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
Vvi18g0106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0107 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0108 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0109 . . . . . . . Aed9g0163 . . . . . . . . . . . . . . . . . . Bva06g01841 Bva10g01000 . Car05g03320 . Cca07g00202 . . . . . . . . Gma04g00166 Gma06g00157 . . Gso4g0157 Gso4g0157 . . Lal4g0045 . . . . . Lan14g0971 . . . . . . . . . . . . . . . . . Lja1g3439 . . Mal2g0400 . . . . . . . Mtr3g4340 . . . . . . . . . . . . . . . . Pvu9g0110 . Rops10g02534 . . . . . . . . Sto9g3742 . Tpr7g0168 . . . Tsu07g00190 Vian4g02455 . Vifa2g04568 . . . Viun9g03751 . . . . Vra5g1712
Vvi18g0110 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0111 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0112 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0113 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0114 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0115 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0106 Chr18 949521 961102 -
Vvi Vvi18g0107 Chr18 961811 966293 +
Vvi Vvi18g0108 Chr18 976534 978069 +
Vvi Vvi18g0109 Chr18 978609 982835 -
Aed Aed9g0163 Chr9 1175997 1182386 +
Bva Bva06g01841 Chr06 12665316 12672207 +
Bva Bva10g01000 Chr10 7345480 7351175 -
Car Car05g03320 Chr05 77899167 77903346 -
Cca Cca07g00202 Chr07 2599223 2604499 +
Gma Gma04g00166 Chr04 1423208 1429435 +
Gma Gma06g00157 Chr06 1397736 1403068 +
Gso Gso4g0157 Chr4 1399259 1405122 +
Gso Gso4g0157 Chr4 1399259 1405122 +
Lal Lal4g0045 Chr4 271259 280813 +
Lan Lan14g0971 Chr14 16023170 16028300 -
Lja Lja1g3439 Chr1 42905674 42909422 +
Mal Mal2g0400 Chr2 4487568 4491182 +
Mtr Mtr3g4340 Chr3 57329875 57334626 -
Pvu Pvu9g0110 Chr9 1767110 1772620 -
Rops Rops10g02534 Chr10 44163202 44168169 -
Sto Sto9g3742 Chr9 35593276 35599335 -
Tpr Tpr7g0168 Chr7 1388783 1393479 +
Tsu Tsu07g00190 Chr07 1431563 1436687 +
Vian Vian4g02455 Chr4 41163157 41168105 -
Vifa Vifa2g04568 Chr2 1344742256 1344748847 -
Viun Viun9g03751 Chr9 42499349 42505150 -
Vra Vra5g1712 Chr5 23389598 23394657 -
Vvi Vvi18g0110 Chr18 987302 987547 +
Vvi Vvi18g0111 Chr18 990457 992640 -
Vvi Vvi18g0112 Chr18 993428 994873 -
Vvi Vvi18g0113 Chr18 1007964 1010738 +
Vvi Vvi18g0114 Chr18 1035544 1035813 +
Vvi Vvi18g0115 Chr18 1039533 1042444 -