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
Vvi4g0914 . Acco06g0045 . Accr5g03026 . Adu06g00254 . . . . . . . . . Alju03g3382 . . . . . Arst6g00349 . . . Bisa07g1222 . Bva04g03432 . . . . . Dere02g0306 . . . Enph4g2203 . Glsi11g0055 . . . . . . . . . . . . . . . . . . . . . Lapu6g01995 . . . . . . . Lele14g2315 Lele15g0035 Lele16g0035 . . . . . . . Mesa25g00139 . . . . . . . Phco11g01298 . Prci3g4026 . . . Pste5g03363 . . . . . Pumo5g03843 . Pvu6g1122 . Rops8g04176 . Seca2g05498 . Spst6g00513 . . . . . . . Trre13g05290 . . . Vian6g01003 . . . Vimu2g01619 . Viun6g01696 . Vivi6g05154 . .
Vvi4g0915 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0916 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03508 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g2811 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu01g03299 . . . . . . . . . . . .
Vvi4g0917 . . . . . Adu06g00251 . . . . . . . . . Alju03g3385 . . . . . . . . . Bisa07g1216 Bva13g03509 Bva04g03435 . . . . . . . . . Enph4g2205 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g1631 . Mal1g1283 . . . . . . . Mtr1g2809 . . . . . Prci3g4032 . . . . . . . . . . . Pvu6g1127 . . . . . . . . . . . . . . . . . . . Vifa5g03958 . . . . . . . .
Vvi4g0918 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0919 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0920 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0921 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0922 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco11g01293 . . . . . . . . . . . Pumo5g03847 . Pvu6g1128 . . . Seca2g05502 . Spst6g00521 . . . . . . . . . . . Vian6g01007 . . . Vimu2g01614 . Viun6g01701 . . . .
Vvi4g0923 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g03436 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g1632 . Mal1g1281 . . . . . . . Mtr1g2806 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g1603 . . . Tsu01g03291 . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0914 Chr4 14292299 14319113 -
Acco Acco06g0045 Chr06 312422 337887 +
Accr Accr5g03026 Chr5 55714957 55753239 -
Adu Adu06g00254 Chr06 3094982 3113911 +
Alju Alju03g3382 Chr03 57606569 57631983 -
Arst Arst6g00349 Chr6 3147579 3166914 +
Bisa Bisa07g1222 Chr07 30917624 30965230 +
Bva Bva04g03432 Chr04 27269933 27290542 -
Dere Dere02g0306 Chr02 3040663 3070343 -
Enph Enph4g2203 Chr4 33974272 34018529 -
Glsi Glsi11g0055 Chr11 424057 429449 +
Lapu Lapu6g01995 Chr6 19724454 19758315 +
Lele Lele14g2315 Chr14 27811585 27838131 -
Lele Lele15g0035 Chr15 209232 211140 +
Lele Lele16g0035 Chr16 208838 232224 +
Mesa Mesa25g00139 Chr25 1534954 1562576 +
Phco Phco11g01298 Chr11 9714054 9748881 +
Prci Prci3g4026 Chr3 47877660 47879358 -
Pste Pste5g03363 Chr5 26859148 26902128 -
Pumo Pumo5g03843 Chr5 88344830 88380315 -
Pvu Pvu6g1122 Chr6 22333898 22367837 -
Rops Rops8g04176 Chr8 84078253 84121558 -
Seca Seca2g05498 Chr2 141421102 141451022 -
Spst Spst6g00513 Chr6 4710222 4745269 -
Trre Trre13g05290 Chr13 57997573 58024917 -
Vian Vian6g01003 Chr6 27311098 27340372 -
Vimu Vimu2g01619 Chr2 11441693 11475044 +
Viun Viun6g01696 Chr6 24574917 24607372 -
Vivi Vivi6g05154 Chr6 155695149 155718873 -
Vvi Vvi4g0915 Chr4 14367220 14374501 -
Vvi Vvi4g0916 Chr4 14398787 14399344 +
Bva Bva13g03508 Chr13 23827423 23828023 +
Mtr Mtr1g2811 Chr1 39266413 39267129 -
Tsu Tsu01g03299 Chr01 40893291 40893785 -
Vvi Vvi4g0917 Chr4 14427744 14428079 +
Adu Adu06g00251 Chr06 3039575 3043013 -
Alju Alju03g3385 Chr03 57660045 57661469 +
Bisa Bisa07g1216 Chr07 30791292 30794621 -
Bva Bva13g03509 Chr13 23829053 23830898 +
Bva Bva04g03435 Chr04 27304259 27305810 +
Enph Enph4g2205 Chr4 34051639 34052215 +
Lja Lja5g1631 Chr5 17516550 17519091 +
Mal Mal1g1283 Chr1 16338670 16341612 -
Mtr Mtr1g2809 Chr1 39244877 39253353 -
Prci Prci3g4032 Chr3 47935522 47937733 +
Pvu Pvu6g1127 Chr6 22413981 22415806 +
Vifa Vifa5g03958 Chr5 1262293647 1262294710 +
Vvi Vvi4g0918 Chr4 14450241 14452626 +
Vvi Vvi4g0919 Chr4 14464776 14464946 -
Vvi Vvi4g0920 Chr4 14491838 14492113 -
Vvi Vvi4g0921 Chr4 14567886 14583283 +
Vvi Vvi4g0922 Chr4 14598640 14599614 +
Phco Phco11g01293 Chr11 9669723 9670261 -
Pumo Pumo5g03847 Chr5 88478038 88478609 +
Pvu Pvu6g1128 Chr6 22417894 22421820 +
Seca Seca2g05502 Chr2 141519704 141520208 +
Spst Spst6g00521 Chr6 4815850 4816351 +
Vian Vian6g01007 Chr6 27389695 27390201 +
Vimu Vimu2g01614 Chr2 11390978 11391516 -
Viun Viun6g01701 Chr6 24658199 24658816 +
Vvi Vvi4g0923 Chr4 14621965 14682831 +
Bva Bva04g03436 Chr04 27306248 27313693 +
Lja Lja5g1632 Chr5 17520858 17530735 +
Mal Mal1g1281 Chr1 16277856 16296661 -
Mtr Mtr1g2806 Chr1 39223326 39232469 -
Tpr Tpr1g1603 Chr1 15013456 15026283 +
Tsu Tsu01g03291 Chr01 40791210 40801053 -