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
Vvi19g0430 . . . . . . . Aed5g1075 . . . Ahy13g1774 . Aip03g01972 . . . . . . . . . . . . . . . . . Cca04g01320 . . . Dod03g1913 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0349 . . . . . . . . . . . . . . . . . . .
Vvi19g0431 . . . . . . . . . . . . Aip08g01253 . . . . . . Apr5g0049 . . . . . . . . . . . . . . . . . . . . Gma06g02362 . . . Gso6g2147 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0432 . . . . . . . . . . . . . . . . . . . Apr5g0048 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1005 . . . . . . . Mtr2g2714 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0350 . . . . . Tsu02g04507 . . . . . . . . . . . . .
Vvi19g0433 . . . . . . . . . . . . Aip08g01252 . . . . . . Apr5g0047 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1004 . . . . . . . Mtr2g2715 . . . . . . . . Psa5g6137 . . . . . . . . . . . . . . . . . . . . Tpr7g3624 . . . Tsu02g04508 . . . . . . . . . . . . .
Vvi19g0434 . . . . . . . . . . Ahy18g1185 . Aip08g01251 . . . Amo18g1359 . . Apr5g0046 . . . . . . . . . . . . . . . . . . . . Gma06g02367 . . . Gso6g2150 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2438 . . . . . . . Mtr8g1722 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0435 . . . . . . . . . . Ahy18g1184 . Aip08g01250 . . . . . . Apr5g0045 . . . . . . . . . . . Cca04g01314 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2439 . . . . . . Mtr2g2716 Mtr8g1723 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0351 . Tpr7g3625 . . . Tsu02g04509 . . . . . . . . . . . . .
Vvi19g0436 . . . . . . . . . . Ahy18g1183 . Aip08g01249 . . . Amo18g1357 . . Apr5g0044 . . . . . . . . . . . . . . . . . . . . Gma06g02369 . . . Gso6g2151 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr8g1724 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g2001 . . . Tsu08g01990 . . . . . . . . . . . .
Vvi19g0437 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0438 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca04g01312 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra2g1256
Vvi19g0439 . . . . . . . . . . . . . . . . . . . Apr5g0042 . . . . . . . . . . . Cca04g01308 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2442 . . . . . . . Mtr8g1725 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g1999 . . . Tsu08g01989 . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Sto Sto7g0351 Chr7 2520604 2524299 +
Sto Sto7g0350 Chr7 2515102 2518691 +
Psa Psa5g6137 Chr5 525736680 525740519 +
Vvi Vvi19g0430 Chr19 4723091 4725550 -
Aed Aed5g1075 Chr5 8808241 8810856 -
Ahy Ahy13g1774 Chr13 28682264 28686314 +
Aip Aip03g01972 Chr03 27573449 27577287 +
Cca Cca04g01320 Chr04 16725268 16728910 -
Dod Dod03g1913 Chr03 41182853 41186244 -
Sto Sto7g0349 Chr7 2509159 2514643 +
Vvi Vvi19g0431 Chr19 4729494 4734057 -
Aip Aip08g01253 Chr08 18623666 18624587 +
Apr Apr5g0049 Chr5 461122 465222 -
Gma Gma06g02362 Chr06 45068909 45072218 -
Gso Gso6g2147 Chr6 41069959 41073801 -
Vvi Vvi19g0432 Chr19 4747151 4749486 -
Apr Apr5g0048 Chr5 453213 457765 -
Mal Mal4g1005 Chr4 13749405 13753191 -
Mtr Mtr2g2714 Chr2 40298326 40302500 -
Sto Sto7g0350 Chr7 2515102 2518691 +
Tsu Tsu02g04507 Chr02 54064580 54068862 -
Vvi Vvi19g0433 Chr19 4788586 4789211 -
Aip Aip08g01252 Chr08 18620860 18623157 +
Apr Apr5g0047 Chr5 448038 451947 -
Mal Mal4g1004 Chr4 13736114 13740637 -
Mtr Mtr2g2715 Chr2 40311373 40315951 +
Psa Psa5g6137 Chr5 525736680 525740519 +
Tpr Tpr7g3624 Chr7 44964582 44969487 -
Tsu Tsu02g04508 Chr02 54076099 54080414 +
Vvi Vvi19g0434 Chr19 4797479 4799404 -
Ahy Ahy18g1185 Chr18 19526610 19528187 +
Aip Aip08g01251 Chr08 18615113 18618223 +
Amo Amo18g1359 Chr18 24845276 24849115 -
Apr Apr5g0046 Chr5 439674 443483 -
Gma Gma06g02367 Chr06 45193943 45197222 +
Gso Gso6g2150 Chr6 41120286 41126274 +
Mal Mal5g2438 Chr5 67264615 67268096 +
Mtr Mtr8g1722 Chr8 25533921 25538085 -
Vvi Vvi19g0435 Chr19 4799621 4801550 -
Ahy Ahy18g1184 Chr18 19522625 19523933 +
Aip Aip08g01250 Chr08 18612670 18614527 +
Apr Apr5g0045 Chr5 434429 438052 -
Cca Cca04g01314 Chr04 16577097 16587766 +
Mal Mal5g2439 Chr5 67272769 67274827 -
Mtr Mtr2g2716 Chr2 40322909 40327080 +
Mtr Mtr8g1723 Chr8 25570977 25574647 -
Sto Sto7g0351 Chr7 2520604 2524299 +
Tpr Tpr7g3625 Chr7 44971503 44976246 +
Tsu Tsu02g04509 Chr02 54082301 54085921 +
Vvi Vvi19g0436 Chr19 4811544 4812360 -
Ahy Ahy18g1183 Chr18 19488601 19489822 +
Aip Aip08g01249 Chr08 18578748 18579969 +
Amo Amo18g1357 Chr18 24682428 24692981 +
Apr Apr5g0044 Chr5 427946 431463 -
Gma Gma06g02369 Chr06 45207825 45244781 -
Gso Gso6g2151 Chr6 41169738 41173151 +
Mtr Mtr8g1724 Chr8 25588668 25593161 +
Tpr Tpr7g2001 Chr7 24533845 24537767 +
Tsu Tsu08g01990 Chr08 26003834 26017567 -
Vvi Vvi19g0437 Chr19 4833792 4836538 +
Vvi Vvi19g0438 Chr19 4851075 4855125 -
Cca Cca04g01312 Chr04 16537774 16545115 +
Vra Vra2g1256 Chr2 18098813 18111210 -
Vvi Vvi19g0439 Chr19 4866197 4870178 -
Apr Apr5g0042 Chr5 396475 400335 -
Cca Cca04g01308 Chr04 16474024 16478454 +
Mal Mal5g2442 Chr5 67365173 67368360 +
Mtr Mtr8g1725 Chr8 25629300 25632169 +
Tpr Tpr7g1999 Chr7 24516214 24520403 -
Tsu Tsu08g01989 Chr08 25925193 26003105 -