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
Vvi17g0253 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0254 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0255 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0256 . . . . . Adu03g04044 . . . . . . . . . . . . . Apr2g1470 . Arst5g01954 . Bach1g01467 . . Bva04g00858 Bva03g00720 . Car06g00181 . . . . . . . . . . . Gma08g00492 Gma05g02362 . . . . . Lal15g0925 . Lal23g0686 . . . . . . . . . . Lapu3g03929 . Lasa7g05254 . . . . . . . . . Lja4g0042 Mal5g0402 . . Mepo2g05072 . Mesa13g00059 . . Mtr8g3852 . . Phac2g04898 . Phco4g03700 . . . Psa7g0091 . . . . . . . . . Pvu2g3368 . . . . . Spst3g00690 . . . Sto8g2229 Tpr3g0254 . . . Tsu02g00055 . . . . . . Vimu11g04896 . . . Vivi5g06530 . .
Vvi17g0257 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0258 . . . . . Adu03g04043 . Aed5g2629 Aev05g3492 . Ahy15g2678 . Aip05g02990 . . . . . Apr6g1009 . . Arst3g05324 . Bach1g01469 . . Bva04g00857 Bva03g00719 Car08g01642 Car06g00182 . Cca09g02804 . . Dod02g3718 . . . . . . Gma08g00490 Gma05g02360 . . . . . Lal15g0927 Lal16g0958 Lal23g0685 . . . . . . . . . . Lapu3g03927 . Lasa7g05252 . . . . . . . . . Lja4g0043 Mal5g0399 Mal6g3656 . Mepo2g05071 . . . . Mtr8g3851 Mtr6g2104 . Phac2g04896 . Phco4g03698 . . Psa1g0781 Psa7g0094 . . . . . . . Pumo6g00085 . Pvu2g3366 . Rops2g00084 . Seca12g06964 . Spst3g00692 . Ssu5g3469 . Sto8g2226 Tpr3g0255 . . Trre7g05944 Tsu02g00056 . . Vian1g04190 . Vifa1g07231 . Vimu11g04894 . Viun3g00091 . . . .
Vvi17g0259 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g4566 . . . . . . . . . . . . . . . . . .
Vvi17g0260 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g0301 . . . . . . . Mtr8g3765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g4567 Tpr3g0344 . . . Tsu02g00149 . . . . . . . . . . . . .
Vvi17g0261 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0262 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g0280 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0253 Chr17 2565691 2575688 -
Vvi Vvi17g0254 Chr17 2582162 2585227 -
Vvi Vvi17g0255 Chr17 2591274 2593611 -
Vvi Vvi17g0256 Chr17 2596248 2605358 +
Adu Adu03g04044 Chr03 129525150 129530389 -
Apr Apr2g1470 Chr2 20730589 20736938 +
Arst Arst5g01954 Chr5 25989096 25991053 +
Bach Bach1g01467 Chr1 28176635 28178795 +
Bva Bva04g00858 Chr04 5638493 5642606 -
Bva Bva03g00720 Chr03 4312134 4316108 -
Car Car06g00181 Chr06 2030459 2034340 +
Gma Gma08g00492 Chr08 4084794 4087073 -
Gma Gma05g02362 Chr05 44495479 44498185 -
Lal Lal15g0925 Chr15 7084696 7088757 +
Lal Lal23g0686 Chr23 9556528 9566809 -
Lapu Lapu3g03929 Chr3 62774733 62778899 -
Lasa Lasa7g05254 Chr7 718160646 718164664 -
Lja Lja4g0042 Chr4 332832 335628 +
Mal Mal5g0402 Chr5 6074341 6075493 -
Mepo Mepo2g05072 Chr2 58643745 58648408 -
