . Car01g00204 Cca09g01383 . . . . . . . . . Gma15g00586 . . . Gso15g0531 . . . Lal15g0564 . . Lal3g0052 . . Lan18g0610 . . Lan18g0610 . . Lapu6g01142 . . Lasa7g03436 . . . . . . . . . Lja4g3958 Mal7g3739 . . Mepo2g03421 . Mesa13g01728 . . Mtr4g3109 . Phac6g02851 Phac2g03277 Phco11g00272 Phco4g02480 . . Psa7g2401 Psa1g4854 Pste2g01817 Pste3g03524 . . . . . Pumo6g01736 Pvu6g2051 Pvu2g2231 . Rops2g01898 . Seca12g05063 Spst6g00641 Spst3g00459 Ssu5g1834 . Sto2g2831 . Tpr3g1734 . . Trre7g03854 Tsu02g01718 . . Vian1g03076 . Vifa6g02295 Vimu2g00513 Vimu11g03422 . Viun3g01641 Vivi5g04335 Vivi5g04335 Vra7g1571 .
Vvi3g0932 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g01456 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g3205 Lja4g3960 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0923 Chr3 9286544 9295905 -
Apr Apr3g1928 Chr3 35290081 35294698 -
Mal Mal7g3737 Chr7 103035057 103036805 -
Mtr Mtr4g3108 Chr4 44658676 44662972 -
Tpr Tpr3g1735 Chr3 15379265 15382834 +
Tsu Tsu02g01720 Chr02 15136712 15140377 +
Vvi Vvi3g0924 Chr3 9296882 9309342 +
Adu Adu03g03290 Chr03 119297804 119302893 -
Aed Aed10g2012 Chr10 24118760 24130365 +
Arst Arst3g04273 Chr3 118021108 118026159 -
Bva Bva13g00979 Chr13 4709380 4714224 -
Bva Bva14g01153 Chr14 5611786 5617463 -
Cca Cca09g01381 Chr09 37045608 37052361 +
Lal Lal15g0565 Chr15 3910136 3916103 -
Lal Lal23g0996 Chr23 11861757 11868226 +
Lan Lan18g0609 Chr18 11157153 11163863 +
Lan Lan18g0609 Chr18 11157153 11163863 +
Lapu Lapu3g02921 Chr3 52269379 52275848 -
Lasa Lasa7g03435 Chr7 596319159 596323412 +
Mepo Mepo2g03419 Chr2 43904339 43909763 +
Mesa Mesa13g01730 Chr13 20546412 20548085 -
Phac Phac2g03279 Chr2 34347427 34354049 -
Phco Phco4g02482 Chr4 46005787 46011744 -
Psa Psa7g2402 Chr7 170245672 170250566 -
Pste Pste3g03527 Chr3 27712488 27718331 -
Pumo Pumo6g01738 Chr6 26177895 26189600 -
Pvu Pvu2g2233 Chr2 37966682 37973155 -
Rops Rops2g01902 Chr2 29879659 29884130 -
Seca Seca12g05062 Chr12 137639050 137646226 +
Spst Spst3g00461 Chr3 7713926 7720183 -
Trre Trre7g03851 Chr7 46806758 46810907 +
Vian Vian1g03078 Chr1 51285809 51295228 -
Vifa Vifa6g02297 Chr6 802928231 802931828 -
Vimu Vimu11g03427 Chr11 55457578 55467601 -
Viun Viun3g01639 Chr3 11337554 11347869 +
Vivi Vivi5g04333 Chr5 140825394 140829368 +
Vra Vra7g1573 Chr7 34009136 34018758 -
Vvi Vvi3g0925 Chr3 9310215 9311966 -
Adu Adu03g03289 Chr03 119294806 119297669 +
Bach Bach11g00804 Chr11 6716063 6717814 +
Bva Bva13g00978 Chr13 4707084 4708994 +
Bva Bva14g01152 Chr14 5608362 5611511 +
Car Car06g01457 Chr06 14072302 14074243 +
Cca Cca09g01382 Chr09 37053838 37055736 -
Lja Lja4g3956 Chr4 72563775 72567039 -
Mepo Mepo2g03420 Chr2 43911416 43915562 -
Phco Phco4g02481 Chr4 46002301 46004049 +
Pumo Pumo6g01737 Chr6 26173210 26177177 +
Pvu Pvu2g2232 Chr2 37961664 37965701 +
Rops Rops2g01900 Chr2 29872872 29876960 +
Trre Trre7g03853 Chr7 46831135 46831593 -
