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
Vvi3g0373 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0374 . . . . . . . Aed9g0001 . . . . . . . . . . . Apr5g1890 . . . . . . . Bva14g02432 . . . Cca07g00006 . . . . . . . . Gma04g00004 Gma06g00001 . . Gso4g0001 Gso4g0001 . . . . Lal9g0721 . . . . . . . . . . . Lasa5g04845 . . . . . . . . . . . . . Mepo3g08072 . Mesa9g05737 . . . . . . . Phco7g00012 . . . . . . . . . . . . . Pvu9g1184 . . . . . Spst9g00001 . . . . Sto10g0005 . . Trre5g06002 . . . . . . . Vimu10g03777 . . . Vivi3g01122 . . Vra5g1896
Vvi3g0375 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0376 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g02433 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0377 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0378 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g2935 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0379 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00324 . . . . . . . . . . . . . . . . . . . . . . . Lal9g0677 . . . . . . . . . . . . Lasa4g01134 . . . . . . . . . . . . . Mepo1g03521 . . . . . . . . . Phco9g02219 . . . . . Pste1g04304 . . . . . . . Pvu11g2191 . Rops3g02702 . . . Spst11g00187 . . Sto2g0766 . . . . Trre15g01419 . . . Vian5g00085 . . . Vimu5g00133 . Viun11g00101 . Vivi7g04727 . .
Vvi3g0380 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal9g0676 . . . . . . . . . . . . Lasa4g01137 . . . . . . . . . . . . . Mepo1g03517 . Mesa29g04032 . . . . . . . Phco9g02218 . . . . . Pste1g04305 . . . . . . . Pvu11g2190 . Rops3g02701 . Seca4g09881 . Spst11g00186 . . . Sto10g0304 . . . Trre15g01420 . . . Vian5g00087 . . . Vimu5g00136 . Viun11g00102 . Vivi7g04728 . .
Vvi3g0381 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0142 . . . . . . . . . . . . . . . . . .
Vvi3g0382 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g01762 . . . . . . . . . . . . . . . . . . . . . Lal9g0675 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0762 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Psa Psa7g2935 Chr7 209998743 210001925 -
Car Car06g01762 Chr06 17447753 17451760 +
Sto Sto2g0766 Chr2 6556691 6561801 +
Lasa Lasa5g04845 Chr5 700061888 700066619 -
Vvi Vvi3g0373 Chr3 3056289 3059258 -
Vvi Vvi3g0374 Chr3 3062190 3067402 +
Aed Aed9g0001 Chr9 524 10261 +
Apr Apr5g1890 Chr5 21928267 21937688 -
Bva Bva14g02432 Chr14 20766524 20782390 +
Cca Cca07g00006 Chr07 120771 139628 +
Gma Gma04g00004 Chr04 23525 31730 +
Gma Gma06g00001 Chr06 2257 14535 +
Gso Gso4g0001 Chr4 24018 33158 +
Gso Gso4g0001 Chr4 24018 33158 +
Lal Lal9g0721 Chr9 4982092 4993342 -
Lasa Lasa5g04845 Chr5 700061888 700066619 -
Mepo Mepo3g08072 Chr3 93452590 93461524 +
Mesa Mesa9g05737 Chr9 93067296 93076673 +
Phco Phco7g00012 Chr7 70210 81829 +
Pvu Pvu9g1184 Chr9 17283966 17295362 +
Spst Spst9g00001 Chr9 8327 30646 +
Sto Sto10g0005 Chr10 55242 55745 -
Trre Trre5g06002 Chr5 59251707 59261442 +
Vimu Vimu10g03777 Chr10 46464536 46467836 -
Vivi Vivi3g01122 Chr3 18727052 18735023 +
Vra Vra5g1896 Chr5 24720352 24734748 -
Vvi Vvi3g0375 Chr3 3070831 3078960 +
Vvi Vvi3g0376 Chr3 3080553 3095942 -
Bva Bva14g02433 Chr14 20782877 20790138 -
Vvi Vvi3g0377 Chr3 3097980 3102846 -
Vvi Vvi3g0378 Chr3 3107636 3112730 +
Psa Psa7g2935 Chr7 209998743 210001925 -
Vvi Vvi3g0379 Chr3 3117366 3121748 -
Bva Bva13g00324 Chr13 1518482 1520532 +
Lal Lal9g0677 Chr9 4662875 4669835 +
Lasa Lasa4g01134 Chr4 79954780 79960038 -
Mepo Mepo1g03521 Chr1 40816491 40820699 +
Phco Phco9g02219 Chr9 47553462 47561621 +
Pste Pste1g04304 Chr1 27943949 27952043 -
Pvu Pvu11g2191 Chr11 49354763 49361393 +
Rops Rops3g02702 Chr3 57302885 57310094 +
Spst Spst11g00187 Chr11 7237736 7245694 +
Sto Sto2g0766 Chr2 6556691 6561801 +
Trre Trre15g01419 Chr15 11070638 11077037 -
Vian Vian5g00085 Chr5 1508678 1515445 -
Vimu Vimu5g00133 Chr5 1062119 1068369 -
Viun Viun11g00101 Chr11 643410 651122 -
Vivi Vivi7g04727 Chr7 120668429 120674841 -
Vvi Vvi3g0380 Chr3 3142968 3150947 +
Lal Lal9g0676 Chr9 4651704 4658101 -
Lasa Lasa4g01137 Chr4 80327126 80333159 +
Mepo Mepo1g03517 Chr1 40782705 40789140 -
Mesa Mesa29g04032 Chr29 65925707 65931880 -
Phco Phco9g02218 Chr9 47543112 47549531 -
Pste Pste1g04305 Chr1 27967663 27974479 +
Pvu Pvu11g2190 Chr11 49343732 49350804 -
Rops Rops3g02701 Chr3 57282946 57289856 -
Seca Seca4g09881 Chr4 231479676 231486622 -
Spst Spst11g00186 Chr11 7223205 7228985 -
Sto Sto10g0304 Chr10 2406346 2410800 +
Trre Trre15g01420 Chr15 11082610 11088224 +
Vian Vian5g00087 Chr5 1541344 1548481 +
Vimu Vimu5g00136 Chr5 1102033 1109155 +
Viun Viun11g00102 Chr11 659549 667119 +
Vivi Vivi7g04728 Chr7 120838254 120845915 +
Vvi Vvi3g0381 Chr3 3151994 3152372 -
Sto Sto10g0142 Chr10 1130344 1130862 -
Vvi Vvi3g0382 Chr3 3154088 3156628 -
Car Car06g01762 Chr06 17447753 17451760 +
Lal Lal9g0675 Chr9 4647441 4649966 +
Sto Sto2g0762 Chr2 6526486 6539830 +
Bva Bva13g00324 Chr13 1518482 1520532 +
Sto Sto10g0304 Chr10 2406346 2410800 +