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
Vvi1g1101 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1102 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1103 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal18g0902 . . . . . . . . . . . . Lasa2g00080 . . . . . . . . . . . . . . . . . . . . . Phac8g00546 . Phco3g02847 . . Psa2g2852 . . Pste5g00771 . . . . . . . Pvu8g0398 . . . . . . . . . . . . . . . . . . . . . . . . . Vivi6g00307 . .
Vvi1g1104 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1105 . . . . . . . . . . Ahy15g1727 . Aip05g01854 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g2853 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1106 . . . . . . . . Aev05g1512 . . . Aip05g01847 . . . Amo15g0488 . . Apr3g1493 . . . . . . . . . . . . . . Dod02g1678 . . . . . . . . . . . . . . . . . Lal16g0822 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1107 . . . . . Adu04g02845 . . . . . . . . . . . . . Apr3g1492 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g00083 . . . . . . . . . . . . . Mepo3g00186 . . . . . . . Phac8g00539 . Phco3g02851 . . Psa2g2858 . . Pste5g00780 . . . . . . . Pvu8g0394 . . . . . . . . . . . . . Trre13g00218 . . . . . . . . . . . . . .
Vvi1g1108 . . . . . . . . . . Ahy15g1939 . Aip05g02143 . . . . . . Apr3g1491 . . . . . . Bva01g01872 Bva11g00882 . . Cca06g00503 . . . Dod02g1791 . . . . . Gma02g01120 . . . Gso2g1019 . . . Lal6g0759 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1425 . . Sto6g2901 . . . . . . . . . . . . . . . . . .
Vvi1g1109 . . . . . . . . . . . . . . . . . . . Apr3g1490 . . . . . . . . . . . . . . . . . . . . . Gma01g00547 . . . . . . . . . . . Lal15g0790 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1110 . . . . . . . . . . . . . . . . . . . Apr3g1489 . . . . . . Bva08g01529 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g00097 . . . . . . . . . . . . . . . . . . . . . . Phco4g01963 Phco3g02855 . . Psa2g2638 . Pste3g00356 Pste5g00795 . . . . . . Pvu2g1746 Pvu8g0390 . Rops8g00646 . Seca10g02654 Spst3g02377 Spst1g01360 . . Sto11g0919 . . . . . . . . . . Vifa1g00228 . Vimu6g00919 . Viun5g00552 . Vivi6g00323 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1101 Chr1 13836989 13837108 +
Vvi Vvi1g1102 Chr1 13887233 13887515 +
Vvi Vvi1g1103 Chr1 13887532 13910385 +
Lal Lal18g0902 Chr18 11700843 11706659 -
Lasa Lasa2g00080 Chr2 6176807 6181383 +
Phac Phac8g00546 Chr8 3447926 3451099 -
Phco Phco3g02847 Chr3 54872653 54875898 +
Psa Psa2g2852 Chr2 330368480 330373231 +
Pste Pste5g00771 Chr5 4951317 4959896 +
Pvu Pvu8g0398 Chr8 3297108 3300514 -
Vivi Vivi6g00307 Chr6 7853121 7856924 +
Vvi Vvi1g1104 Chr1 13917484 13917951 +
Vvi Vvi1g1105 Chr1 13920404 13926334 +
Ahy Ahy15g1727 Chr15 48937212 48940234 +
