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
Vvi2g0712 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0713 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0714 . . . . . . . . Aev05g0806 . Ahy15g0467 . Aip05g00468 . . . . . . . . . . . . . . . . . . . . . Dod02g0893 . . . . . Gma01g02045 . . . Gso1g1726 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1849 . . . . . . . . . . . . . . . . . .
Vvi2g0715 . . . . . . . . . . . . . . . . . . . Apr10g1683 . . . . . . . . . Car07g01315 . . . . . . . . . . . . Gma05g00649 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa4g2772 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0716 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0717 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0718 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0719 . . . . . . . . . . . . . . . . . . . Apr3g0017 . . . . . . . . . . . . . . . . . . . . . . Gma05g01126 Gma17g01422 . . . . . . Lal23g0783 Lal15g0820 . Lal23g1271 . . . . . . . . . . . . . . . . . . . Lja4g2681 . . . . . . . . . . . . . . . . . Psa4g1843 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0720 . . . . . . . . . . . . . . . . . . . Apr3g0016 . . . . . . . . . . . . . . . . . . . . . . Gma05g01127 Gma17g01421 . . . . . Lal16g0283 . . . . . . . . . . . . . . . . . . . . . . . Lja4g2680 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0721 . . . . . . . . . . . . . . . . . . . Apr3g0015 . . . . . . . . . . . . . . . . . . . . . . Gma05g01128 Gma17g01420 . . . . . . Lal23g0782 . . . . . . . . . . . . . . . . . . . . . . Lja4g2676 . . . . . . . . . . . . . . . . Psa2g3957 Psa4g1844 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0712 Chr2 6687939 6688022 -
Vvi Vvi2g0713 Chr2 6692400 6694020 -
Vvi Vvi2g0714 Chr2 6705411 6707155 +
Aev Aev05g0806 Chr05 5623814 5625387 +
Ahy Ahy15g0467 Chr15 5566823 5569348 -
Aip Aip05g00468 Chr05 5328118 5330311 -
Dod Dod02g0893 Chr02 11399941 11402150 +
Gma Gma01g02045 Chr01 55834197 55836086 +
Gso Gso1g1726 Chr1 54033957 54036830 +
Sto Sto11g1849 Chr11 17223368 17226104 +
Vvi Vvi2g0715 Chr2 6708452 6711471 -
Apr Apr10g1683 Chr10 29582791 29585139 +
Car Car07g01315 Chr07 12092802 12095195 +
Gma Gma05g00649 Chr05 7174787 7176574 +
Psa Psa4g2772 Chr4 223087123 223089420 -
Vvi Vvi2g0716 Chr2 6712289 6732964 -
Vvi Vvi2g0717 Chr2 6743161 6747172 +
Vvi Vvi2g0718 Chr2 6747231 6761215 +
Vvi Vvi2g0719 Chr2 6785373 6786221 +
Apr Apr3g0017 Chr3 241677 242543 -
Gma Gma05g01126 Chr05 32193681 32197663 +
Gma Gma17g01422 Chr17 13365245 13366576 -
Lal Lal23g0783 Chr23 10348300 10350534 -
Lal Lal15g0820 Chr15 6038258 6039818 +
Lal Lal23g1271 Chr23 13800978 13802998 -
Lja Lja4g2681 Chr4 36999705 37001219 -
Psa Psa4g1843 Chr4 132110330 132112526 +
Vvi Vvi2g0720 Chr2 6802866 6803240 -
Apr Apr3g0016 Chr3 224003 224429 +
Gma Gma05g01127 Chr05 32211182 32211508 -
Gma Gma17g01421 Chr17 13353400 13354111 +
Lal Lal16g0283 Chr16 1690386 1690772 -
Lja Lja4g2680 Chr4 36952261 36952790 +
Vvi Vvi2g0721 Chr2 6805989 6816884 -
Apr Apr3g0015 Chr3 217414 222103 +
Gma Gma05g01128 Chr05 32213118 32218221 -
Gma Gma17g01420 Chr17 13342884 13348596 +
Lal Lal23g0782 Chr23 10341101 10344652 +
Lja Lja4g2676 Chr4 36726700 36730563 +
Psa Psa2g3957 Chr2 413057204 413061343 -
Psa Psa4g1844 Chr4 132187125 132197608 -