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
Vvi3g0993 Acco06g2350 . Accr5g00773 . Adu10g00456 . . . Aev04g0737 . Ahy20g0658 . Aip10g00664 . Alju03g1050 . Amo20g0446 . . . Arst10g00588 . Bach7g00811 . Bisa07g0698 . . . . . . . . . Dod03g0256 . Enph4g0577 . Glsi11g2557 . . . . . . . . . . . . . . . . . . . . . Lapu6g01129 . Lasa1g00265 . Lele13g0618 Lele14g0519 Lele15g1865 Lele16g1892 . . . . . . . . Mepo6g00257 . Mesa5g04403 . Mibi06g0805 . . . Phac6g02865 . Phco11g00261 . Prci3g0784 . . . Pste2g01799 . . Pte2g00732 . . Pumo2g00995 . Pvu6g2063 . Rops11g00352 . Seca6g05057 . Spst6g00629 . . . . Sto13g2573 . . Trre3g00285 . . . Vian6g01908 . Vifa1g10678 . Vimu2g00500 . Viun6g02973 . Vivi5g05026 . . .
Vvi3g0994 . . . . Adu10g00454 . . . . . . . . . . . . . . . Arst10g00586 . Bach7g00809 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01131 . Lasa1g00266 . . . . . . . . . . . . . Mepo6g00258 . Mesa5g04402 . . . . . . . Phco11g00263 . . . . . . . . Pte2g00734 . . . . Pvu6g2061 . Rops11g00354 . Seca6g05055 . Spst6g00631 . . . . . . . Trre3g00286 . . . Vian6g01906 . Vifa1g10676 . Vimu2g00502 . Viun6g02971 . Vivi1g08516 . . .
Vvi3g0995 Acco06g2347 . Accr5g00777 . Adu10g00453 . . . . . . . Aip10g00660 . Alju03g1053 . . . . . Arst10g00585 . Bach7g00808 . Bisa07g0701 . . . . . . . . . Dod03g0258 . Enph4g0581 . Glsi11g2555 . . . . . . . . . . . . . . . . . . . . . Lapu6g01132 . Lasa1g00267 . Lele13g0620 Lele14g0524 Lele15g1862 Lele16g1889 . . . . . . . . . . Mesa5g04401 . Mibi06g0808 . . . Phac6g02862 . Phco11g00264 . Prci3g0793 . . . Pste2g01802 . . . . . Pumo2g00992 . Pvu6g2060 . . . Seca6g05054 . Spst6g00632 . . . . Sto13g2576 . . Trre3g00287 . . . Vian6g01905 . . . Vimu2g00503 . Viun6g02970 . Vivi1g08515 . . .
Vvi3g0996 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0997 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0998 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0999 . . . . Adu10g00438 . . . . . Ahy20g0640 . Aip10g00646 . . . Amo20g0715 . . . Arst10g00563 . . . . . . . . . . . . . Dod03g0272 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa1g05176 . . . . . . . . . . . . . . . . . . . . . Phac6g02843 . . . . . . Psa1g4881 . . . . . . Pumo2g00972 . Pvu6g2047 . Rops11g00382 . Seca6g05041 . . . . . . . . . Trre3g00311 . . . Vian6g01890 . Vifa1g10661 . . . . . Vivi1g08490 . . .
