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
Vvi4g0424 Acco10g2056 . Accr4g00735 . . . . . . . . Ahy18g2588 . Aip08g02983 Alju08g0750 . . . Apr5g1207 . . . Bach12g00540 . Bisa09g1258 . Bva10g00315 . . . . . . . . . . . Glsi08g1530 . . . . . . . . . . . . . . . . . . . . . Lapu9g01836 . . . . Lele02g0586 . Lele04g0605 . . . . . . . . Mepo3g07494 . Mesa9g05151 . . . . . . . Phco7g00812 . . . Psa5g0626 . Pste2g01909 . . . . . Pumo10g00020 . Pvu9g1011 . Rops10g01459 . Seca4g00866 . . . . . Sto5g0785 . . . Trre5g05306 . . . Vian4g01919 . Vifa2g04090 . Vimu10g02877 . Viun9g02994 . Vivi3g01239 . . .
Vvi4g0425 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0426 . . . . Adu08g02451 . . . . . . Ahy18g2587 . Aip08g02982 . . . Amo18g3349 Apr5g1205 Apr9g0139 Arst8g03377 . Bach12g00541 . . . Bva10g00314 . . . . . . . . . . . . . . Gma17g01936 . . . . . . Lal21g0366 . . . . Lal10g0041 Lan3g1040 . . . . Lan3g1040 . . . . . . . . . . . . . Lja5g2169 . . . . . . . . . . . . Phco7g00813 . . . . . Pste2g01912 . Pte3g01090 . . . . . Pvu9g1012 . Rops10g01460 . Seca8g03046 . Spst9g00841 . . . Sto5g0784 . . . . . . . Vian4g01918 . . . Vimu10g02876 . Viun9g02993 . Vivi4g05037 . . .
Vvi4g0427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0428 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0429 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0430 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0431 . . . . . . . . . . . Ahy18g2586 . Aip08g02981 . . . . . Apr9g0138 . . . . . . Bva10g00313 . . . . . . . . Dod09g0975 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0432 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0433 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0424 Chr4 3752883 3756544 -
Acco Acco10g2056 Chr10 32950258 32953268 -
Accr Accr4g00735 Chr4 7088775 7091582 +
Ahy Ahy18g2588 Chr18 128040378 128044949 +
Aip Aip08g02983 Chr08 118545203 118549775 +
Alju Alju08g0750 Chr08 5602952 5603515 +
Apr Apr5g1207 Chr5 16541463 16546865 +
Bach Bach12g00540 Chr12 3674469 3677894 -
Bisa Bisa09g1258 Chr09 18161923 18174842 -
Bva Bva10g00315 Chr10 3916499 3920235 +
Glsi Glsi08g1530 Chr08 11077524 11081258 +
Lapu Lapu9g01836 Chr9 33227289 33232451 +
Lele Lele02g0586 Chr02 3519509 3522243 +
Lele Lele04g0605 Chr04 3662397 3665410 +
Mepo Mepo3g07494 Chr3 88271953 88276095 -
Mesa Mesa9g05151 Chr9 86248311 86250085 -
Phco Phco7g00812 Chr7 6366802 6373297 -
Psa Psa5g0626 Chr5 49976562 49982276 -
Pste Pste2g01909 Chr2 19425029 19442927 -
Pumo Pumo10g00020 Chr10 772673 776499 +
Pvu Pvu9g1011 Chr9 15060168 15064627 -
Rops Rops10g01459 Chr10 27840846 27846744 -
Seca Seca4g00866 Chr4 14357965 14363340 +
Sto Sto5g0785 Chr5 5363207 5367602 +
Trre Trre5g05306 Chr5 53935987 53939210 -
Vian Vian4g01919 Chr4 35761863 35765489 +
