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
Vvi4g0164 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0165 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00515 Bva06g02272 . . . . . . . . . . . . Gma14g00896 Gma17g02154 . . Gso14g0868 Gso14g0868 . . . . . . . . . . . . . . . . . Lasa6g00470 . . . . . . . . . . . . . Mepo4g00477 . Mesa1g00512 . . . . . . . Phco2g00455 . . . Psa6g0520 . . . . . . . Pumo9g00466 . Pvu1g0396 . . . . . . . . Sto5g0989 . . . . Trre1g00547 . . . . . . . Vimu1g02785 . Viun8g00577 . Vivi4g05336 . .
Vvi4g0166 Acco10g1895 . Accr4g00897 . Adu10g01962 . Aed4g1680 . . Aev08g0495 . Ahy20g2177 . Aip10g02566 Alju08g0910 . . . . . Arst10g02499 . . . Bisa09g1070 . Bva10g00514 . Car05g02866 . Cca03g01690 . Dere04g0444 . . Dod09g1936 Enph1g1295 . Glsi08g1711 . . . Gma04g00512 Gma06g00501 . . . . . Lal4g0181 . . . . . . . . . . Lapu9g02000 . Lasa5g03905 . Lele01g0727 Lele02g0710 Lele03g0725 Lele04g0727 . . . . Lja1g4002 . Mal2g1022 . Mepo3g07313 . Mesa9g04861 . Mibi05g0822 . Mtr3g3804 . . . Phco7g00624 . Prci8g0109 . . . Pste2g01386 . . . . . Pumo10g00220 . Pvu9g0837 . Rops10g01276 . Seca4g01181 . Spst9g00643 . Ssu1g3591 . . Sto9g3408 Tpr7g0767 . Trre5g05048 . Tsu07g00776 . Vian4g02096 . Vifa2g03816 . Vimu10g03102 . Viun9g03251 . Vivi3g01573 . Vra5g1357 .
Vvi4g0167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0168 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0169 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0170 . . . . . . . Aed6g1050 . . . . . . . . . . . . . . . . . . . . Car05g03041 . . Cca05g00624 . . . . . . . . Gma14g01230 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0761 . . . . . . . Mtr3g4009 . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0670 Sto5g0986 . . . . . . . . . . . . . . . . . . Vra6g1484
Vvi4g0171 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0172 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00513 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0983 . . . . . . . . . . . . . . . . . . .
Vvi4g0173 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0164 Chr4 1366574 1369843 -
Vvi Vvi4g0165 Chr4 1376600 1381754 -
Bva Bva10g00515 Chr10 4926313 4930064 +
Bva Bva06g02272 Chr06 14774543 14778769 -
Gma Gma14g00896 Chr14 9987045 9990979 +
Gma Gma17g02154 Chr17 39091956 39101878 -
Gso Gso14g0868 Chr14 9927807 9931750 +
Gso Gso14g0868 Chr14 9927807 9931750 +
Lasa Lasa6g00470 Chr6 14355536 14360497 +
Mepo Mepo4g00477 Chr4 6715133 6721691 +
Mesa Mesa1g00512 Chr1 6487497 6493850 +
Phco Phco2g00455 Chr2 4064019 4068368 +
Psa Psa6g0520 Chr6 17233209 17239606 -
Pumo Pumo9g00466 Chr9 7284060 7288062 +
Pvu Pvu1g0396 Chr1 3928337 3932861 +
Sto Sto5g0989 Chr5 6671408 6675093 +
Trre Trre1g00547 Chr1 4120615 4126225 +
Vimu Vimu1g02785 Chr1 40153382 40157357 -
Viun Viun8g00577 Chr8 4156917 4160846 +
Vivi Vivi4g05336 Chr4 186430796 186436955 -
Vvi Vvi4g0166 Chr4 1382694 1384486 +
Acco Acco10g1895 Chr10 31790960 31792104 +
Accr Accr4g00897 Chr4 8497339 8498476 -
