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
Vvi19g0360 . . . . . . . . . . . . . . . . . . Apr2g0342 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0361 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0362 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0363 . . . . . . . Aed5g1095 . . . Ahy13g1795 . Aip03g01987 . . . Amo13g2265 . Apr5g0065 . . . . . . Bva09g00793 Bva07g01819 . . . Cca04g01368 . . . Dod03g1900 . . . . Gma06g02331 Gma12g01351 . . Gso6g2122 Gso6g2122 . . . . Lal2g0552 . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2417 . . . . . . . Mtr8g1704 . . . . . . . Psa5g6180 . . . . . . . . . . . . . . . . . Ssu3g1872 Sto7g0322 . . Tpr7g2016 . . . Tsu08g02004 . . . . . . . . . . . Vra2g1260
Vvi19g0364 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0365 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0366 . . . . . . Aed1g0669 . Aev10g2370 . Ahy18g1231 . Aip08g01305 . . . Amo18g1418 . Apr2g0340 . . . . . . . Bva09g00792 Bva07g01820 Car01g02102 . Cca10g01040 Cca09g01340 . . Dod10g1067 . . . . . . . Gma12g02057 Gma13g02497 . . . . . Lal1g1660 . . . Lal11g1393 . . . . . . . . . . . . . . . . . . . Lja3g4479 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1077 Ssu5g1783 Sto7g0323 . . . . . . . . . . . . . . . . . . Vra7g1743
Vvi19g0367 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0368 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g00791 Bva07g01822 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g6157 . . . . . . . . . . . . . . . . . . . Sto4g2922 . . . . . . . . . . . . . . . . . .
Vvi19g0369 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev10g2370 Chr10 23396710 23398621 -
Ahy Ahy18g1231 Chr18 21059062 21060938 -
Aip Aip08g01305 Chr08 20085440 20087349 -
Amo Amo18g1418 Chr18 26536456 26538357 -
Dod Dod10g1067 Chr10 28966260 28968228 +
Sto Sto7g0323 Chr7 2287022 2288286 +
Aed Aed5g1095 Chr5 9278355 9284200 +
Cca Cca04g01368 Chr04 17834654 17841879 +
Psa Psa5g6180 Chr5 528624335 528645404 +
Ssu Ssu3g1872 Chr3 58385183 58394734 -
Vra Vra2g1260 Chr2 18238325 18245587 +
Gma Gma06g02331 Chr06 44268306 44275683 -
Sto Sto7g0322 Chr7 2268486 2276422 -
Vvi Vvi19g0360 Chr19 3858392 3858658 +
Apr Apr2g0342 Chr2 4095103 4095621 +
Vvi Vvi19g0361 Chr19 3859834 3861600 -
Vvi Vvi19g0362 Chr19 3863616 3865832 -
Vvi Vvi19g0363 Chr19 3867743 3891159 -
Aed Aed5g1095 Chr5 9278355 9284200 +
Ahy Ahy13g1795 Chr13 29104371 29111359 +
Aip Aip03g01987 Chr03 27983938 27989409 +
Amo Amo13g2265 Chr13 38590493 38597234 +
Apr Apr5g0065 Chr5 611331 618413 +
Bva Bva09g00793 Chr09 4084194 4089313 +
Bva Bva07g01819 Chr07 16526571 16532572 -
Cca Cca04g01368 Chr04 17834654 17841879 +
Dod Dod03g1900 Chr03 40507678 40520455 -
Gma Gma06g02331 Chr06 44268306 44275683 -
Gma Gma12g01351 Chr12 20771836 20780765 +
Gso Gso6g2122 Chr6 40207138 40214418 -
Gso Gso6g2122 Chr6 40207138 40214418 -
Lal Lal2g0552 Chr2 3328158 3336430 +
Mal Mal5g2417 Chr5 66177324 66183630 -
Mtr Mtr8g1704 Chr8 25205313 25211681 -
Psa Psa5g6180 Chr5 528624335 528645404 +
Ssu Ssu3g1872 Chr3 58385183 58394734 -
Sto Sto7g0322 Chr7 2268486 2276422 -
Tpr Tpr7g2016 Chr7 24830746 24837503 +
Tsu Tsu08g02004 Chr08 26246237 26252153 +
Vra Vra2g1260 Chr2 18238325 18245587 +
Vvi Vvi19g0364 Chr19 3894331 3895951 -
Vvi Vvi19g0365 Chr19 3904158 3904607 +
Vvi Vvi19g0366 Chr19 3913873 3915228 +
Aed Aed1g0669 Chr1 7964887 7966481 +
Aev Aev10g2370 Chr10 23396710 23398621 -
Ahy Ahy18g1231 Chr18 21059062 21060938 -
Aip Aip08g01305 Chr08 20085440 20087349 -
Amo Amo18g1418 Chr18 26536456 26538357 -
Apr Apr2g0340 Chr2 4080497 4082290 -
Bva Bva09g00792 Chr09 4077804 4079124 -
Bva Bva07g01820 Chr07 16536813 16538172 +
Car Car01g02102 Chr01 46476600 46479347 +
Cca Cca10g01040 Chr10 12774404 12776204 -
Cca Cca09g01340 Chr09 36426865 36428479 +
Dod Dod10g1067 Chr10 28966260 28968228 +
Gma Gma12g02057 Chr12 41258513 41261284 -
Gma Gma13g02497 Chr13 39830712 39833072 -
Lal Lal1g1660 Chr1 19008975 19011620 +
Lal Lal11g1393 Chr11 17381147 17382792 -
Lja Lja3g4479 Chr3 86546485 86548872 -
Ssu Ssu8g1077 Chr8 18950966 18952925 -
Ssu Ssu5g1783 Chr5 53406876 53407851 +
Sto Sto7g0323 Chr7 2287022 2288286 +
Vra Vra7g1743 Chr7 36206435 36208184 -
Vvi Vvi19g0367 Chr19 3938938 3941145 +
Vvi Vvi19g0368 Chr19 3943051 3944840 -
Bva Bva09g00791 Chr09 4074751 4076189 +
Bva Bva07g01822 Chr07 16544246 16545923 -
Psa Psa5g6157 Chr5 526972497 526974605 -
Sto Sto4g2922 Chr4 29731851 29733537 -
Vvi Vvi19g0369 Chr19 3952949 3953062 +