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
Vvi19g1240 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1241 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1242 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1243 . . . . . . Aed1g0325 . . . . . . . . . . . . . . . . . . . . . . . Cca10g01364 . . . . . . . . . . Gma15g02446 . . . . . . Lal9g0592 Lal1g1555 . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1899 . . . . . . . Mtr2g2290 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra5g2316 .
Vvi19g1244 . . . Accr1g02708 . . Aed1g0321 . . . . . . . . . . . Apr2g0618 . . . . Bach9g00993 . . . . . . Cca10g01367 . . . . . . . . Glsi04g2231 . Gma15g02459 . . . . . . Lal9g0590 . . . . . . . . . . . . . . . . . . . . . . . . Lja3g4941 Mal4g1900 . . . . . . . Mtr2g2289 . . . . Phco9g01909 . Prci6g2869 . . . . . . . . . . . Pvu11g1809 . Rops3g02151 . . . Spst11g00470 Ssu8g1430 . Sto4g0768 . Tpr7g3182 . . . Tsu02g03874 . . . . . . Vimu5g00978 . . . . . .
Vvi19g1245 . . . . . . Aed1g0320 . Aev10g1101 . Ahy18g1832 . Aip08g02072 . . . Amo18g2404 . Apr2g0619 . . . . . . . . . . . Cca10g01368 . . . Dod10g0709 . . . . . . Gma15g02461 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1903 . . . . . . . Mtr2g2288 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1432 . Sto4g0770 . Tpr7g3181 . . . Tsu02g03868 . . . . . . . . . . . . .
Vvi19g1246 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1247 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1248 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1249 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi19g1240 Chr19 20668967 20671507 +
Vvi Vvi19g1241 Chr19 20683561 20804243 -
Vvi Vvi19g1242 Chr19 20812502 20816389 -
Vvi Vvi19g1243 Chr19 20817471 20819419 -
Aed Aed1g0325 Chr1 5051546 5053783 +
Cca Cca10g01364 Chr10 19117417 19119435 -
Gma Gma15g02446 Chr15 51711635 51713965 +
Lal Lal9g0592 Chr9 3988336 3990233 -
Lal Lal1g1555 Chr1 17873027 17874938 +
Mal Mal4g1899 Chr4 36358051 36359883 +
Mtr Mtr2g2290 Chr2 34641727 34647635 -
Vra Vra5g2316 Chr5 29859616 29860910 -
Vvi Vvi19g1244 Chr19 20862920 20865627 +
Accr Accr1g02708 Chr1 63599700 63604325 -
Aed Aed1g0321 Chr1 4997871 5004074 -
Apr Apr2g0618 Chr2 7226263 7230256 +
Bach Bach9g00993 Chr9 7415371 7418778 +
Cca Cca10g01367 Chr10 19178519 19183297 +
Glsi Glsi04g2231 Chr04 74997642 75004737 -
Gma Gma15g02459 Chr15 51872220 51877131 +
Lal Lal9g0590 Chr9 3979337 3982675 -
Lja Lja3g4941 Chr3 91522200 91527838 -
Mal Mal4g1900 Chr4 36379703 36385030 +
Mtr Mtr2g2289 Chr2 34631915 34637102 -
Phco Phco9g01909 Chr9 43870528 43884323 -
Prci Prci6g2869 Chr6 41638135 41641626 -
Pvu Pvu11g1809 Chr11 44798536 44804073 -
Rops Rops3g02151 Chr3 41571417 41576990 -
Spst Spst11g00470 Chr11 25599823 25601873 +
Ssu Ssu8g1430 Chr8 27493898 27497589 +
Sto Sto4g0768 Chr4 5432789 5437158 +
Tpr Tpr7g3182 Chr7 39523772 39530685 -
Tsu Tsu02g03874 Chr02 44760898 44767415 -
Vimu Vimu5g00978 Chr5 14942534 14946602 +
Vvi Vvi19g1245 Chr19 20911323 20912408 -
Aed Aed1g0320 Chr1 4985559 4987311 +
Aev Aev10g1101 Chr10 14767031 14769235 +
Ahy Ahy18g1832 Chr18 75016051 75018501 -
Aip Aip08g02072 Chr08 69815209 69818011 -
Amo Amo18g2404 Chr18 83751607 83754161 -
Apr Apr2g0619 Chr2 7241916 7243711 -
Cca Cca10g01368 Chr10 19194757 19196951 -
Dod Dod10g0709 Chr10 21643290 21645709 +
Gma Gma15g02461 Chr15 51898461 51900984 -
Mal Mal4g1903 Chr4 36487503 36489422 -
Mtr Mtr2g2288 Chr2 34611134 34613346 +
Ssu Ssu8g1432 Chr8 27535036 27536743 -
Sto Sto4g0770 Chr4 5471098 5472422 -
Tpr Tpr7g3181 Chr7 39494080 39496736 +
Tsu Tsu02g03868 Chr02 44677599 44679769 +
Vvi Vvi19g1246 Chr19 20924372 20924970 -
Vvi Vvi19g1247 Chr19 20959757 20960173 +
Vvi Vvi19g1248 Chr19 20987714 21002557 +
Vvi Vvi19g1249 Chr19 21018784 21021207 -