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
Vvi18g0896 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0897 . . . . . . . . . . . . . . . . . . Apr9g0442 . . . . . . . . . . . . . . . . . . . . . . . . Gma17g02336 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g3163 Mal1g5810 . . . . . . . Mtr1g0529 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3703 . . . Tsu01g00374 . . . . . . . . . . . . .
Vvi18g0898 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00737 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4177 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0899 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0900 . . . . . . . . . . . . . . . . . . Apr9g0443 . . . . . . . . . . . . . . . . . . . . . Gma04g00350 . . Gma17g02337 Gso4g0326 . . Gso4g0326 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0901 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00738 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0902 . . . . . Adu06g03214 . . . . . . . . . . . . Apr9g0444 . . Arst6g04144 . . . . . . . . . . . . . . . . . . . . Gma14g00705 Gma17g02338 . . . . . . . . . . . . . . . . . . . Lasa5g03695 . . . . . . . . . . . . . . . . . . . . . . . Phco2g00240 . . . . . Pste8g01042 . . . Pte2g01171 . Pumo9g00232 . Pvu1g0208 . . . Seca8g03732 . Spst8g02137 . . . . . . . . . . . Vian7g00755 . Vifa1g07130 . Vimu1g03022 . Viun8g00304 . Vivi4g05644 . .
Vvi18g0903 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0904 . . . . . Adu06g03215 Aed11g0190 . . . . Ahy16g3558 . Aip06g03818 . . . . . . . Arst6g04145 . . . . . . . . Cca05g00198 . . . . . . . . . . . Gma14g00703 Gma17g02339 . . . . . . . . . . . . . . . . . Lapu8g00898 . Lasa5g03694 . . . . . . . . . . . . . Mepo4g00230 . Mesa1g00274 . . . Mtr3g3628 . . . Phco2g00239 . . . . . Pste8g01045 . . . . . Pumo9g00231 . Pvu1g0207 . . . Seca4g01518 . Spst8g02136 Ssu5g0226 . . . . Tpr3g3449 . Trre1g00296 . Tsu07g00973 . Vian7g00756 . Vifa1g07129 . Vimu1g03023 . Viun8g00302 . Vivi3g01953 Vra6g1879 .
Vvi18g0905 . . . . . . Aed11g0189 . . Aev07g0827 . Ahy16g3559 . Aip06g03819 . . . Amo16g3873 . . . . . . . . . . . . Cca05g00199 . . . . Dod08g2097 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0225 . . . . . . . . . . . . . . . . . . . Vra6g1880 .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0896 Chr18 9117968 9130552 -
Vvi Vvi18g0897 Chr18 9147829 9149815 -
Apr Apr9g0442 Chr9 6157621 6160804 -
Gma Gma17g02336 Chr17 41358765 41361383 -
Lja Lja5g3163 Chr5 61497058 61499446 -
Mal Mal1g5810 Chr1 135433422 135437452 -
Mtr Mtr1g0529 Chr1 6145558 6149719 -
Tpr Tpr1g3703 Chr1 41129256 41132018 -
Tsu Tsu01g00374 Chr01 3187500 3190607 +
Vvi Vvi18g0898 Chr18 9163501 9165669 -
Bva Bva10g00737 Chr10 6031926 6037416 -
Lja Lja1g4177 Chr1 53190946 53193409 -
Vvi Vvi18g0899 Chr18 9178747 9183975 -
