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
Vvi1g1611 Acco04g2317 . Accr8g00441 . Adu03g02948 . . . . . . . . . Alju06g2281 . . . . . Arst3g03886 . . . Bisa08g1674 . . Bva05g00114 . . . . Dere03g0504 . . . Enph6g0419 . Glsi02g0458 . . . . . . . . . . . . . . . . . . . . . Lapu3g03493 . Lasa7g04609 . Lele21g1612 Lele22g1595 Lele23g0398 Lele24g1559 . . . . . Lja4g0526 . . Mepo2g04508 . Mesa13g00616 . Mibi09g0484 . . . Phac2g04210 . Phco4g03180 . Prci4g2582 . . Psa7g0923 Pste3g01374 . . Pte3g00103 . . Pumo6g00595 . Pvu2g2875 . Rops2g00695 . Seca12g06365 . Spst3g01226 . . . . . . . Trre7g05293 . . . Vian1g03733 . Vifa2g03342 . Vimu11g04277 . Viun3g00734 . Vivi5g05701 . . .
Vvi1g1612 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g4824 . . . . . . . Mtr8g3360 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g0747 . . . Tsu02g00570 . . . . . . . . . . . .
Vvi1g1613 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3117 . . . . . . . Mtr7g2309 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr6g1098 . . . Tsu07g02933 . . . . . . . . . . . . .
Vvi1g1614 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1615 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1616 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3118 . . . . . . . Mtr7g2310 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr6g1099 . . . Tsu07g02936 . . . . . . . . . . . . .
Vvi1g1617 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1618 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1619 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1620 . . . . . . . . . . . . . . . . . . Apr4g2770 . . . . . . . . Bva05g00116 . . . . . . . . . . . . . . Gma08g03332 . . . . . . . Lal18g0652 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g1814 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1611 Chr1 22798871 22802956 -
Acco Acco04g2317 Chr04 39442378 39447091 +
Accr Accr8g00441 Chr8 6776473 6781137 -
Adu Adu03g02948 Chr03 111394849 111399782 -
Alju Alju06g2281 Chr06 49204247 49208999 +
Arst Arst3g03886 Chr3 110100404 110105199 -
Bisa Bisa08g1674 Chr08 39089638 39094231 -
Bva Bva05g00114 Chr05 570589 574706 -
Dere Dere03g0504 Chr03 8875289 8880046 +
Enph Enph6g0419 Chr6 7560020 7565568 +
Glsi Glsi02g0458 Chr02 2953256 2957721 +
Lapu Lapu3g03493 Chr3 58281324 58287636 +
Lasa Lasa7g04609 Chr7 672580143 672585232 +
Lele Lele21g1612 Chr21 24134544 24139099 +
Lele Lele22g1595 Chr22 21535369 21539929 +
Lele Lele23g0398 Chr23 2880518 2885087 -
Lele Lele24g1559 Chr24 21299560 21304049 +
Lja Lja4g0526 Chr4 4308283 4314245 -
Mepo Mepo2g04508 Chr2 53534696 53540924 +
Mesa Mesa13g00616 Chr13 7304327 7311140 -
Mibi Mibi09g0484 Chr09 6259070 6263728 -
Phac Phac2g04210 Chr2 40842121 40846025 +
Phco Phco4g03180 Chr4 52542472 52547559 +
Prci Prci4g2582 Chr4 38150539 38156071 -
Psa Psa7g0923 Chr7 69319366 69325556 -
Pste Pste3g01374 Chr3 8519156 8524236 -
Pte Pte3g00103 Chr3 1010637 1015077 -
Pumo Pumo6g00595 Chr6 7512199 7518672 -
Pvu Pvu2g2875 Chr2 44369387 44374899 +
Rops Rops2g00695 Chr2 9815601 9821077 -
Seca Seca12g06365 Chr12 155650064 155656785 +
Spst Spst3g01226 Chr3 15758877 15764128 -
Trre Trre7g05293 Chr7 59229906 59236030 +
Vian Vian1g03733 Chr1 60225232 60230024 +
Vifa Vifa2g03342 Chr2 959725415 959730866 +
Vimu Vimu11g04277 Chr11 64175806 64181106 +
Viun Viun3g00734 Chr3 4474699 4479736 -
Vivi Vivi5g05701 Chr5 160532106 160537590 +
Vvi Vvi1g1612 Chr1 22816161 22819209 -
Mal Mal7g4824 Chr7 116720627 116726152 +
Mtr Mtr8g3360 Chr8 44111050 44116902 +
Tpr Tpr3g0747 Chr3 7137308 7144018 -
Tsu Tsu02g00570 Chr02 4811007 4817834 -
Vvi Vvi1g1613 Chr1 22826429 22828540 +
Mal Mal3g3117 Chr3 106352499 106359218 +
Mtr Mtr7g2309 Chr7 39480567 39482407 +
Tpr Tpr6g1098 Chr6 10499286 10501378 +
Tsu Tsu07g02933 Chr07 34742090 34744281 +
Vvi Vvi1g1614 Chr1 22842683 22843694 +
Vvi Vvi1g1615 Chr1 22844922 22845044 +
Vvi Vvi1g1616 Chr1 22845052 22845498 -
Mal Mal3g3118 Chr3 106386673 106389980 -
Mtr Mtr7g2310 Chr7 39492035 39495455 -
Tpr Tpr6g1099 Chr6 10524759 10528490 -
Tsu Tsu07g02936 Chr07 34769120 34772742 -
Vvi Vvi1g1617 Chr1 22854790 22856895 -
Vvi Vvi1g1618 Chr1 22861964 22863401 +
Vvi Vvi1g1619 Chr1 22865684 22867173 +
Vvi Vvi1g1620 Chr1 22868647 22871431 -
Apr Apr4g2770 Chr4 36198577 36205591 -
Bva Bva05g00116 Chr05 577363 583970 -
Gma Gma08g03332 Chr08 50131021 50136892 +
Lal Lal18g0652 Chr18 5611837 5618089 -
Sto Sto3g1814 Chr3 14357254 14361619 -