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
Vvi18g0466 . . . . Adu08g00717 . . . . . Ahy17g2969 . Aip07g03231 . . . Amo17g3133 . . . Arst8g00951 . Bach12g00745 . Bisa09g1537 . . Bva12g02225 Car05g01624 . . . Dere04g0887 . Dod08g1251 . . . Glsi08g1270 . . . . . . . . . . . . . Lal18g1157 . . . . . . . Lapu9g01598 . Lasa5g01792 . . . . . . . . . Lja1g5223 Lja1g5978 . Mal2g2510 Mepo3g05735 . Mesa9g03112 . . . . Mtr3g2347 Phac9g00691 . Phco7g01107 . . . . Psa5g3232 Pste2g02701 . Pte3g01704 . . . Pumo10g01128 . Pvu9g0333 . Rops10g01775 . Seca4g02829 . Spst9g01155 . . . Sto5g0516 Sto9g3035 . . Trre5g02354 . . Tsu03g02140 . . Vifa2g01891 . Vimu10g02503 . . . Vivi3g04539 . . .
Vvi18g0467 . . . . . Adu07g01899 Aed3g1676 . . . Ahy17g2971 . Aip07g03232 . . . Amo17g3132 . Apr9g0943 Apr1g0084 . Arst8g00950 . . . . . Bva12g02226 . Car02g01141 Cca05g01069 . . . Dod08g1250 . . . . . Gma04g00923 . . . Gso4g0862 . . . . . . . Lal18g1158 . . . . . . . . . . . . . . . . . . . . . Mal8g2419 Mal2g2509 . Mepo7g01550 . Mesa17g02781 . . Mtr5g2175 Mtr3g2348 . . . Phco3g01278 . . . . . . . . . Pte8g01217 . Pumo9g01372 . Pvu8g1822 . Rops9g01480 . Seca8g01962 . Spst8g01213 Ssu6g2442 . . . . Tpr7g1174 . Trre9g03015 . Tsu03g02143 . Vian7g00024 . Vifa1g00547 . Vimu1g01896 . Viun8g01530 . . . .
Vvi18g0468 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0469 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3037 . . . . . . . . . . . . . . . . . .
Vvi18g0470 . . . . . . . . . . . Ahy16g3222 . Aip06g03466 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma14g01748 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0471 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0472 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g02710 . . . . . . . . . . . . . . Gma06g00909 Gma14g01753 . . . . . . . . . . Lal22g0439 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0473 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0474 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0475 . . . . . . Aed3g1677 . Aev08g1052 . Ahy17g2972 . Aip07g03233 . . . . . Apr9g0944 Apr1g0083 . . . . . . Bva06g02709 . Car05g01625 Car02g01142 Cca05g01070 . . . . . . . . . . Gma06g00908 Gma14g01757 . . . . . . . . Lal6g0468 . . . . . . . . . . . . . . . . . . . . Lja1g5224 Lja1g5979 Mal8g2418 Mal2g2506 . . . . . . Mtr5g2176 Mtr3g2349 . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g2443 . . . . Tpr7g1175 . . . Tsu03g02152 . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Car Car02g01142 Chr02 33298019 33299556 +
Car Car02g01141 Chr02 33287495 33288966 -
Vvi Vvi18g0466 Chr18 4594176 4595132 +
Adu Adu08g00717 Chr08 13040380 13041529 +
Ahy Ahy17g2969 Chr17 129944611 129945861 +
Aip Aip07g03231 Chr07 120814146 120815581 +
Amo Amo17g3133 Chr17 135573844 135577216 -
Arst Arst8g00951 Chr8 13010136 13011318 +
Bach Bach12g00745 Chr12 5200989 5201939 -
Bisa Bisa09g1537 Chr09 22762463 22763837 -
Bva Bva12g02225 Chr12 17089858 17090993 +
Car Car05g01624 Chr05 60987063 60987977 +
Dere Dere04g0887 Chr04 9363116 9364072 -
Dod Dod08g1251 Chr08 17331051 17332441 -
Glsi Glsi08g1270 Chr08 9244119 9247898 +
Lal Lal18g1157 Chr18 14452852 14453808 -
Lapu Lapu9g01598 Chr9 30620650 30621905 +
Lasa Lasa5g01792 Chr5 413095069 413095974 +
Lja Lja1g5223 Chr1 77930709 77932089 +
Lja Lja1g5978 Chr1 109898303 109899528 -
Mal Mal2g2510 Chr2 31802232 31803188 -
Mepo Mepo3g05735 Chr3 71477519 71478868 +
Mesa Mesa9g03112 Chr9 61210450 61211007 +
Mtr Mtr3g2347 Chr3 37289459 37290686 +
Phac Phac9g00691 Chr9 4694742 4696440 -
Phco Phco7g01107 Chr7 9378100 9379056 -
Psa Psa5g3232 Chr5 253285384 253287099 +
