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
Vvi1g0151 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0152 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0153 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto13g0141 . . . . . . . . . . . . . . . . . . .
Vvi1g0154 . . . . . . . . . . . . . . . . . . . Apr3g1553 . . . . . . . . Car06g01816 . . . . . . . . . . . . . . . . . . . . . . . Lal16g0784 . . . . . . . Lapu3g02321 . Lasa7g02908 . . . . . . . . . . Lja4g3546 . . . . . . . . . . Phac2g01552 . Phco4g01872 . . . . Psa7g3036 Pste1g03235 . . . . . . . Pvu2g1026 . . . . . Spst3g02310 . . . Sto13g0142 . . . . . . . . . . . Vimu11g02225 . . . Vivi5g03762 . . .
Vvi1g0155 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto13g0143 . . . . . . . . . . . . . . . . . . .
Vvi1g0156 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal22g1074 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0157 . . . . . . . . . . . . . . . . . . . Apr3g1554 . . . . . . . . Car06g01815 . . . . . . . . . . . . . . . . . . . . . . . . Lal15g0756 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco4g01871 . . . . . Pste3g04062 . . . . . . . Pvu2g1023 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0158 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0159 . . . . . . . . . . . . . . . . . . . Apr3g1556 . . . . . . . . Car06g01813 . . . . . . . . . . . . . . . . . . . . . . . Lal16g0783 Lal15g0755 . . . . . . Lapu3g02324 . Lasa7g02911 . . . . . . . . . . Lja4g3549 . . Mepo2g03001 . Mesa13g02056 . . . . . Phac2g01546 . Phco4g01869 . . . . Psa7g3013 . . . . . . . . Pvu2g1020 . . . . . Spst3g02307 . . . . . . . Trre7g01963 . . . . . . . Vimu11g02218 . . . Vivi5g03766 . . .
Vvi1g0160 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0151 Chr1 1426934 1459819 -
Vvi Vvi1g0152 Chr1 1467432 1494992 +
Vvi Vvi1g0153 Chr1 1495858 1498820 +
Sto Sto13g0141 Chr13 1217054 1218937 +
Vvi Vvi1g0154 Chr1 1500765 1504186 +
Apr Apr3g1553 Chr3 30481287 30487448 -
Car Car06g01816 Chr06 18022516 18027450 +
Lal Lal16g0784 Chr16 5074481 5078139 +
Lapu Lapu3g02321 Chr3 44524440 44530112 -
Lasa Lasa7g02908 Chr7 557779951 557784776 -
Lja Lja4g3546 Chr4 66473184 66477350 -
Phac Phac2g01552 Chr2 15078710 15084416 +
Phco Phco4g01872 Chr4 37120424 37125515 +
Psa Psa7g3036 Chr7 220981248 220986743 +
Pste Pste1g03235 Chr1 14713500 14727907 -
Pvu Pvu2g1026 Chr2 19490310 19495223 +
Spst Spst3g02310 Chr3 66527679 66532424 +
Sto Sto13g0142 Chr13 1227956 1233522 +
Vimu Vimu11g02225 Chr11 38797755 38803101 +
Vivi Vivi5g03762 Chr5 131534738 131539738 -
Vvi Vvi1g0155 Chr1 1505163 1505960 -
Sto Sto13g0143 Chr13 1235705 1238533 -
Vvi Vvi1g0156 Chr1 1508271 1513345 +
Lal Lal22g1074 Chr22 9621402 9624125 +
Vvi Vvi1g0157 Chr1 1515113 1528492 +
Apr Apr3g1554 Chr3 30508699 30520344 -
Car Car06g01815 Chr06 18002889 18018664 +
Lal Lal15g0756 Chr15 5340636 5350051 +
Phco Phco4g01871 Chr4 37093266 37107324 +
Pste Pste3g04062 Chr3 35335871 35351079 -
Pvu Pvu2g1023 Chr2 19422206 19429049 +
Vvi Vvi1g0158 Chr1 1528522 1528662 +
Vvi Vvi1g0159 Chr1 1529879 1536488 +
Apr Apr3g1556 Chr3 30543888 30550459 +
Car Car06g01813 Chr06 17978530 17986004 -
Lal Lal16g0783 Chr16 5062218 5070279 -
Lal Lal15g0755 Chr15 5329724 5337569 -
Lapu Lapu3g02324 Chr3 44572237 44586691 +
Lasa Lasa7g02911 Chr7 558269258 558282784 +
Lja Lja4g3549 Chr4 66508352 66521551 +
Mepo Mepo2g03001 Chr2 39707743 39714406 +
Mesa Mesa13g02056 Chr13 24123242 24130391 -
Phac Phac2g01546 Chr2 14903452 14919029 -
Phco Phco4g01869 Chr4 37019247 37028461 -
Psa Psa7g3013 Chr7 218908800 218917329 +
Pvu Pvu2g1020 Chr2 19299773 19312702 -
Spst Spst3g02307 Chr3 66438321 66444203 -
Trre Trre7g01963 Chr7 15505569 15512751 -
Vimu Vimu11g02218 Chr11 38738967 38748305 -
Vivi Vivi5g03766 Chr5 131609020 131617000 +
Vvi Vvi1g0160 Chr1 1538897 1544717 +