Vian Vian1g03077 Chr1 51282197 51283945 +
Vimu Vimu11g03426 Chr11 55452007 55456397 +
Viun Viun3g01640 Chr3 11349418 11353597 -
Vra Vra7g1572 Chr7 34002154 34006278 +
Vvi Vvi3g0926 Chr3 9312007 9314129 -
Vvi Vvi3g0927 Chr3 9337591 9338076 +
Lal Lal11g0110 Chr11 737145 740626 +
Vvi Vvi3g0928 Chr3 9340156 9341529 +
Vvi Vvi3g0929 Chr3 9342100 9347072 +
Vvi Vvi3g0930 Chr3 9373663 9376239 +
Vvi Vvi3g0931 Chr3 9386059 9388788 -
Adu Adu10g00442 Chr10 5115791 5119177 -
Adu Adu03g03288 Chr03 119291083 119294087 +
Aed Aed10g2014 Chr10 24133253 24136950 -
Aev Aev04g0724 Chr04 4457057 4460442 -
Ahy Ahy20g0644 Chr20 7007757 7011490 -
Aip Aip10g00649 Chr10 6789503 6793016 -
Amo Amo20g0711 Chr20 10381736 10385079 +
Apr Apr3g1929 Chr3 35297409 35300662 -
Apr Apr1g1297 Chr1 21908015 21911531 +
Arst Arst10g00570 Chr10 4765195 4768915 -
Arst Arst3g04271 Chr3 118014285 118017143 +
Bach Bach11g00803 Chr11 6708031 6710539 +
Bva Bva13g00976 Chr13 4700418 4703313 +
Bva Bva14g01151 Chr14 5602864 5607054 +
Car Car01g00204 Chr01 1567875 1576825 +
Cca Cca09g01383 Chr09 37059325 37063097 -
Gma Gma15g00586 Chr15 4847571 4855754 +
Gso Gso15g0531 Chr15 4770348 4773081 +
Lal Lal15g0564 Chr15 3905803 3909811 +
Lal Lal3g0052 Chr3 308503 310901 +
Lan Lan18g0610 Chr18 11164414 11168430 -
Lan Lan18g0610 Chr18 11164414 11168430 -
Lapu Lapu6g01142 Chr6 11363662 11371591 +
Lasa Lasa7g03436 Chr7 596340995 596343450 -
Lja Lja4g3958 Chr4 72575328 72579258 -
Mal Mal7g3739 Chr7 103047007 103056204 -
Mepo Mepo2g03421 Chr2 43919204 43923176 -
Mesa Mesa13g01728 Chr13 20532201 20535765 +
Mtr Mtr4g3109 Chr4 44666177 44670285 -
Phac Phac6g02851 Chr6 25342621 25347106 -
Phac Phac2g03277 Chr2 34333335 34336867 +
Phco Phco11g00272 Chr11 1784013 1791230 +
Phco Phco4g02480 Chr4 45994591 45997784 +
Psa Psa7g2401 Chr7 170207135 170209581 +
Psa Psa1g4854 Chr1 362119427 362123039 -
Pste Pste2g01817 Chr2 18539129 18542019 +
Pste Pste3g03524 Chr3 27700275 27703916 +
Pumo Pumo6g01736 Chr6 26165637 26169378 +
Pvu Pvu6g2051 Chr6 30321550 30325241 -
Pvu Pvu2g2231 Chr2 37955197 37958420 +
Rops Rops2g01898 Chr2 29860089 29862345 +
Seca Seca12g05063 Chr12 137662458 137667490 -
Spst Spst6g00641 Chr6 5816365 5819606 +
Spst Spst3g00459 Chr3 7702567 7705552 +
Ssu Ssu5g1834 Chr5 54708553 54711907 -
Sto Sto2g2831 Chr2 41818890 41821237 +
Tpr Tpr3g1734 Chr3 15370215 15374914 +
Trre Trre7g03854 Chr7 46837693 46840509 -
Tsu Tsu02g01718 Chr02 15107128 15110404 +
Vian Vian1g03076 Chr1 51269191 51271954 +
Vifa Vifa6g02295 Chr6 802450209 802452689 -
Vimu Vimu2g00513 Chr2 2953177 2956068 +
Vimu Vimu11g03422 Chr11 55436266 55438973 +
Viun Viun3g01641 Chr3 11356050 11359429 -
Vivi Vivi5g04335 Chr5 140839909 140842780 -
Vivi Vivi5g04335 Chr5 140839909 140842780 -
Vra Vra7g1571 Chr7 33988094 33990978 +
Vvi Vvi3g0932 Chr3 9395125 9397857 -
Car Car06g01456 Chr06 14063909 14068364 +
Lja Lja6g3205 Chr6 60469093 60473030 -
Lja Lja4g3960 Chr4 72606312 72612065 -