Pste Pste2g02701 Chr2 27208329 27209285 -
Pte Pte3g01704 Chr3 16569436 16570991 -
Pumo Pumo10g01128 Chr10 14495576 14496931 -
Pvu Pvu9g0333 Chr9 7077962 7079715 +
Rops Rops10g01775 Chr10 33036995 33038143 -
Seca Seca4g02829 Chr4 48947125 48948042 +
Spst Spst9g01155 Chr9 10622612 10623568 -
Sto Sto5g0516 Chr5 3281693 3290180 +
Sto Sto9g3035 Chr9 31278386 31279348 +
Trre Trre5g02354 Chr5 18026124 18030369 +
Tsu Tsu03g02140 Chr03 22815268 22816424 +
Vifa Vifa2g01891 Chr2 492745228 492746136 +
Vimu Vimu10g02503 Chr10 36226637 36227572 -
Vivi Vivi3g04539 Chr3 82380332 82381508 +
Vvi Vvi18g0467 Chr18 4597996 4598901 +
Adu Adu07g01899 Chr07 59128985 59132876 -
Aed Aed3g1676 Chr3 21491842 21492783 +
Ahy Ahy17g2971 Chr17 129951559 129952762 +
Aip Aip07g03232 Chr07 120820888 120822100 +
Amo Amo17g3132 Chr17 135474046 135481865 -
Apr Apr9g0943 Chr9 18137493 18138681 +
Apr Apr1g0084 Chr1 937727 938955 -
Arst Arst8g00950 Chr8 13002321 13003505 +
Bva Bva12g02226 Chr12 17093162 17094260 +
Car Car02g01141 Chr02 33287495 33288966 -
Cca Cca05g01069 Chr05 27539853 27541624 +
Dod Dod08g1250 Chr08 17305888 17307114 -
Gma Gma04g00923 Chr04 9367233 9368243 -
Gso Gso4g0862 Chr4 9213851 9215134 -
Lal Lal18g1158 Chr18 14471417 14473104 +
Mal Mal8g2419 Chr8 53286662 53287609 +
Mal Mal2g2509 Chr2 31798501 31799415 -
Mepo Mepo7g01550 Chr7 24569336 24570483 +
Mesa Mesa17g02781 Chr17 49287467 49288414 +
Mtr Mtr5g2175 Chr5 28329036 28330241 +
Mtr Mtr3g2348 Chr3 37308538 37317013 +
Phco Phco3g01278 Chr3 11863747 11864995 -
Pte Pte8g01217 Chr8 36146566 36148426 -
Pumo Pumo9g01372 Chr9 40657495 40658711 +
Pvu Pvu8g1822 Chr8 46301193 46302398 +
Rops Rops9g01480 Chr9 24682014 24683115 -
Seca Seca8g01962 Chr8 41202989 41203924 +
Spst Spst8g01213 Chr8 11175739 11176683 -
Ssu Ssu6g2442 Chr6 57477153 57478097 +
Tpr Tpr7g1174 Chr7 11742592 11743914 +
Trre Trre9g03015 Chr9 38427825 38428766 -
Tsu Tsu03g02143 Chr03 22822249 22823833 +
Vian Vian7g00024 Chr7 1263597 1264550 +
Vifa Vifa1g00547 Chr1 93135839 93136783 -
Vimu Vimu1g01896 Chr1 23882012 23882965 +
Viun Viun8g01530 Chr8 25438954 25440146 +
Vvi Vvi18g0468 Chr18 4600191 4600511 +
Vvi Vvi18g0469 Chr18 4600747 4602556 +
Sto Sto9g3037 Chr9 31291755 31294663 +
Vvi Vvi18g0470 Chr18 4605469 4606985 -
Ahy Ahy16g3222 Chr16 148806585 148810393 +
Aip Aip06g03466 Chr06 131821193 131825045 +
Gma Gma14g01748 Chr14 47407574 47409971 -
Vvi Vvi18g0471 Chr18 4610506 4612054 -
Vvi Vvi18g0472 Chr18 4613744 4615282 -
Bva Bva06g02710 Chr06 17063994 17065653 +
Gma Gma06g00909 Chr06 8382736 8384854 +
Gma Gma14g01753 Chr14 47514917 47517632 -
Lal Lal22g0439 Chr22 2861016 2863084 +
Vvi Vvi18g0473 Chr18 4629602 4631139 -
Vvi Vvi18g0474 Chr18 4631192 4631628 +
Vvi Vvi18g0475 Chr18 4643436 4644386 -
Aed Aed3g1677 Chr3 21495779 21496705 +
Aev Aev08g1052 Chr08 6377328 6378305 +
Ahy Ahy17g2972 Chr17 129964086 129965503 +
Aip Aip07g03233 Chr07 120832217 120833370 +
Apr Apr9g0944 Chr9 18146134 18147414 +
Apr Apr1g0083 Chr1 931853 933282 -
Bva Bva06g02709 Chr06 17055526 17056707 -
Car Car05g01625 Chr05 61010526 61011609 +
Car Car02g01142 Chr02 33298019 33299556 +
Cca Cca05g01070 Chr05 27544701 27546646 +
Gma Gma06g00908 Chr06 8376449 8377750 -
Gma Gma14g01757 Chr14 47576189 47577520 +
Lal Lal6g0468 Chr6 2976249 2977208 +
Lja Lja1g5224 Chr1 77954183 77955512 +
Lja Lja1g5979 Chr1 109915112 109919329 +
Mal Mal8g2418 Chr8 53271976 53272923 -
Mal Mal2g2506 Chr2 31738164 31739078 -
Mtr Mtr5g2176 Chr5 28333746 28334857 +
Mtr Mtr3g2349 Chr3 37315774 37317013 +
Ssu Ssu6g2443 Chr6 57483046 57483978 +
Tpr Tpr7g1175 Chr7 11753072 11754353 +
Tsu Tsu03g02152 Chr03 22953160 22954133 +
Dod Dod08g1250 Chr08 17305888 17307114 -