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
Vvi4g0964 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0965 . . . . Adu04g02520 . . . . . . . . . . . . . . . Arst4g03349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01491 . Lasa3g02021 . . . . . . . . . Lja1g3040 . . . Mepo3g02228 . Mesa25g01994 . . . . . . . Phco3g02649 . . . . . Pste5g01250 . . . . . Pumo5g00186 . Pvu8g0575 . Rops8g01003 . Seca2g00904 . Spst1g01137 . . . . . . . Trre13g02420 . . . Vian2g00549 . Vifa5g01596 . Vimu6g00615 . Viun5g00795 . Vivi6g02919 . . .
Vvi4g0966 . . . . Adu04g02521 . . . . . . . . . . . . . . . Arst4g03351 . . . . . . Bva04g03448 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01490 . Lasa3g02026 . . . . . . . . . Lja1g3039 . . . Mepo3g02229 . Mesa25g01993 . . . . . . . Phco3g02650 . . . . . Pste5g01248 . . . . . Pumo5g00185 . Pvu8g0574 . Rops8g01001 . Seca2g00903 . Spst1g01138 . . . . . . . Trre13g02419 . . . Vian2g00548 . Vifa5g01599 . Vimu6g00617 . Viun5g00793 . Vivi6g02922 . . .
Vvi4g0967 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0968 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0969 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0970 . . . . Adu04g02522 . . . . . . . . . . . . . . . Arst4g03353 . . . . . Bva13g03527 Bva04g03449 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01489 . Lasa3g02027 . . . . . . . . . Lja1g3038 . . . . . . . . . . . . . Phco3g02651 . . . . . Pste5g01246 . . . . . Pumo5g00184 . Pvu8g0573 . Rops8g01000 . Seca2g00902 . Spst1g01139 . . . . . . . . . . . Vian2g00547 . Vifa5g01600 . . . Viun5g00792 . Vivi6g02925 . . .
Vvi4g0971 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0972 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0973 . . . . . . . . . . . . . . . . . . . . Arst4g03355 . . . . . Bva13g03530 Bva04g03451 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01487 . . . . . . . . . . . Lja1g3035 . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu8g0570 . . . . . . . . . . . . . . . . . . . . . Vimu6g00619 . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0964 Chr4 15766799 15766894 +
Vvi Vvi4g0965 Chr4 15777315 15779654 -
Adu Adu04g02520 Chr04 111444173 111449767 -
Arst Arst4g03349 Chr4 111423995 111429602 -
Lapu Lapu1g01491 Chr1 27704314 27712124 +
Lasa Lasa3g02021 Chr3 518814863 518815660 -
Lja Lja1g3040 Chr1 36784603 36791525 +
Mepo Mepo3g02228 Chr3 31990219 31995503 -
Mesa Mesa25g01994 Chr25 24575543 24580218 +
Phco Phco3g02649 Chr3 53083744 53090097 -
Pste Pste5g01250 Chr5 8077919 8084747 +
Pumo Pumo5g00186 Chr5 4817592 4820209 +
Pvu Pvu8g0575 Chr8 5050473 5058020 +
Rops Rops8g01003 Chr8 21239074 21252927 +
Seca Seca2g00904 Chr2 14020202 14028137 +
Spst Spst1g01137 Chr1 13746725 13754605 -
Trre Trre13g02420 Chr13 21724888 21729484 +
Vian Vian2g00549 Chr2 6655262 6665918 +
Vifa Vifa5g01596 Chr5 465359363 465363511 -
Vimu Vimu6g00615 Chr6 7319685 7326294 -
Viun Viun5g00795 Chr5 4989842 4997848 +
Vivi Vivi6g02919 Chr6 116275052 116280713 -
Vvi Vvi4g0966 Chr4 15831095 15861901 +
Adu Adu04g02521 Chr04 111455804 111462574 +
Arst Arst4g03351 Chr4 111435475 111442652 +
Bva Bva04g03448 Chr04 27383189 27390322 +
Lapu Lapu1g01490 Chr1 27695686 27702939 -
Lasa Lasa3g02026 Chr3 519274896 519282309 +
Lja Lja1g3039 Chr1 36775350 36782106 -
Mepo Mepo3g02229 Chr3 32002132 32011261 +
Mesa Mesa25g01993 Chr25 24563508 24570976 -
Phco Phco3g02650 Chr3 53093358 53100630 +
Pste Pste5g01248 Chr5 8063295 8071731 -
Pumo Pumo5g00185 Chr5 4791467 4799804 -
Pvu Pvu8g0574 Chr8 5041564 5049163 -
Rops Rops8g01001 Chr8 21224765 21239214 -
Seca Seca2g00903 Chr2 13980304 13991014 -
Spst Spst1g01138 Chr1 13754791 13761574 +
Trre Trre13g02419 Chr13 21703640 21711327 -
Vian Vian2g00548 Chr2 6645308 6652198 -
Vifa Vifa5g01599 Chr5 466150910 466158449 +
Vimu Vimu6g00617 Chr6 7329798 7336030 +
Viun Viun5g00793 Chr5 4976333 4985589 -
Vivi Vivi6g02922 Chr6 116301034 116309064 +
Vvi Vvi4g0967 Chr4 15896946 15897497 +
Vvi Vvi4g0968 Chr4 15920871 15926129 -
Vvi Vvi4g0969 Chr4 15930446 15930595 -
Vvi Vvi4g0970 Chr4 15933842 15957007 +
Adu Adu04g02522 Chr04 111463184 111467627 -
Arst Arst4g03353 Chr4 111442841 111447690 -
Bva Bva13g03527 Chr13 23907229 23911870 -
Bva Bva04g03449 Chr04 27392524 27393515 -
Lapu Lapu1g01489 Chr1 27689234 27695921 +
Lasa Lasa3g02027 Chr3 519622168 519626437 -
Lja Lja1g3038 Chr1 36768650 36775184 +
Phco Phco3g02651 Chr3 53101521 53107054 -
Pste Pste5g01246 Chr5 8056269 8062320 +
Pumo Pumo5g00184 Chr5 4784343 4790633 +
Pvu Pvu8g0573 Chr8 5035440 5041344 +
Rops Rops8g01000 Chr8 21218290 21224409 +
Seca Seca2g00902 Chr2 13972079 13973731 +
Spst Spst1g01139 Chr1 13762094 13767150 -
Vian Vian2g00547 Chr2 6639174 6644433 +
Vifa Vifa5g01600 Chr5 466159318 466163660 -
Viun Viun5g00792 Chr5 4970750 4976140 +
Vivi Vivi6g02925 Chr6 116309798 116314467 -
Vvi Vvi4g0971 Chr4 15962938 15963850 +
Vvi Vvi4g0972 Chr4 16021220 16021763 +
Vvi Vvi4g0973 Chr4 16084211 16085284 -
Arst Arst4g03355 Chr4 111491848 111493452 -
Bva Bva13g03530 Chr13 23918699 23922070 -
Bva Bva04g03451 Chr04 27397736 27401494 -
Lapu Lapu1g01487 Chr1 27675125 27678427 +
Lja Lja1g3035 Chr1 36723635 36724678 +
Pvu Pvu8g0570 Chr8 5023134 5025840 +
Vimu Vimu6g00619 Chr6 7358262 7360581 -
Bva Bva13g03530 Chr13 23918699 23922070 -
Bva Bva04g03451 Chr04 27397736 27401494 -