Aip Aip05g01854 Chr05 46167198 46169810 +
Psa Psa2g2853 Chr2 330419844 330422576 +
Vvi Vvi1g1106 Chr1 13949652 13973404 +
Aev Aev05g1512 Chr05 11408852 11414773 -
Aip Aip05g01847 Chr05 45041526 45052145 -
Amo Amo15g0488 Chr15 25045663 25051551 -
Apr Apr3g1493 Chr3 29607648 29613046 -
Dod Dod02g1678 Chr02 21018205 21025376 -
Lal Lal16g0822 Chr16 5308678 5313456 +
Vvi Vvi1g1107 Chr1 13977001 13980317 -
Adu Adu04g02845 Chr04 116486498 116488592 +
Apr Apr3g1492 Chr3 29603415 29606308 +
Lasa Lasa2g00083 Chr2 6278580 6279503 +
Mepo Mepo3g00186 Chr3 2724594 2727103 +
Phac Phac8g00539 Chr8 3427244 3430617 +
Phco Phco3g02851 Chr3 54893167 54897012 -
Psa Psa2g2858 Chr2 330987953 330989466 -
Pste Pste5g00780 Chr5 4975089 4983512 -
Pvu Pvu8g0394 Chr8 3277947 3281394 +
Trre Trre13g00218 Chr13 1772642 1774470 +
Vvi Vvi1g1108 Chr1 13989100 14006118 +
Ahy Ahy15g1939 Chr15 99200919 99209524 +
Aip Aip05g02143 Chr05 91398955 91406488 +
Apr Apr3g1491 Chr3 29579041 29586089 -
Bva Bva01g01872 Chr01 19182055 19185465 -
Bva Bva11g00882 Chr11 11138788 11141333 -
Cca Cca06g00503 Chr06 15315819 15321718 -
Dod Dod02g1791 Chr02 23353105 23359318 +
Gma Gma02g01120 Chr02 12285490 12290294 +
Gso Gso2g1019 Chr2 12081538 12090159 +
Lal Lal6g0759 Chr6 5070302 5073813 -
Ssu Ssu2g1425 Chr2 58973242 58977614 -
Sto Sto6g2901 Chr6 36206853 36216801 -
Vvi Vvi1g1109 Chr1 14007824 14010547 -
Apr Apr3g1490 Chr3 29575749 29578988 +
Gma Gma01g00547 Chr01 7967501 7968001 -
Lal Lal15g0790 Chr15 5696247 5700844 -
Vvi Vvi1g1110 Chr1 14039774 14044487 +
Apr Apr3g1489 Chr3 29566872 29571424 -
Bva Bva08g01529 Chr08 8048459 8052628 +
Lasa Lasa2g00097 Chr2 6909566 6913012 -
Phco Phco4g01963 Chr4 38806222 38811211 +
Phco Phco3g02855 Chr3 54938628 54944103 +
Psa Psa2g2638 Chr2 302666803 302670747 -
Pste Pste3g00356 Chr3 1843473 1868621 -
Pste Pste5g00795 Chr5 5088379 5094803 +
Pvu Pvu2g1746 Chr2 31290312 31295950 +
Pvu Pvu8g0390 Chr8 3234893 3240176 -
Rops Rops8g00646 Chr8 12770198 12775808 +
Seca Seca10g02654 Chr10 33445047 33450552 +
Spst Spst3g02377 Chr3 67497247 67503179 +
Spst Spst1g01360 Chr1 17067529 17072392 -
Sto Sto11g0919 Chr11 9693729 9697555 -
Vifa Vifa1g00228 Chr1 37158599 37162493 -
Vimu Vimu6g00919 Chr6 10169819 10174329 -
Viun Viun5g00552 Chr5 3164767 3169501 +
Vivi Vivi6g00323 Chr6 8109763 8117273 -
Lasa Lasa2g00097 Chr2 6909566 6913012 -
Phco Phco3g02855 Chr3 54938628 54944103 +
Pste Pste5g00795 Chr5 5088379 5094803 +
Pvu Pvu8g0390 Chr8 3234893 3240176 -
Rops Rops8g00646 Chr8 12770198 12775808 +
Seca Seca10g02654 Chr10 33445047 33450552 +
Spst Spst1g01360 Chr1 17067529 17072392 -
Vifa Vifa1g00228 Chr1 37158599 37162493 -
Vimu Vimu6g00919 Chr6 10169819 10174329 -
Viun Viun5g00552 Chr5 3164767 3169501 +
Vivi Vivi6g00323 Chr6 8109763 8117273 -