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
Vvi1g1621 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1622 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1623 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1624 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00117 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g1817 . . . . . . . . . . . . . . . . . . .
Vvi1g1625 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00118 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g1818 . . . . . . . . . . . . . . . . . . .
Vvi1g1626 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01627 Bva05g00119 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco6g03242 . . . . . Pste4g00007 . . . . . . . Pvu7g0002 . Rops6g03645 . Seca8g08269 . Spst10g01752 . . . Sto3g1822 . . . . . . . Vian3g00001 . . . . . Viun7g04243 . . . . .
Vvi1g1627 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00120 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1628 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa5g03449 . . . . . . . . . . Mal3g3184 . . Mepo3g06898 . . . . Mtr7g2358 . . Phac9g02632 . . . . . . . Pste2g00074 . . . . . Pumo10g01777 . Pvu9g1629 . Rops10g00918 . Seca4g01848 . Spst9g01831 . . . . Tpr6g1166 . . Trre5g04427 Tsu07g03010 . . . . Vifa2g03317 . . . Viun9g01660 . Vivi3g02333 . .
Vvi1g1629 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0001 . . . . . . . . . Aev03g3083 . Ahy13g2815 . Aip03g03170 . . . Amo13g3434 . . . . . . . . . . Car08g00262 Car07g01275 . . . . . Dod04g2751 . . . . . . . . . . . . . Lal16g0095 . . Lal16g1205 Lal23g1469 . . . . . . . . . . . . . . . . . . Lja4g0405 Lja4g0405 . . . . . . . . . . . . . . . . . Psa7g0723 . . . . . . . . . . . . . . . . . . . Sto11g2284 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1621 Chr1 22875942 22877159 -
Vvi Vvi1g1622 Chr1 22888769 22892674 -
Vvi Vvi1g1623 Chr1 22896899 22897573 +
Vvi Vvi1g1624 Chr1 22899502 22922342 -
Bva Bva05g00117 Chr05 587581 591615 -
Sto Sto3g1817 Chr3 14396344 14398651 -
Vvi Vvi1g1625 Chr1 22941255 22959823 +
Bva Bva05g00118 Chr05 592620 595825 +
Sto Sto3g1818 Chr3 14411976 14415138 +
Vvi Vvi1g1626 Chr1 22961365 22972638 +
Bva Bva06g01627 Chr06 11500005 11502460 +
Bva Bva05g00119 Chr05 596777 598751 +
Phco Phco6g03242 Chr6 52818673 52822594 +
Pste Pste4g00007 Chr4 43072 44020 +
Pvu Pvu7g0002 Chr7 15682 19896 -
Rops Rops6g03645 Chr6 61667468 61671311 -
Seca Seca8g08269 Chr8 180420718 180424373 -
Spst Spst10g01752 Chr10 17897688 17902686 +
Sto Sto3g1822 Chr3 14455291 14458321 +
Vian Vian3g00001 Chr3 2972 7118 -
Viun Viun7g04243 Chr7 40836334 40840241 +
Vvi Vvi1g1627 Chr1 22974221 22982502 -
Bva Bva05g00120 Chr05 599219 603273 -
Vvi Vvi1g1628 Chr1 22983271 23001188 +
Lasa Lasa5g03449 Chr5 563048027 563048557 +
Mal Mal3g3184 Chr3 107529821 107533306 +
Mepo Mepo3g06898 Chr3 82681320 82683449 +
Mtr Mtr7g2358 Chr7 40061976 40065445 +
Phac Phac9g02632 Chr9 24757761 24760232 +
Pste Pste2g00074 Chr2 259713 262789 +
Pumo Pumo10g01777 Chr10 23404715 23407146 +
Pvu Pvu9g1629 Chr9 22897312 22899716 +
Rops Rops10g00918 Chr10 20335527 20337999 -
Seca Seca4g01848 Chr4 30785171 30786433 -
Spst Spst9g01831 Chr9 22484975 22487243 -
Tpr Tpr6g1166 Chr6 11774389 11778353 +
Trre Trre5g04427 Chr5 46285014 46287568 +
Tsu Tsu07g03010 Chr07 35771923 35776306 +
Vifa Vifa2g03317 Chr2 950643115 950643780 +
Viun Viun9g01660 Chr9 25069481 25071636 -
Vivi Vivi3g02333 Chr3 39309827 39315141 -
Vvi Vvi1g1629 Chr1 23002714 23021215 -
Vvi Vvi2g0001 Chr2 12465 13764 -
Aev Aev03g3083 Chr03 29576961 29579352 -
Ahy Ahy13g2815 Chr13 111389651 111393905 +
Aip Aip03g03170 Chr03 102347604 102354138 +
Amo Amo13g3434 Chr13 115598276 115605269 +
Car Car08g00262 Chr08 2100624 2102996 -
Car Car07g01275 Chr07 11615031 11620167 +
Dod Dod04g2751 Chr04 51427103 51430141 -
Lal Lal16g0095 Chr16 553788 557475 +
Lal Lal16g1205 Chr16 8357651 8366276 +
Lal Lal23g1469 Chr23 15043640 15046668 +
Lja Lja4g0405 Chr4 3253512 3256491 +
Lja Lja4g0405 Chr4 3253512 3256491 +
Psa Psa7g0723 Chr7 52103087 52113146 +
Sto Sto11g2284 Chr11 21904219 21913432 -
Car Car07g01275 Chr07 11615031 11620167 +
Psa Psa7g0723 Chr7 52103087 52113146 +
Lal Lal16g1205 Chr16 8357651 8366276 +
Lal Lal16g0095 Chr16 553788 557475 +
Car Car08g00262 Chr08 2100624 2102996 -
Lal Lal23g1469 Chr23 15043640 15046668 +
Mal Mal3g3184 Chr3 107529821 107533306 +
Mtr Mtr7g2358 Chr7 40061976 40065445 +
Tpr Tpr6g1166 Chr6 11774389 11778353 +
Tsu Tsu07g03010 Chr07 35771923 35776306 +
Mal Mal3g3184 Chr3 107529821 107533306 +
Mtr Mtr7g2358 Chr7 40061976 40065445 +
Tpr Tpr6g1166 Chr6 11774389 11778353 +
Tsu Tsu07g03010 Chr07 35771923 35776306 +