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
Vvi1g0491 . . . . . . . . . . . . . . . . . . Apr7g1317 . . . . . . . Bva01g01572 Bva11g00619 Car04g02880 . Cca06g00287 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g3235 . Mal1g5013 . . . . . . . Mtr1g0968 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1226 . . Sto6g2638 Tpr1g3003 . . . Tsu01g01098 . . . . . . . . . . . . .
Vvi1g0492 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0493 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g00617 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0559 . . . . . . . . . . . . . . . . . . .
Vvi1g0494 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01569 Bva11g00616 . . Cca06g00286 . . . . . . . . . . . . . . . . . . Lal22g0931 . . . . . . . . . . . . . . . . . . . . . . Lja2g3236 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu3g0332 . . . . . . Ssu2g1225 . . Sto6g2637 . . . . . . . . . . . . . . . . . .
Vvi1g0495 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0988 . . . . . . . . . . . . . . . . . . . . Sto6g2634 . . . . . . . . . . . . . . . . . .
Vvi1g0496 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0497 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0498 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0499 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01568 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g3237 . . . . . . . . . . . . . . . . . Psa6g0989 . . . . . . . . . . . . . . . . . . . . Sto6g2633 . . . . . . . . . . . . . . . . . .
Vvi1g0500 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01566 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0990 . . . . . . . . . . . . . . . . . . . . Sto6g2632 . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0491 Chr1 4691027 4694490 -
Apr Apr7g1317 Chr7 20269393 20274277 +
Bva Bva01g01572 Chr01 17121949 17125647 +
Bva Bva11g00619 Chr11 9565044 9569231 +
Car Car04g02880 Chr04 55681528 55685839 +
Cca Cca06g00287 Chr06 7550262 7556444 +
Lja Lja2g3235 Chr2 71186834 71192620 -
Mal Mal1g5013 Chr1 120753575 120756461 +
Mtr Mtr1g0968 Chr1 11153307 11157411 -
Ssu Ssu2g1226 Chr2 53734083 53739504 +
Sto Sto6g2638 Chr6 33438876 33443453 +
Tpr Tpr1g3003 Chr1 34433555 34437633 +
Tsu Tsu01g01098 Chr01 10107358 10111306 -
Vvi Vvi1g0492 Chr1 4702701 4703006 +
Vvi Vvi1g0493 Chr1 4708370 4710202 -
Bva Bva11g00617 Chr11 9555027 9557688 +
Sto Sto11g0559 Chr11 6733987 6735837 +
Vvi Vvi1g0494 Chr1 4717341 4720029 +
Bva Bva01g01569 Chr01 17103320 17107504 -
Bva Bva11g00616 Chr11 9547367 9554135 -
Cca Cca06g00286 Chr06 7501112 7503772 -
Lal Lal22g0931 Chr22 7391630 7400928 +
Lja Lja2g3236 Chr2 71234865 71240026 +
Pvu Pvu3g0332 Chr3 3093251 3100971 -
Ssu Ssu2g1225 Chr2 53681790 53688009 -
Sto Sto6g2637 Chr6 33416490 33437496 -
Vvi Vvi1g0495 Chr1 4722336 4723231 +
Psa Psa6g0988 Chr6 38024649 38043242 +
Sto Sto6g2634 Chr6 33392335 33396581 +
Vvi Vvi1g0496 Chr1 4726059 4726283 +
Vvi Vvi1g0497 Chr1 4729364 4729693 +
Vvi Vvi1g0498 Chr1 4736713 4737012 +
Vvi Vvi1g0499 Chr1 4740067 4740786 +
Bva Bva01g01568 Chr01 17098401 17099458 -
Lja Lja2g3237 Chr2 71286560 71288586 +
Psa Psa6g0989 Chr6 38055101 38056650 +
Sto Sto6g2633 Chr6 33378681 33382909 -
Vvi Vvi1g0500 Chr1 4742694 4743417 +
Bva Bva01g01566 Chr01 17086504 17087476 -
Psa Psa6g0990 Chr6 38073103 38074210 +
Sto Sto6g2632 Chr6 33369723 33371622 -