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
Vvi1g1251 . . . . . . . . . . . Ahy20g1046 . Aip10g01107 . . . Amo20g0968 . . . . . . . . Bva01g01053 . . . . . . . . Dod04g0551 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1315 . . . . . . . . . Mtr3g2849 . . . . . . . . Psa7g4013 . . . . . . . . . . . . . . . . . . . . . . . . Tsu07g02253 . . . . . . . . . . . . .
Vvi1g1252 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01785 . Car06g02185 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1201 . . . . . . . . . . . . . . . . . . .
Vvi1g1253 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1254 . . . . . Adu10g02970 Aed11g1010 . . . . . . . . . . . . . . . . . . . Bva01g01067 . . . Cca06g00078 . . . . . . . . . . . . . . . . . Lal6g1140 . . . . . Lan11g1140 . . . . . . Lapu2g01796 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g03777 . . . . . Pumo8g00111 . Pvu3g0075 . Rops1g00335 . Seca10g05254 . Spst2g02195 Ssu2g1035 . . . . . . . . . . Vian10g01853 . Vifa3g03798 . Vimu7g00432 . Viun2g00069 . . . .
Vvi1g1255 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1256 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01155 . . . . . . . . . . . . . . . Gma08g00864 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1257 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1258 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01132 . . . . . . . . . . . . . . . . Gma18g00105 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1259 . . . . Adu03g04404 . . . . Aev03g2371 . Ahy13g4347 . Aip03g04824 . . . Amo13g5402 . . Arst3g05821 . . . . . Bva01g01104 Bva11g00207 . . . . . . . Dod04g1897 . . . . . . Gma08g00854 . . . . . . . . . . . . . . . . . Lapu3g02682 . Lasa7g03796 . . . . . . . . . . . . . Mepo2g03713 . Mesa13g01459 . . . . . . . Phco4g02157 . . . . Psa7g1995 Pste3g02444 . . . . . . . Pvu2g1915 . Rops2g01510 . Seca12g05495 . Spst3g01943 . . . . . . . Trre7g04334 . . . Vian1g02805 . Vifa6g01925 . Vimu11g01641 . Viun3g02062 . Vivi5g04692 . . .
Vvi1g1260 . . . . Adu03g04400 . . . . Aev03g2454 . Ahy13g4428 . Aip03g04913 . . . Amo13g5542 . . Arst3g05819 . . . . . Bva01g01099 Bva11g00215 . . . . . . . Dod04g1982 . . . . . . Gma08g00927 . . . . . . . . . . . . . . . . . Lapu3g02593 . Lasa7g03793 . . . . . . . . . . . . Mal7g4016 Mepo2g03711 . Mesa13g01461 . . . . Mtr8g2647 . . Phco4g02159 . . . . . Pste3g02441 . . . . . . . Pvu2g1917 . Rops2g01512 . Seca12g05492 . Spst3g01946 . . . . . . Tpr3g1443 Trre7g04332 . . Tsu02g01379 Vian1g02807 . Vifa6g01928 . Vimu11g01638 . Viun3g02050 . Vivi5g04695 . . .
   
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Select Species Gene Chromosome Start End Strand
Gma Gma08g00864 Chr08 7115355 7118899 +
Gma Gma18g00105 Chr18 838777 841920 +
Vvi Vvi1g1251 Chr1 17965019 17966459 -
Ahy Ahy20g1046 Chr20 15980230 15983451 +
Aip Aip10g01107 Chr10 15225015 15227757 +
Amo Amo20g0968 Chr20 16490448 16493625 -
Bva Bva01g01053 Chr01 8290332 8292164 -
Dod Dod04g0551 Chr04 7898314 7901022 -
Lja Lja2g1315 Chr2 12577469 12580052 +
Mtr Mtr3g2849 Chr3 42442671 42445552 +
Psa Psa7g4013 Chr7 331053471 331056720 +
Tsu Tsu07g02253 Chr07 25419372 25421672 -
Vvi Vvi1g1252 Chr1 17985735 17994297 -
Bva Bva06g01785 Chr06 12321341 12323423 +
Car Car06g02185 Chr06 22317619 22324150 -
Sto Sto11g1201 Chr11 11939855 11943069 -
Vvi Vvi1g1253 Chr1 18001134 18011051 -
Vvi Vvi1g1254 Chr1 18012480 18021409 -
Adu Adu10g02970 Chr10 105798581 105806542 +
Aed Aed11g1010 Chr11 15941831 15945932 -
Bva Bva01g01067 Chr01 8512724 8518574 +
Cca Cca06g00078 Chr06 1941365 1947750 +
Lal Lal6g1140 Chr6 8658462 8666224 -