Vifa Vifa2g04090 Chr2 1196305790 1196310701 -
Vimu Vimu10g02877 Chr10 39965647 39966138 +
Viun Viun9g02994 Chr9 37825196 37828251 +
Vivi Vivi3g01239 Chr3 20796359 20801178 +
Vvi Vvi4g0425 Chr4 3762868 3767914 +
Vvi Vvi4g0426 Chr4 3767960 3777012 +
Adu Adu08g02451 Chr08 40304038 40310811 -
Ahy Ahy18g2587 Chr18 128006565 128013206 -
Aip Aip08g02982 Chr08 118474327 118481099 -
Amo Amo18g3349 Chr18 135043282 135050369 +
Apr Apr5g1205 Chr5 16521484 16528331 -
Apr Apr9g0139 Chr9 1621485 1628175 -
Arst Arst8g03377 Chr8 44669192 44675851 -
Bach Bach12g00541 Chr12 3681885 3688250 +
Bva Bva10g00314 Chr10 3904803 3911684 -
Gma Gma17g01936 Chr17 34265691 34271479 +
Lal Lal21g0366 Chr21 2485418 2493407 -
Lal Lal10g0041 Chr10 495496 501593 +
Lan Lan3g1040 Chr3 22733456 22739750 +
Lan Lan3g1040 Chr3 22733456 22739750 +
Lja Lja5g2169 Chr5 34442162 34447549 -
Phco Phco7g00813 Chr7 6378701 6384775 +
Pste Pste2g01912 Chr2 19456585 19462814 +
Pte Pte3g01090 Chr3 9318109 9325550 -
Pvu Pvu9g1012 Chr9 15067430 15074400 +
Rops Rops10g01460 Chr10 27865208 27871859 +
Seca Seca8g03046 Chr8 85126512 85134621 -
Spst Spst9g00841 Chr9 7381848 7393539 +
Sto Sto5g0784 Chr5 5354296 5359995 -
Vian Vian4g01918 Chr4 35749949 35755830 -
Vimu Vimu10g02876 Chr10 39953429 39959561 -
Viun Viun9g02993 Chr9 37814105 37820942 -
Vivi Vivi4g05037 Chr4 181036797 181043811 -
Vvi Vvi4g0427 Chr4 3778401 3782096 -
Vvi Vvi4g0428 Chr4 3793085 3794237 +
Vvi Vvi4g0429 Chr4 3796710 3800733 -
Vvi Vvi4g0430 Chr4 3801427 3812003 -
Vvi Vvi4g0431 Chr4 3814650 3816956 +
Ahy Ahy18g2586 Chr18 127999522 128005461 -
Aip Aip08g02981 Chr08 118467521 118472887 -
Apr Apr9g0138 Chr9 1609154 1614126 -
Bva Bva10g00313 Chr10 3897958 3903787 -
Dod Dod09g0975 Chr09 30030786 30035957 +
Vvi Vvi4g0432 Chr4 3819591 3820674 +
Vvi Vvi4g0433 Chr4 3829673 3830132 +
Acco Acco10g2056 Chr10 32950258 32953268 -
Accr Accr4g00735 Chr4 7088775 7091582 +
Alju Alju08g0750 Chr08 5602952 5603515 +
Bach Bach12g00540 Chr12 3674469 3677894 -
Bisa Bisa09g1258 Chr09 18161923 18174842 -
Glsi Glsi08g1530 Chr08 11077524 11081258 +
Lapu Lapu9g01836 Chr9 33227289 33232451 +
Lele Lele02g0586 Chr02 3519509 3522243 +
Lele Lele04g0605 Chr04 3662397 3665410 +
Mepo Mepo3g07494 Chr3 88271953 88276095 -
Mesa Mesa9g05151 Chr9 86248311 86250085 -
Phco Phco7g00812 Chr7 6366802 6373297 -
Pste Pste2g01909 Chr2 19425029 19442927 -
Pumo Pumo10g00020 Chr10 772673 776499 +
Pvu Pvu9g1011 Chr9 15060168 15064627 -
Rops Rops10g01459 Chr10 27840846 27846744 -
Seca Seca4g00866 Chr4 14357965 14363340 +
Trre Trre5g05306 Chr5 53935987 53939210 -
Vian Vian4g01919 Chr4 35761863 35765489 +
Vifa Vifa2g04090 Chr2 1196305790 1196310701 -
Vimu Vimu10g02877 Chr10 39965647 39966138 +
Viun Viun9g02994 Chr9 37825196 37828251 +
Vivi Vivi3g01239 Chr3 20796359 20801178 +