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
Vvi18g0136 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0137 . Acco05g3022 . Accr3g00037 . . Aed11g0011 . . . . . . . . Alju07g2979 . . Apr9g0689 . . . . Bach3g02464 . Bisa05g0537 . Bva10g00986 . . Cca05g00426 . . Dere05g2883 . . . Enph7g1522 . Glsi10g0065 . . . . . . . . . . . . . . . . . . . . . Lapu8g01064 . Lasa6g00341 . . . . . . . . . Lja5g3360 . . . Mepo4g01946 . . . Mibi08g2650 . . . . . Phco2g00016 . Prci2g0044 . . . Pste8g01487 . . . . . Pumo9g00016 . Pvu1g0015 . Rops9g02547 . Seca8g04143 . Spst8g02080 Ssu5g0017 . . . . . . . . . . Vian7g00950 . . . . . Viun8g00036 . Vivi4g05988 Vra6g1991 .
Vvi18g0138 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car04g03623 . . . . . . . . . . . . . Gma14g02181 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g6156 . . . . . . . Mtr1g0766 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0061 . Tpr1g3918 . . . Tsu01g00155 . . . . . . . . . . . . .
Vvi18g0139 . . . . . . . . . . . . . . . . . . Apr9g0688 . . . . . . . . Bva10g00985 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0140 . . . . Adu08g00205 . . Aed9g0177 Aev08g0154 . Ahy17g2201 . Aip07g02354 . . . . . . . Arst8g00240 . Bach12g00046 . . . Bva06g01854 . . Car05g03308 . Cca07g00219 . . . . . . . . Gma04g00180 Gma06g00170 . . Gso4g0171 Gso4g0171 . . . . Lal21g0089 . . . . . . . . . Lapu9g02340 . Lasa5g04590 . . . . . . . . . Lja1g3454 . . Mal2g0415 Mepo3g07801 . . . . . . Mtr3g4327 . . Phco7g00234 . . . . . . . . . . . . . Pvu9g0220 . Rops10g02520 . Seca4g00341 . . . . . Sto5g0063 . . Tpr7g0180 . . . Tsu07g00207 Vian4g02441 . Vifa2g04561 . Vimu10g03540 . Viun9g03731 . Vivi3g00696 . . Vra5g1700
Vvi18g0141 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0142 . . . . . . . . . . . . . . . . . . Apr9g0687 . . . . . . . Bva06g01856 Bva10g00983 . . Cca05g00425 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2327 Lja5g3359 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0019 . Sto5g0066 . . . . . . . . . . . . . . . . . . .
Vvi18g0143 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00982 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3735 . . . . . . . . . . . . . . . . . .
Vvi18g0144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma04g02086 . . . Gso4g1818 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0145 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01857 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0136 Chr18 1247946 1248829 -
Vvi Vvi18g0137 Chr18 1249445 1252271 +
Acco Acco05g3022 Chr05 44696438 44698975 -
Accr Accr3g00037 Chr3 504415 506956 +
Aed Aed11g0011 Chr11 68697 74531 +
Alju Alju07g2979 Chr07 54839981 54842518 -
Apr Apr9g0689 Chr9 11395144 11398790 -
Bach Bach3g02464 Chr3 30747163 30749406 -
Bisa Bisa05g0537 Chr05 8781072 8784371 +
Bva Bva10g00986 Chr10 7273831 7276238 -
Cca Cca05g00426 Chr05 9331062 9337816 -
Dere Dere05g2883 Chr05 39375906 39378570 -
Enph Enph7g1522 Chr7 20330772 20358821 -
Glsi Glsi10g0065 Chr10 567270 570138 +
Lapu Lapu8g01064 Chr8 28624682 28627765 -
Lasa Lasa6g00341 Chr6 9822502 9824965 -
Lja Lja5g3360 Chr5 65705033 65708726 -
Mepo Mepo4g01946 Chr4 24688122 24691466 -
Mibi Mibi08g2650 Chr08 44308506 44311353 -
Phco Phco2g00016 Chr2 185082 187818 +
Prci Prci2g0044 Chr2 385686 388542 +
Pste Pste8g01487 Chr8 8147353 8150024 -