Mesa Mesa13g00059 Chr13 693119 696481 +
Mtr Mtr8g3852 Chr8 49192048 49199277 -
Phac Phac2g04898 Chr2 45317902 45321706 -
Phco Phco4g03700 Chr4 56605119 56608605 -
Psa Psa7g0091 Chr7 6643616 6644060 +
Pvu Pvu2g3368 Chr2 48542913 48545957 -
Spst Spst3g00690 Chr3 10349233 10352402 +
Sto Sto8g2229 Chr8 14754739 14758765 -
Tpr Tpr3g0254 Chr3 2983509 2985949 +
Tsu Tsu02g00055 Chr02 345244 348032 +
Vimu Vimu11g04896 Chr11 68627247 68630206 -
Vivi Vivi5g06530 Chr5 172132976 172136717 +
Vvi Vvi17g0257 Chr17 2609732 2620073 -
Vvi Vvi17g0258 Chr17 2655312 2673179 +
Adu Adu03g04043 Chr03 129488337 129497283 -
Aed Aed5g2629 Chr5 26945068 26951910 -
Aev Aev05g3492 Chr05 34178538 34184602 -
Ahy Ahy15g2678 Chr15 143096766 143104443 +
Aip Aip05g02990 Chr05 132180899 132188438 +
Apr Apr6g1009 Chr6 14798078 14809304 +
Arst Arst3g05324 Chr3 128252496 128261305 -
Bach Bach1g01469 Chr1 28195343 28204354 +
Bva Bva04g00857 Chr04 5624818 5634775 -
Bva Bva03g00719 Chr03 4287942 4302582 -
Car Car08g01642 Chr08 26232030 26242387 -
Car Car06g00182 Chr06 2038235 2047668 +
Cca Cca09g02804 Chr09 53633137 53641717 -
Dod Dod02g3718 Chr02 75909589 75919666 -
Gma Gma08g00490 Chr08 4062823 4074772 -
Gma Gma05g02360 Chr05 44474794 44483251 -
Lal Lal15g0927 Chr15 7108311 7116695 +
Lal Lal16g0958 Chr16 6360785 6369693 +
Lal Lal23g0685 Chr23 9534327 9544340 -
Lapu Lapu3g03927 Chr3 62755258 62765603 -
Lasa Lasa7g05252 Chr7 718004201 718013010 -
Lja Lja4g0043 Chr4 337790 346996 +
Mal Mal5g0399 Chr5 6037853 6047897 -
Mal Mal6g3656 Chr6 106881391 106893524 +
Mepo Mepo2g05071 Chr2 58611671 58621227 -
Mtr Mtr8g3851 Chr8 49170453 49182966 -
Mtr Mtr6g2104 Chr6 37663481 37676209 +
Phac Phac2g04896 Chr2 45296213 45306729 -
Phco Phco4g03698 Chr4 56589226 56597575 -
Psa Psa1g0781 Chr1 50122441 50134596 +
Psa Psa7g0094 Chr7 6671999 6679522 +
Pumo Pumo6g00085 Chr6 954008 962940 +
Pvu Pvu2g3366 Chr2 48523939 48533653 -
Rops Rops2g00084 Chr2 1385403 1401597 +
Seca Seca12g06964 Chr12 161612384 161621922 -
Spst Spst3g00692 Chr3 10362326 10373594 +
Ssu Ssu5g3469 Chr5 85479916 85488074 -
Sto Sto8g2226 Chr8 14726604 14734651 -
Tpr Tpr3g0255 Chr3 2991618 2999285 +
Trre Trre7g05944 Chr7 63854949 63863213 -
Tsu Tsu02g00056 Chr02 349874 360460 +
Vian Vian1g04190 Chr1 64892257 64910858 -
Vifa Vifa1g07231 Chr1 1116348242 1116364632 -
Vimu Vimu11g04894 Chr11 68611423 68617839 -
Viun Viun3g00091 Chr3 429743 440171 +
Vvi Vvi17g0259 Chr17 2677498 2679041 +
Sto Sto8g4566 Chr8 48222908 48227448 -
Vvi Vvi17g0260 Chr17 2681963 2684018 +
Mal Mal5g0301 Chr5 4935078 4951047 +
Mtr Mtr8g3765 Chr8 48160892 48164133 +
Sto Sto8g4567 Chr8 48231216 48235502 -
Tpr Tpr3g0344 Chr3 3726524 3728941 -
Tsu Tsu02g00149 Chr02 1117927 1120735 -
Vvi Vvi17g0261 Chr17 2685432 2685735 +
Vvi Vvi17g0262 Chr17 2692406 2698450 -
Psa Psa7g0280 Chr7 18603748 18610417 +