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
Vvi3g0153 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0154 . . . . . . . . . . Ahy13g0859 . Aip03g00925 . . . Amo13g0866 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g2748 . . . . . . . Mtr4g2262 . . . . . . . Psa7g4006 . . . . . . . . . . . . . . . . . . . . Sto10g0089 . . . . . . . . . . . . . . . . . .
Vvi3g0155 . . . . . . . . . . Ahy13g0860 . Aip03g00926 . . . Amo13g0867 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g2750 . . . . . . . Mtr4g2263 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0156 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g01587 Bva14g02308 Car06g02190 . . . . . . . . . . . . . . Gma12g00287 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g4005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0157 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g02189 . . . . . . . . . . . . . . . . . . . Lal1g0141 . . . . . Lan13g0164 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g4004 . . . . . . . . . . . . . . . . . . . Sto2g0916 . . . . . . . . . . . . . . . . . . .
Vvi3g0158 . . . . . Adu03g04424 . . . . . . . . . . . . . . . . . . . . Bva13g01585 . . . . . . . . . . . . . . . . Gma12g00288 . . . . Lal1g0142 . Lal9g0112 . . . Lan13g0165 . Lan13g0165 . . . . . . . . . . . . . . . . . . . . . . Mesa13g01425 . . . . . Phac2g02857 . . . . . . . . . . . . . . . Pvu2g1891 . . . . . . . . Sto2g0917 . . . . . . . . . . . . . . . . . . .
Vvi3g0159 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g02191 . . . . . . . . . . . . . . Gma12g00289 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0160 . . . . . . . Aed9g0053 . . . . . . . . . . . Apr5g1837 . . . . . . Bva13g01584 Bva14g02309 Car06g02192 . . Cca07g00061 . . . . . . . . . Gma06g00046 . Gma12g00290 . . . . Lal1g0143 . . . . . Lan13g0166 . . . . . . . . . . . . . . . . . Lja1g2371 . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu9g0260 . Rops10g02686 . . . . . . . Sto2g0922 Sto10g0087 . . . . . . . . . . . . Viun9g03941 . . . . Vra5g1839
Vvi3g0161 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g02310 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0086 . . . . . . . . . . . . . . . . . .
Vvi3g0162 . . . . . . . . . Aev05g0421 . Ahy15g0410 . Aip05g00402 . . . . . . . . . . . . Bva13g01583 Bva14g02311 . . . . . . . Dod02g0463 . . . . . . . Gma12g00291 . . . . Lal1g0144 . . . . . Lan13g0167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g3505 . . . . . . . . . . . . . . . . . . . Sto10g0084 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0153 Chr3 1397866 1400744 +
Vvi Vvi3g0154 Chr3 1402236 1405517 +
Ahy Ahy13g0859 Chr13 9059053 9061149 -
Aip Aip03g00925 Chr03 8825177 8827177 -
Amo Amo13g0866 Chr13 10736377 10738448 -
Mal Mal7g2748 Chr7 89709245 89710863 -
Mtr Mtr4g2262 Chr4 36087340 36093143 -