Pumo Pumo9g00016 Chr9 313479 316951 +
Pvu Pvu1g0015 Chr1 204982 207864 +
Rops Rops9g02547 Chr9 47768362 47771917 +
Seca Seca8g04143 Chr8 118317973 118321451 -
Spst Spst8g02080 Chr8 28798912 28801747 -
Ssu Ssu5g0017 Chr5 232671 235233 +
Vian Vian7g00950 Chr7 17686043 17688419 -
Viun Viun8g00036 Chr8 202415 205326 +
Vivi Vivi4g05988 Chr4 197112087 197115041 -
Vra Vra6g1991 Chr6 36609158 36611825 +
Vvi Vvi18g0138 Chr18 1253932 1257513 +
Car Car04g03623 Chr04 65682570 65686255 -
Gma Gma14g02181 Chr14 52945276 52949530 -
Mal Mal1g6156 Chr1 140562955 140566007 -
Mtr Mtr1g0766 Chr1 8613765 8616965 -
Sto Sto5g0061 Chr5 400156 402357 +
Tpr Tpr1g3918 Chr1 43301094 43304770 -
Tsu Tsu01g00155 Chr01 1213072 1216096 +
Vvi Vvi18g0139 Chr18 1262287 1262685 +
Apr Apr9g0688 Chr9 11378769 11379164 -
Bva Bva10g00985 Chr10 7270328 7270960 -
Vvi Vvi18g0140 Chr18 1270401 1280697 +
Adu Adu08g00205 Chr08 3302290 3305776 -
Aed Aed9g0177 Chr9 1265166 1269224 +
Aev Aev08g0154 Chr08 877861 880231 +
Ahy Ahy17g2201 Chr17 105552972 105557102 +
Aip Aip07g02354 Chr07 98055762 98059022 +
Arst Arst8g00240 Chr8 3314146 3317655 -
Bach Bach12g00046 Chr12 344021 346202 +
Bva Bva06g01854 Chr06 12723443 12726374 +
Car Car05g03308 Chr05 77778236 77781686 -
Cca Cca07g00219 Chr07 2805493 2809826 +
Gma Gma04g00180 Chr04 1542472 1543885 +
Gma Gma06g00170 Chr06 1504300 1508153 +
Gso Gso4g0171 Chr4 1516777 1517492 +
Gso Gso4g0171 Chr4 1516777 1517492 +
Lal Lal21g0089 Chr21 610716 615610 +
Lapu Lapu9g02340 Chr9 37960248 37964652 -
Lasa Lasa5g04590 Chr5 676909661 676913530 -
Lja Lja1g3454 Chr1 43047521 43050963 +
Mal Mal2g0415 Chr2 4625376 4631240 +
Mepo Mepo3g07801 Chr3 91136914 91137399 +
Mtr Mtr3g4327 Chr3 57196759 57204517 -
Phco Phco7g00234 Chr7 1580180 1584414 +
Pvu Pvu9g0220 Chr9 4196873 4201562 -
Rops Rops10g02520 Chr10 44006795 44010894 -
Seca Seca4g00341 Chr4 5515137 5519289 +
Sto Sto5g0063 Chr5 409099 410750 +
Tpr Tpr7g0180 Chr7 1484226 1487680 +
Tsu Tsu07g00207 Chr07 1545039 1548896 +
Vian Vian4g02441 Chr4 41047215 41052010 -
Vifa Vifa2g04561 Chr2 1341365348 1341370317 -
Vimu Vimu10g03540 Chr10 44979369 44979764 -
Viun Viun9g03731 Chr9 42397798 42402909 -
Vivi Vivi3g00696 Chr3 11577106 11581337 -
Vra Vra5g1700 Chr5 23291337 23295651 -
Vvi Vvi18g0141 Chr18 1281583 1291698 -
Vvi Vvi18g0142 Chr18 1297763 1298570 +
Apr Apr9g0687 Chr9 11354176 11356200 -
Bva Bva06g01856 Chr06 12732216 12732674 +
Bva Bva10g00983 Chr10 7263823 7264938 -
Cca Cca05g00425 Chr05 9310562 9311261 -
Lja Lja1g2327 Chr1 26936915 26938340 +
Lja Lja5g3359 Chr5 65691874 65693175 -
Ssu Ssu5g0019 Chr5 245217 246107 +
Sto Sto5g0066 Chr5 414857 417545 +
Vvi Vvi18g0143 Chr18 1303910 1307352 +
Bva Bva10g00982 Chr10 7258960 7262158 -
Sto Sto9g3735 Chr9 35554506 35557411 +
Vvi Vvi18g0144 Chr18 1307547 1310984 -
Gma Gma04g02086 Chr04 51341751 51346360 -
Gso Gso4g1818 Chr4 48418146 48422697 -
Vvi Vvi18g0145 Chr18 1319712 1322860 -
Bva Bva06g01857 Chr06 12733693 12736208 -
Acco Acco05g3022 Chr05 44696438 44698975 -
Accr Accr3g00037 Chr3 504415 506956 +
Alju Alju07g2979 Chr07 54839981 54842518 -
Bisa Bisa05g0537 Chr05 8781072 8784371 +
Dere Dere05g2883 Chr05 39375906 39378570 -
Enph Enph7g1522 Chr7 20330772 20358821 -
Glsi Glsi10g0065 Chr10 567270 570138 +
Mibi Mibi08g2650 Chr08 44308506 44311353 -
Prci Prci2g0044 Chr2 385686 388542 +