Vvi Vvi18g0900 Chr18 9187360 9188756 -
Apr Apr9g0443 Chr9 6197196 6200377 +
Gma Gma04g00350 Chr04 3012309 3014113 +
Gma Gma17g02337 Chr17 41364904 41367619 +
Gso Gso4g0326 Chr4 2956720 2960181 +
Gso Gso4g0326 Chr4 2956720 2960181 +
Vvi Vvi18g0901 Chr18 9220780 9222765 -
Bva Bva10g00738 Chr10 6039678 6041986 -
Vvi Vvi18g0902 Chr18 9238035 9240206 -
Adu Adu06g03214 Chr06 110447183 110452291 -
Apr Apr9g0444 Chr9 6209233 6212811 -
Arst Arst6g04144 Chr6 109562441 109568447 -
Gma Gma14g00705 Chr14 7059534 7061368 -
Gma Gma17g02338 Chr17 41368267 41371374 -
Lasa Lasa5g03695 Chr5 587752814 587753715 +
Phco Phco2g00240 Chr2 1864832 1866052 +
Pste Pste8g01042 Chr8 5475320 5483721 -
Pte Pte2g01171 Chr2 12872403 12874585 -
Pumo Pumo9g00232 Chr9 3440601 3443310 -
Pvu Pvu1g0208 Chr1 1751687 1753884 -
Seca Seca8g03732 Chr8 107122885 107125968 -
Spst Spst8g02137 Chr8 30314567 30316579 +
Vian Vian7g00755 Chr7 15788996 15790816 -
Vifa Vifa1g07130 Chr1 1100572707 1100574422 +
Vimu Vimu1g03022 Chr1 42648558 42650769 -
Viun Viun8g00304 Chr8 1925262 1930375 +
Vivi Vivi4g05644 Chr4 192392619 192394972 -
Vvi Vvi18g0903 Chr18 9249032 9251242 -
Vvi Vvi18g0904 Chr18 9254405 9256571 -
Adu Adu06g03215 Chr06 110454665 110475027 -
Aed Aed11g0190 Chr11 1529013 1532099 -
Ahy Ahy16g3558 Chr16 153199129 153204478 -
Aip Aip06g03818 Chr06 135887664 135893488 -
Arst Arst6g04145 Chr6 109578767 109583009 -
Cca Cca05g00198 Chr05 4291590 4294203 -
Gma Gma14g00703 Chr14 7048215 7050950 -
Gma Gma17g02339 Chr17 41375226 41379001 -
Lapu Lapu8g00898 Chr8 27133911 27137412 -
Lasa Lasa5g03694 Chr5 587747349 587747981 +
Mepo Mepo4g00230 Chr4 3806255 3809961 +
Mesa Mesa1g00274 Chr1 3290783 3294307 +
Mtr Mtr3g3628 Chr3 50133451 50135398 +
Phco Phco2g00239 Chr2 1859808 1861508 -
Pste Pste8g01045 Chr8 5503768 5506648 +
Pumo Pumo9g00231 Chr9 3425140 3428060 +
Pvu Pvu1g0207 Chr1 1746795 1750321 +
Seca Seca4g01518 Chr4 24521472 24530057 -
Spst Spst8g02136 Chr8 30289762 30291774 -
Ssu Ssu5g0226 Chr5 4755332 4758169 +
Tpr Tpr3g3449 Chr3 38042493 38044621 +
Trre Trre1g00296 Chr1 2153778 2156535 +
Tsu Tsu07g00973 Chr07 7999715 8001355 -
Vian Vian7g00756 Chr7 15793521 15802833 -
Vifa Vifa1g07129 Chr1 1100562262 1100563977 +
Vimu Vimu1g03023 Chr1 42661051 42663038 -
Viun Viun8g00302 Chr8 1909030 1911348 +
Vivi Vivi3g01953 Chr3 32304201 32307106 -
Vra Vra6g1879 Chr6 35412297 35414633 +
Vvi Vvi18g0905 Chr18 9265011 9267176 -
Aed Aed11g0189 Chr11 1525358 1527980 +
Aev Aev07g0827 Chr07 5608078 5621665 +
Ahy Ahy16g3559 Chr16 153206909 153213191 -
Aip Aip06g03819 Chr06 135896687 135906794 -
Amo Amo16g3873 Chr16 150536079 150541545 -
Cca Cca05g00199 Chr05 4310430 4313292 +
Dod Dod08g2097 Chr08 48587925 48591369 -
Ssu Ssu5g0225 Chr5 4733318 4740867 +
Vra Vra6g1880 Chr6 35415976 35418171 -
Lasa Lasa5g03694 Chr5 587747349 587747981 +