Adu Adu10g01962 Chr10 88618740 88620759 -
Aed Aed4g1680 Chr4 21300867 21301966 +
Aev Aev08g0495 Chr08 2786359 2787434 +
Ahy Ahy20g2177 Chr20 120651686 120653450 -
Aip Aip10g02566 Chr10 113194688 113196666 -
Alju Alju08g0910 Chr08 6935227 6936384 -
Arst Arst10g02499 Chr10 87624423 87626191 -
Bisa Bisa09g1070 Chr09 15574354 15575642 +
Bva Bva10g00514 Chr10 4924720 4925995 -
Car Car05g02866 Chr05 73632392 73633781 +
Cca Cca03g01690 Chr03 36038795 36041129 -
Dere Dere04g0444 Chr04 4461303 4462432 +
Dod Dod09g1936 Chr09 40907807 40909370 -
Enph Enph1g1295 Chr1 38693171 38694806 +
Glsi Glsi08g1711 Chr08 12185767 12187128 -
Gma Gma04g00512 Chr04 4542570 4544161 +
Gma Gma06g00501 Chr06 4269610 4270820 +
Lal Lal4g0181 Chr4 1133321 1138094 +
Lapu Lapu9g02000 Chr9 34859172 34861035 -
Lasa Lasa5g03905 Chr5 609378322 609379257 +
Lele Lele01g0727 Chr01 4275985 4277083 -
Lele Lele02g0710 Chr02 4302742 4303907 -
Lele Lele03g0725 Chr03 4288447 4289545 -
Lele Lele04g0727 Chr04 4458298 4459434 -
Lja Lja1g4002 Chr1 50746908 50748760 -
Mal Mal2g1022 Chr2 11998092 11999354 -
Mepo Mepo3g07313 Chr3 86638061 86639772 +
Mesa Mesa9g04861 Chr9 82911326 82912437 +
Mibi Mibi05g0822 Chr05 7775552 7776898 -
Mtr Mtr3g3804 Chr3 51847747 51849147 +
Phco Phco7g00624 Chr7 4719663 4723814 +
Prci Prci8g0109 Chr8 708339 709790 -
Pste Pste2g01386 Chr2 15186670 15188219 +
Pumo Pumo10g00220 Chr10 3005275 3006023 -
Pvu Pvu9g0837 Chr9 13022291 13023623 +
Rops Rops10g01276 Chr10 25298771 25300772 +
Seca Seca4g01181 Chr4 18888632 18890284 -
Spst Spst9g00643 Chr9 5621520 5625792 +
Ssu Ssu1g3591 Chr1 91267204 91269740 -
Sto Sto9g3408 Chr9 33738618 33740243 -
Tpr Tpr7g0767 Chr7 6810291 6811643 -
Trre Trre5g05048 Chr5 51916749 51917825 +
Tsu Tsu07g00776 Chr07 6398235 6399741 -
Vian Vian4g02096 Chr4 37804074 37807556 -
Vifa Vifa2g03816 Chr2 1120395773 1120396682 +
Vimu Vimu10g03102 Chr10 41831744 41832761 -
Viun Viun9g03251 Chr9 39488724 39489920 -
Vivi Vivi3g01573 Chr3 25743835 25744923 -
Vra Vra5g1357 Chr5 20406811 20408148 -
Vvi Vvi4g0167 Chr4 1391339 1402982 -
Vvi Vvi4g0168 Chr4 1403978 1408138 +
Vvi Vvi4g0169 Chr4 1418830 1419033 -
Vvi Vvi4g0170 Chr4 1439817 1440839 +
Aed Aed6g1050 Chr6 14924936 14926967 +
Car Car05g03041 Chr05 75267455 75269283 -
Cca Cca05g00624 Chr05 14684805 14686970 -
Gma Gma14g01230 Chr14 20031459 20034581 -
Mal Mal2g0761 Chr2 8877517 8877916 +
Mtr Mtr3g4009 Chr3 53831854 53833652 -
Ssu Ssu5g0670 Chr5 15835142 15837571 -
Sto Sto5g0986 Chr5 6660448 6661374 +
Vra Vra6g1484 Chr6 29446045 29448470 +
Vvi Vvi4g0171 Chr4 1456693 1457679 +
Vvi Vvi4g0172 Chr4 1464945 1466252 +
Bva Bva10g00513 Chr10 4921834 4923144 -
Sto Sto5g0983 Chr5 6640734 6641626 +
Vvi Vvi4g0173 Chr4 1467631 1468488 +
Aed Aed6g1050 Chr6 14924936 14926967 +
Car Car05g03041 Chr05 75267455 75269283 -
Cca Cca05g00624 Chr05 14684805 14686970 -
Gma Gma14g01230 Chr14 20031459 20034581 -
Mal Mal2g0761 Chr2 8877517 8877916 +
Mtr Mtr3g4009 Chr3 53831854 53833652 -
Ssu Ssu5g0670 Chr5 15835142 15837571 -
Vra Vra6g1484 Chr6 29446045 29448470 +