Vvi3g1000 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1001 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu10g00438 Chr10 5093706 5097487 -
Ahy Ahy20g0640 Chr20 6962197 6963207 -
Aip Aip10g00646 Chr10 6745347 6746254 -
Amo Amo20g0715 Chr20 10444098 10445022 +
Arst Arst10g00563 Chr10 4702806 4703303 +
Dod Dod03g0272 Chr03 2897020 2897869 +
Lasa Lasa1g05176 Chr1 833967171 833967674 +
Phac Phac6g02843 Chr6 25303441 25304156 -
Pumo Pumo2g00972 Chr2 14555836 14556360 +
Pvu Pvu6g2047 Chr6 30296708 30297398 -
Rops Rops11g00382 Chr11 5216392 5216889 +
Seca Seca6g05041 Chr6 117643800 117681846 -
Trre Trre3g00311 Chr3 2043922 2044398 +
Vian Vian6g01890 Chr6 36183790 36188802 -
Vifa Vifa1g10661 Chr1 1791959493 1791959981 -
Vivi Vivi1g08490 Chr1 243079865 243080694 -
Vvi Vvi3g0993 Chr3 11113868 11140400 +
Acco Acco06g2350 Chr06 19274808 19284158 -
Accr Accr5g00773 Chr5 32147548 32156095 +
Adu Adu10g00456 Chr10 5231266 5239706 -
Aev Aev04g0737 Chr04 4526931 4533488 -
Ahy Ahy20g0658 Chr20 7128721 7137042 -
Aip Aip10g00664 Chr10 6896735 6906940 -
Alju Alju03g1050 Chr03 38240121 38254577 +
Amo Amo20g0446 Chr20 5509177 5517648 -
Arst Arst10g00588 Chr10 4881019 4889353 -
Bach Bach7g00811 Chr7 19289030 19298522 -
Bisa Bisa07g0698 Chr07 18319017 18329191 +
Dod Dod03g0256 Chr03 2716814 2721979 +
Enph Enph4g0577 Chr4 19578170 19587914 +
Glsi Glsi11g2557 Chr11 18158535 18168035 -
Lapu Lapu6g01129 Chr6 11264354 11274424 +
Lasa Lasa1g00265 Chr1 17374769 17387992 +
Lele Lele13g0618 Chr13 18360302 18368188 +
Lele Lele14g0519 Chr14 16885395 16889466 +
Lele Lele15g1865 Chr15 11410671 11419332 -
Lele Lele16g1892 Chr16 11329429 11334207 -
Mepo Mepo6g00257 Chr6 2492484 2503002 +
Mesa Mesa5g04403 Chr5 73180676 73190052 -
Mibi Mibi06g0805 Chr06 26805954 26816898 +
Phac Phac6g02865 Chr6 25428671 25437222 -
Phco Phco11g00261 Chr11 1708324 1715860 +
Prci Prci3g0784 Chr3 10020864 10039403 +
Pste Pste2g01799 Chr2 18407857 18418711 +
Pte Pte2g00732 Chr2 6002067 6006519 +
Pumo Pumo2g00995 Chr2 15017867 15025111 -
Pvu Pvu6g2063 Chr6 30399327 30407643 -
Rops Rops11g00352 Chr11 4850153 4861206 +
Seca Seca6g05057 Chr6 117799891 117809933 -
Spst Spst6g00629 Chr6 5701613 5709405 +
Sto Sto13g2573 Chr13 31851179 31858630 +
Trre Trre3g00285 Chr3 1906730 1915041 +
Vian Vian6g01908 Chr6 36302835 36310962 -
Vifa Vifa1g10678 Chr1 1794093333 1794111254 -
Vimu Vimu2g00500 Chr2 2841324 2849319 +
Viun Viun6g02973 Chr6 32637653 32646251 -
Vivi Vivi5g05026 Chr5 150907602 150910077 -
Vvi Vvi3g0994 Chr3 11174085 11174582 +
Adu Adu10g00454 Chr10 5224354 5225104 -
Arst Arst10g00586 Chr10 4874022 4874780 -
Bach Bach7g00809 Chr7 19279544 19280020 -
Lapu Lapu6g01131 Chr6 11284473 11284946 +
Lasa Lasa1g00266 Chr1 17394850 17395314 +
Mepo Mepo6g00258 Chr6 2504714 2505560 +
Mesa Mesa5g04402 Chr5 73178270 73178746 -
Phco Phco11g00263 Chr11 1724393 1724866 +