Psa Psa7g4006 Chr7 330814613 330817268 -
Sto Sto10g0089 Chr10 666475 671065 -
Vvi Vvi3g0155 Chr3 1406571 1408542 +
Ahy Ahy13g0860 Chr13 9071188 9075232 -
Aip Aip03g00926 Chr03 8833374 8836633 -
Amo Amo13g0867 Chr13 10749128 10752747 -
Mal Mal7g2750 Chr7 89720936 89723544 -
Mtr Mtr4g2263 Chr4 36105878 36108799 -
Vvi Vvi3g0156 Chr3 1412138 1412692 +
Bva Bva13g01587 Chr13 9513923 9514562 -
Bva Bva14g02308 Chr14 19927410 19927970 +
Car Car06g02190 Chr06 22389014 22389719 +
Gma Gma12g00287 Chr12 2289026 2289915 +
Psa Psa7g4005 Chr7 330813218 330814497 -
Vvi Vvi3g0157 Chr3 1415779 1416336 +
Car Car06g02189 Chr06 22381457 22382170 +
Lal Lal1g0141 Chr1 930941 931516 +
Lan Lan13g0164 Chr13 996054 996692 +
Psa Psa7g4004 Chr7 330807375 330808641 -
Sto Sto2g0916 Chr2 7921791 7922327 +
Vvi Vvi3g0158 Chr3 1425198 1429025 -
Adu Adu03g04424 Chr03 133224745 133226378 +
Bva Bva13g01585 Chr13 9493243 9499942 +
Gma Gma12g00288 Chr12 2291306 2295641 -
Lal Lal1g0142 Chr1 932869 936534 -
Lal Lal9g0112 Chr9 725423 729115 -
Lan Lan13g0165 Chr13 997176 1001807 -
Lan Lan13g0165 Chr13 997176 1001807 -
Mesa Mesa13g01425 Chr13 17038260 17040217 +
Phac Phac2g02857 Chr2 30150440 30156000 -
Pvu Pvu2g1891 Chr2 33691571 33692722 -
Sto Sto2g0917 Chr2 7924783 7928484 +
Vvi Vvi3g0159 Chr3 1436852 1438690 +
Car Car06g02191 Chr06 22404283 22406948 +
Gma Gma12g00289 Chr12 2296338 2298307 +
Vvi Vvi3g0160 Chr3 1441363 1442319 +
Aed Aed9g0053 Chr9 383559 384512 -
Apr Apr5g1837 Chr5 21555394 21557908 +
Bva Bva13g01584 Chr13 9477773 9479241 -
Bva Bva14g02309 Chr14 19933002 19934365 +
Car Car06g02192 Chr06 22408318 22409799 +
Cca Cca07g00061 Chr07 841648 843220 -
Gma Gma06g00046 Chr06 414297 415727 -
Gma Gma12g00290 Chr12 2299452 2302178 +
Lal Lal1g0143 Chr1 938316 939272 +
Lan Lan13g0166 Chr13 1004025 1005078 +
Lja Lja1g2371 Chr1 27397390 27398757 +
Pvu Pvu9g0260 Chr9 5878516 5879839 -
Rops Rops10g02686 Chr10 46577219 46578468 +
Sto Sto2g0922 Chr2 7957617 7958570 +
Sto Sto10g0087 Chr10 658680 659633 -
Viun Viun9g03941 Chr9 43440553 43442066 +
Vra Vra5g1839 Chr5 24290493 24291847 +
Vvi Vvi3g0161 Chr3 1444347 1447356 -
Bva Bva14g02310 Chr14 19935009 19938758 -
Sto Sto10g0086 Chr10 653747 657282 +
Vvi Vvi3g0162 Chr3 1449449 1451521 +
Aev Aev05g0421 Chr05 2899817 2901199 -
Ahy Ahy15g0410 Chr15 4774586 4775433 -
Aip Aip05g00402 Chr05 4489298 4490186 -
Bva Bva13g01583 Chr13 9471151 9471817 -
Bva Bva14g02311 Chr14 19940640 19941215 +
Dod Dod02g0463 Chr02 6102434 6104148 -
Gma Gma12g00291 Chr12 2309127 2309984 +
Lal Lal1g0144 Chr1 941000 941290 +
Lan Lan13g0167 Chr13 1007319 1007639 +
Psa Psa2g3505 Chr2 384722726 384724882 -
Sto Sto10g0084 Chr10 650753 651085 -
Aev Aev05g0421 Chr05 2899817 2901199 -
Ahy Ahy15g0410 Chr15 4774586 4775433 -
Aip Aip05g00402 Chr05 4489298 4490186 -
Dod Dod02g0463 Chr02 6102434 6104148 -
Psa Psa2g3505 Chr2 384722726 384724882 -