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
Vvi2g0502 . . . . . . . . . . . Ahy11g1421 . Aip01g01536 . . . Amo11g1433 . . . . . . . . Bva08g00242 Bva11g02052 . . . . . . . . . . . . . . . . . . . . . . . . Lal16g1253 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3311 . . . . . . . . . . . . . . . . . . .
Vvi2g0503 . . . . . . . . . . . Ahy11g1420 . Aip01g01535 . . . . . . . . . . . . Bva08g00243 . . . . . . . . . . . . . . . . . . . . . . . . . Lal16g1254 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3312 . . . . . . . . . . . . . . . . . . .
Vvi2g0504 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3313 . . . . . . . . . . . . . . . . . . .
Vvi2g0505 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0506 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0507 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3314 . . . . . . . . . . . . . . . . . . .
Vvi2g0508 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0509 . . . . . . . . . . . . . . . . . . . Apr10g1435 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0510 . . . . . . . . . . . . . . . . . . . Apr10g1437 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0511 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0502 Chr2 4357380 4364138 +
Ahy Ahy11g1421 Chr11 55933612 55937277 -
Aip Aip01g01536 Chr01 52650860 52654216 -
Amo Amo11g1433 Chr11 52862785 52866801 -
Bva Bva08g00242 Chr08 1169725 1173590 +
Bva Bva11g02052 Chr11 17224028 17227125 -
Lal Lal16g1253 Chr16 8775451 8779266 +
Sto Sto6g3311 Chr6 39321839 39324812 +
Vvi Vvi2g0503 Chr2 4365378 4369488 -
Ahy Ahy11g1420 Chr11 55928342 55930103 +
Aip Aip01g01535 Chr01 52647435 52650126 +
Bva Bva08g00243 Chr08 1174242 1176295 -
Lal Lal16g1254 Chr16 8780468 8784549 -
Sto Sto6g3312 Chr6 39325553 39329001 -
Vvi Vvi2g0504 Chr2 4379653 4380207 -
Sto Sto6g3313 Chr6 39334419 39341432 +
Vvi Vvi2g0505 Chr2 4381266 4382166 -
Vvi Vvi2g0506 Chr2 4385439 4388281 -
Vvi Vvi2g0507 Chr2 4395605 4396114 +
Sto Sto6g3314 Chr6 39344865 39346574 +
Vvi Vvi2g0508 Chr2 4398446 4399306 +
Vvi Vvi2g0509 Chr2 4399412 4401065 +
Apr Apr10g1435 Chr10 26708605 26710353 -
Vvi Vvi2g0510 Chr2 4399667 4401065 +
Apr Apr10g1437 Chr10 26726228 26728012 +
Vvi Vvi2g0511 Chr2 4403949 4404744 +
Apr Apr10g1435 Chr10 26708605 26710353 -
Apr Apr10g1437 Chr10 26726228 26728012 +