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
Vvi4g1214 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1215 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1216 . . . . . . . . . Aev08g0249 . Ahy17g2357 . Aip07g02534 . . . Amo17g2222 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1217 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1218 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1221 . . . . . . . . . . . . . . . . . . Apr3g0307 . . . . . . . Bva08g00788 . . . . . . . . . . . . . . . Gma02g00480 Gma16g01244 . . . . . Lal15g1488 . . . . . . . . . . Lapu3g01722 . Lasa4g02300 . . . . . . . . . . Lja4g3193 . Mal5g3391 Mepo1g02084 . Mesa29g02251 . . . . Mtr8g2463 Phac3g04034 . Phco8g00454 . . . . Psa4g2239 Pste7g01559 . . . . . Pumo4g02158 . Pvu3g2649 . Rops2g03321 . Seca12g02798 . Spst3g03854 . . . . . . Tpr4g4216 Trre15g02762 . . Tsu04g03448 Vian1g01796 . Vifa4g02400 . Vimu11g00675 . Viun3g03638 . Vivi1g03061 . . .
Vvi4g1222 . . . . . . Aed11g1258 . Aev05g0472 . . . Aip05g00853 . . . . . Apr3g0308 Apr7g1056 . . . . . . Bva08g00789 . . . Cca06g01309 . . . Dod02g0525 . . . . . Gma11g00657 Gma01g01746 Gma02g00479 Gma16g01243 Gso11g0608 Gso11g0608 Gso11g0608 Gso11g0608 . . Lal23g1434 . . . . . . . . . . . . . . . . . . . . . Lja2g0498 Lja4g3192 Mal6g1089 Mal5g3389 . . . . . . Mtr5g0823 Mtr8g2461 . . . . . . Psa2g3572 Psa4g2242 . . . . . . . . . . . . . . . . . . . . Tpr2g1036 Tpr4g4218 . . Tsu05g00778 Tsu04g03451 . . . . . . . . . . Vra11g0730 .
Vvi4g1223 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1214 Chr4 19037867 19039810 -
Vvi Vvi4g1215 Chr4 19040112 19040732 +
Vvi Vvi4g1216 Chr4 19042212 19048922 -
Aev Aev08g0249 Chr08 1406793 1409781 +
Ahy Ahy17g2357 Chr17 113519952 113522975 +
Aip Aip07g02534 Chr07 105351871 105354951 +
Amo Amo17g2222 Chr17 113652770 113655968 +
Vvi Vvi4g1217 Chr4 19062558 19070369 +
Vvi Vvi4g1218 Chr4 19071715 19073043 +
Vvi Vvi4g1219 Chr4 19076820 19077873 +
Vvi Vvi4g1220 Chr4 19107543 19110307 +
Vvi Vvi4g1221 Chr4 19116412 19130471 +
Apr Apr3g0307 Chr3 5928012 5939328 +
Bva Bva08g00788 Chr08 4050208 4055377 +
Gma Gma02g00480 Chr02 4862242 4871347 -
Gma Gma16g01244 Chr16 30524891 30537654 -
Lal Lal15g1488 Chr15 17050526 17061329 -
Lapu Lapu3g01722 Chr3 27147352 27168871 +
Lasa Lasa4g02300 Chr4 456490153 456495275 -
Lja Lja4g3193 Chr4 60386651 60395726 -
Mal Mal5g3391 Chr5 97892746 97902603 -
Mepo Mepo1g02084 Chr1 21452840 21460429 +
Mesa Mesa29g02251 Chr29 30866813 30873795 +
Mtr Mtr8g2463 Chr8 35059714 35067619 -
Phac Phac3g04034 Chr3 39839388 39849292 +
Phco Phco8g00454 Chr8 4234949 4255679 -
Psa Psa4g2239 Chr4 180010372 180016344 +
Pste Pste7g01559 Chr7 14268846 14289135 +
Pumo Pumo4g02158 Chr4 31318915 31328593 +
Pvu Pvu3g2649 Chr3 48508922 48517764 +
Rops Rops2g03321 Chr2 60993107 61002507 -
Seca Seca12g02798 Chr12 49530055 49535627 +
Spst Spst3g03854 Chr3 88589936 88594172 -
Tpr Tpr4g4216 Chr4 49259897 49266896 +
Trre Trre15g02762 Chr15 23511253 23516801 -
Tsu Tsu04g03448 Chr04 43681455 43689538 +
Vian Vian1g01796 Chr1 21163826 21174319 +
Vifa Vifa4g02400 Chr4 724774295 724779698 -
Vimu Vimu11g00675 Chr11 7200878 7211042 +
Viun Viun3g03638 Chr3 43252404 43267285 -
Vivi Vivi1g03061 Chr1 67584059 67589400 +
Vvi Vvi4g1222 Chr4 19132125 19133465 +
Aed Aed11g1258 Chr11 17721008 17722769 -
Aev Aev05g0472 Chr05 3294908 3296439 -
Aip Aip05g00853 Chr05 11622518 11624313 +
Apr Apr3g0308 Chr3 5942987 5944599 +
Apr Apr7g1056 Chr7 17524715 17526544 +
Bva Bva08g00789 Chr08 4057398 4059109 +
Cca Cca06g01309 Chr06 27867398 27869405 -
Dod Dod02g0525 Chr02 6855414 6858286 -
Gma Gma11g00657 Chr11 5458096 5461333 +
Gma Gma01g01746 Chr01 53134529 53137711 -
Gma Gma02g00479 Chr02 4849961 4852197 -
Gma Gma16g01243 Chr16 30519457 30521502 -
Gso Gso11g0608 Chr11 5415445 5418465 +
Gso Gso11g0608 Chr11 5415445 5418465 +
Gso Gso11g0608 Chr11 5415445 5418465 +
Gso Gso11g0608 Chr11 5415445 5418465 +
Lal Lal23g1434 Chr23 14782117 14784505 +
Lja Lja2g0498 Chr2 4532193 4534680 +
Lja Lja4g3192 Chr4 60380396 60382606 -
Mal Mal6g1089 Chr6 16537605 16539273 -
Mal Mal5g3389 Chr5 97877536 97879664 -
Mtr Mtr5g0823 Chr5 8098182 8100335 +
Mtr Mtr8g2461 Chr8 35050488 35052360 -
Psa Psa2g3572 Chr2 389073290 389074635 -
Psa Psa4g2242 Chr4 180083122 180084637 +
Tpr Tpr2g1036 Chr2 12210962 12213103 +
Tpr Tpr4g4218 Chr4 49272746 49274961 +
Tsu Tsu05g00778 Chr05 6568785 6570642 +
Tsu Tsu04g03451 Chr04 43706534 43708262 +
Vra Vra11g0730 Chr11 5878842 5881178 +
Vvi Vvi4g1223 Chr4 19134301 19137992 -
Aev Aev08g0249 Chr08 1406793 1409781 +
Ahy Ahy17g2357 Chr17 113519952 113522975 +
Aip Aip07g02534 Chr07 105351871 105354951 +
Amo Amo17g2222 Chr17 113652770 113655968 +