Lan Lan11g1140 Chr11 15706161 15711888 +
Lapu Lapu2g01796 Chr2 31658261 31663642 +
Pste Pste1g03777 Chr1 18602309 18609557 -
Pumo Pumo8g00111 Chr8 2546438 2553004 +
Pvu Pvu3g0075 Chr3 673806 678887 -
Rops Rops1g00335 Chr1 9149120 9154469 -
Seca Seca10g05254 Chr10 120033430 120040358 +
Spst Spst2g02195 Chr2 21054268 21061798 +
Ssu Ssu2g1035 Chr2 48589830 48599054 +
Vian Vian10g01853 Chr10 30431441 30439067 +
Vifa Vifa3g03798 Chr3 1113690119 1113694163 +
Vimu Vimu7g00432 Chr7 4675011 4682055 +
Viun Viun2g00069 Chr2 1498226 1502901 +
Vvi Vvi1g1255 Chr1 18036850 18052803 +
Vvi Vvi1g1256 Chr1 18076720 18078285 +
Bva Bva01g01155 Chr01 10093516 10096795 -
Gma Gma08g00864 Chr08 7115355 7118899 +
Vvi Vvi1g1257 Chr1 18083040 18091723 -
Vvi Vvi1g1258 Chr1 18103757 18106134 -
Bva Bva01g01132 Chr01 9722520 9727775 +
Gma Gma18g00105 Chr18 838777 841920 +
Vvi Vvi1g1259 Chr1 18126343 18139965 -
Adu Adu03g04404 Chr03 133019079 133023066 -
Aev Aev03g2371 Chr03 25128941 25132431 -
Ahy Ahy13g4347 Chr13 143141514 143145799 -
Aip Aip03g04824 Chr03 132496362 132501332 -
Amo Amo13g5402 Chr13 154688155 154692876 -
Arst Arst3g05821 Chr3 131783052 131786911 -
Bva Bva01g01104 Chr01 9183623 9189567 -
Bva Bva11g00207 Chr11 4957788 4965608 +
Dod Dod04g1897 Chr04 42016590 42021499 -
Gma Gma08g00854 Chr08 6993331 6998427 -
Lapu Lapu3g02682 Chr3 49458729 49466129 +
Lasa Lasa7g03796 Chr7 615563113 615568306 +
Mepo Mepo2g03713 Chr2 46440770 46446054 -
Mesa Mesa13g01459 Chr13 17432763 17438149 +
Phco Phco4g02157 Chr4 42253802 42259362 +
Psa Psa7g1995 Chr7 145450439 145456542 +
Pste Pste3g02444 Chr3 17283244 17284814 -
Pvu Pvu2g1915 Chr2 34131898 34136743 +
Rops Rops2g01510 Chr2 22308047 22314235 +
Seca Seca12g05495 Chr12 145839395 145849603 -
Spst Spst3g01943 Chr3 46190187 46195198 +
Trre Trre7g04334 Chr7 51277898 51282853 -
Vian Vian1g02805 Chr1 43837815 43842802 +
Vifa Vifa6g01925 Chr6 717088059 717092966 -
Vimu Vimu11g01641 Chr11 20435520 20441351 -
Viun Viun3g02062 Chr3 16628420 16633807 -
Vivi Vivi5g04692 Chr5 145657026 145662567 -
Vvi Vvi1g1260 Chr1 18163565 18172700 +
Adu Adu03g04400 Chr03 132997270 133000296 +
Aev Aev03g2454 Chr03 25681210 25683900 +
Ahy Ahy13g4428 Chr13 144303313 144305902 +
Aip Aip03g04913 Chr03 133655635 133658374 +
Amo Amo13g5542 Chr13 156927784 156930848 -
Arst Arst3g05819 Chr3 131761113 131764011 +
Bva Bva01g01099 Chr01 9096639 9103762 -
Bva Bva11g00215 Chr11 5123407 5125368 +
Dod Dod04g1982 Chr04 43247659 43251516 +
Gma Gma08g00927 Chr08 7812605 7816547 +
Lapu Lapu3g02593 Chr3 48280283 48283475 -
Lasa Lasa7g03793 Chr7 615325865 615328480 +
Mal Mal7g4016 Chr7 106519768 106524509 +
Mepo Mepo2g03711 Chr2 46425493 46431294 +
Mesa Mesa13g01461 Chr13 17458212 17462880 -
Mtr Mtr8g2647 Chr8 37129499 37134514 +
Phco Phco4g02159 Chr4 42280526 42289666 -
Pste Pste3g02441 Chr3 17232234 17239631 +
Pvu Pvu2g1917 Chr2 34160048 34170401 -
Rops Rops2g01512 Chr2 22341162 22349524 -
Seca Seca12g05492 Chr12 145815983 145822980 +
Spst Spst3g01946 Chr3 46275856 46283387 +
Tpr Tpr3g1443 Chr3 12816267 12820363 -
Trre Trre7g04332 Chr7 51264951 51269587 +
Tsu Tsu02g01379 Chr02 11956652 11961180 -
Vian Vian1g02807 Chr1 43874662 43881728 -
Vifa Vifa6g01928 Chr6 717257841 717260302 -
Vimu Vimu11g01638 Chr11 20386079 20386879 +
Viun Viun3g02050 Chr3 16529919 16538626 +
Vivi Vivi5g04695 Chr5 145724009 145727134 -
Lapu Lapu3g02593 Chr3 48280283 48283475 -
Aev Aev03g2454 Chr03 25681210 25683900 +
Ahy Ahy13g4428 Chr13 144303313 144305902 +
Aip Aip03g04913 Chr03 133655635 133658374 +
Amo Amo13g5542 Chr13 156927784 156930848 -
Dod Dod04g1982 Chr04 43247659 43251516 +
Gma Gma08g00927 Chr08 7812605 7816547 +