Pte Pte2g00734 Chr2 6014479 6015721 +
Pvu Pvu6g2061 Chr6 30389890 30390345 -
Rops Rops11g00354 Chr11 4873122 4873606 +
Seca Seca6g05055 Chr6 117790350 117790817 -
Spst Spst6g00631 Chr6 5722222 5722686 +
Trre Trre3g00286 Chr3 1916782 1917267 +
Vian Vian6g01906 Chr6 36294217 36294690 -
Vifa Vifa1g10676 Chr1 1793820277 1793820735 -
Vimu Vimu2g00502 Chr2 2857376 2857849 +
Viun Viun6g02971 Chr6 32628604 32629449 -
Vivi Vivi1g08516 Chr1 243579974 243580708 -
Vvi Vvi3g0995 Chr3 11175987 11177138 -
Acco Acco06g2347 Chr06 19248119 19249273 +
Accr Accr5g00777 Chr5 32173604 32174758 -
Adu Adu10g00453 Chr10 5220515 5224206 +
Aip Aip10g00660 Chr10 6887999 6888740 +
Alju Alju03g1053 Chr03 38269355 38270509 -
Arst Arst10g00585 Chr10 4870361 4873885 +
Bach Bach7g00808 Chr7 19275932 19278898 +
Bisa Bisa07g0701 Chr07 18392608 18405249 -
Dod Dod03g0258 Chr03 2732716 2740279 -
Enph Enph4g0581 Chr4 19604032 19608555 -
Glsi Glsi11g2555 Chr11 18144711 18146505 +
Lapu Lapu6g01132 Chr6 11286288 11292500 -
Lasa Lasa1g00267 Chr1 17395820 17396977 -
Lele Lele13g0620 Chr13 18377017 18378171 -
Lele Lele14g0524 Chr14 16901163 16902317 -
Lele Lele15g1862 Chr15 11397146 11398300 +
Lele Lele16g1889 Chr16 11316089 11317237 +
Mesa Mesa5g04401 Chr5 73175916 73177079 +
Mibi Mibi06g0808 Chr06 26842035 26843376 -
Phac Phac6g02862 Chr6 25416706 25418250 +
Phco Phco11g00264 Chr11 1725941 1730070 -
Prci Prci3g0793 Chr3 10054355 10059280 -
Pste Pste2g01802 Chr2 18428336 18431424 -
Pumo Pumo2g00992 Chr2 15007073 15009457 +
Pvu Pvu6g2060 Chr6 30384380 30389570 +
Seca Seca6g05054 Chr6 117787919 117789076 +
Spst Spst6g00632 Chr6 5723843 5725000 -
Sto Sto13g2576 Chr13 31885306 31886463 -
Trre Trre3g00287 Chr3 1918141 1926230 -
Vian Vian6g01905 Chr6 36284802 36293020 +
Vimu Vimu2g00503 Chr2 2859045 2860238 -
Viun Viun6g02970 Chr6 32623717 32628139 +
Vivi Vivi1g08515 Chr1 243576624 243579851 +
Vvi Vvi3g0996 Chr3 11194241 11237796 +
Vvi Vvi3g0997 Chr3 11239832 11241097 -
Vvi Vvi3g0998 Chr3 11242017 11242220 +
Vvi Vvi3g0999 Chr3 11275396 11275881 -
Adu Adu10g00438 Chr10 5093706 5097487 -
Ahy Ahy20g0640 Chr20 6962197 6963207 -
Aip Aip10g00646 Chr10 6745347 6746254 -
Amo Amo20g0715 Chr20 10444098 10445022 +
Arst Arst10g00563 Chr10 4702806 4703303 +
Dod Dod03g0272 Chr03 2897020 2897869 +
Lasa Lasa1g05176 Chr1 833967171 833967674 +
Phac Phac6g02843 Chr6 25303441 25304156 -
Psa Psa1g4881 Chr1 363143435 363144502 +
Pumo Pumo2g00972 Chr2 14555836 14556360 +
Pvu Pvu6g2047 Chr6 30296708 30297398 -
Rops Rops11g00382 Chr11 5216392 5216889 +
Seca Seca6g05041 Chr6 117643800 117681846 -
Trre Trre3g00311 Chr3 2043922 2044398 +
Vian Vian6g01890 Chr6 36183790 36188802 -
Vifa Vifa1g10661 Chr1 1791959493 1791959981 -
Vivi Vivi1g08490 Chr1 243079865 243080694 -
Vvi Vvi3g1000 Chr3 11292233 11296705 -
Vvi Vvi3g1001 Chr3 11315079 11316798 -
Vvi Vvi3g1002 Chr3 11323186 11324679 +