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
Vvi3g0983 Acco06g2353 . Accr5g00770 . Adu10g00466 . . . Aev04g0744 . Ahy20g0669 . Aip10g00674 . Alju03g1047 . Amo20g0456 . . . Arst10g00601 . Bach7g00816 . Bisa07g0690 . . . . . . . . . Dod03g0250 . Enph4g0574 . Glsi11g2569 . Gma15g00568 Gma13g02272 . . Gso15g0516 Gso15g0516 . . . . . Lal3g0045 . . . . . . . . Lapu6g01123 . Lasa1g00259 . Lele13g0615 Lele14g0516 Lele15g1869 Lele16g1894 . . . . . . . . Mepo6g00251 . Mesa5g04408 . Mibi06g0800 . . . Phac6g02875 . Phco11g00253 . Prci3g0780 . . . Pste2g01791 . . Pte2g00729 . . Pumo2g01002 . Pvu6g2071 . Rops11g00346 . Seca6g05064 . Spst6g00623 . . . . Sto13g2568 . . Trre3g00279 . . . Vian6g01915 . Vifa1g10684 . Vimu2g00490 . Viun6g02979 . Vivi1g08523 . . .
Vvi3g0984 . . . . Adu10g00465 . . . . . Ahy20g0668 . Aip10g00673 . . . Amo20g0455 . . . Arst10g00600 . Bach7g00815 . Bisa07g0692 . . . . Car01g00187 . . Dere02g2934 . Dod03g0251 . . . Glsi11g2567 . Gma15g00567 Gma13g02273 . . Gso15g0515 Gso15g0515 . . . . . . . . . . . . . . Lapu6g01124 . . . . . . . . . . . . . . . . . . . . . . . Phac6g02873 . Phco11g00254 . . . . . Pste2g01794 . . Pte2g00730 . . . . Pvu6g2070 . . . . . Spst6g00624 . . . . Sto13g2569 . . . . . . . . . . Vimu2g00492 . . . . . . .
Vvi3g0985 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0986 . . . . Adu10g00464 . . . Aev04g0743 . Ahy20g0667 . Aip10g00672 . . . Amo20g0454 . . . Arst10g00599 . Bach7g00814 . . . . Bva14g01127 . . . . . . Dod03g0252 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01125 . Lasa1g00261 . . . . . . . . . Lja6g3221 . . . Mepo6g00255 . Mesa5g04405 . . . . . Phac6g02872 . Phco11g00255 . . . . Psa1g4872 Pste2g01795 . . . . . Pumo2g01001 . Pvu6g2069 . Rops11g00348 . Seca6g05062 . Spst6g00625 . . . . . . . Trre3g00282 . . . Vian6g01913 . . . Vimu2g00493 . Viun6g02977 . Vivi1g08521 . . .
Vvi3g0987 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0988 . . . . Adu10g00463 . . . Aev04g0742 . Ahy20g0663 . Aip10g00671 . . . Amo20g0451 . . . Arst10g00598 . . . . . . . . . . . . . Dod03g0253 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01127 . . . . . . . . . . . . . . . . . . . . . . . Phac6g02869 . Phco11g00256 . . . . . . . Pte19g00841 . . . Pumo2g00999 . Pvu6g2067 . Rops11g00349 . Seca6g05061 . . . . . . Sto13g2570 . . . . . . Vian6g01912 . Vifa1g10681 . Vimu2g00494 . Viun6g02976 . Vivi1g08520 . . .
Vvi3g0989 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0990 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0991 Acco06g2351 . Accr5g00772 . Adu10g00457 . . . Aev04g0738 . Ahy20g0659 . Aip10g00665 . Alju03g1049 . Amo20g0447 . . Apr1g1283 Arst10g00589 . Bach7g00812 . Bisa07g0697 . . . . . . . . . Dod03g0255 . Enph4g0576 . Glsi11g2559 . . . . . . . . . . . . . . . . . . . . . Lapu6g01128 . Lasa1g00264 . . . . . . . . . . . . . Mepo6g00256 . Mesa5g04404 . Mibi06g0803 . . . Phac6g02866 . Phco11g00260 . Prci3g0782 . . . . . Pte19g00843 Pte2g00731 . . Pumo2g00996 . Pvu6g2064 . Rops11g00351 . Seca6g05058 . Spst6g00628 . . . Sto2g2817 Sto13g2571 . . Trre3g00284 . . . Vian6g01909 . Vifa1g10679 . Vimu2g00499 . Viun6g02974 . Vivi1g08518 . . .
Vvi3g0992 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0983 Chr3 10862124 10867874 +
Acco Acco06g2353 Chr06 19332976 19335419 -
Accr Accr5g00770 Chr5 32085555 32089073 +
Adu Adu10g00466 Chr10 5362697 5367233 -
Aev Aev04g0744 Chr04 4581222 4583786 -
Ahy Ahy20g0669 Chr20 7273355 7277953 -
Aip Aip10g00674 Chr10 7035354 7038872 -
Alju Alju03g1047 Chr03 38176340 38179500 +
Amo Amo20g0456 Chr20 5648541 5653366 -
Arst Arst10g00601 Chr10 5012325 5017044 -
Bach Bach7g00816 Chr7 19339443 19342047 -
Bisa Bisa07g0690 Chr07 18141479 18145746 +
Dod Dod03g0250 Chr03 2657113 2662609 +
Enph Enph4g0574 Chr4 19549897 19554607 +
Glsi Glsi11g2569 Chr11 18231855 18234606 -
Gma Gma15g00568 Chr15 4716661 4721725 -
Gma Gma13g02272 Chr13 37524670 37531019 +
Gso Gso15g0516 Chr15 4637318 4642470 -
Gso Gso15g0516 Chr15 4637318 4642470 -
Lal Lal3g0045 Chr3 278284 282092 +
Lapu Lapu6g01123 Chr6 11202941 11207872 +
Lasa Lasa1g00259 Chr1 16893353 16895830 +
Lele Lele13g0615 Chr13 18328888 18332429 +
Lele Lele14g0516 Chr14 16858118 16861121 +
Lele Lele15g1869 Chr15 11443759 11446463 -
Lele Lele16g1894 Chr16 11357171 11360448 -
Mepo Mepo6g00251 Chr6 2429927 2432928 -
Mesa Mesa5g04408 Chr5 73253079 73256441 +
Mibi Mibi06g0800 Chr06 26727996 26731036 +
Phac Phac6g02875 Chr6 25487288 25492877 -
Phco Phco11g00253 Chr11 1655955 1660235 +
Prci Prci3g0780 Chr3 9965267 9969766 +
Pste Pste2g01791 Chr2 18315745 18321329 +
Pte Pte2g00729 Chr2 5966068 5969040 +
Pumo Pumo2g01002 Chr2 15079274 15083939 +
Pvu Pvu6g2071 Chr6 30455925 30461331 -
Rops Rops11g00346 Chr11 4773775 4777180 +
Seca Seca6g05064 Chr6 117879392 117884279 -
Spst Spst6g00623 Chr6 5642303 5646084 +
Sto Sto13g2568 Chr13 31814105 31817369 +
Trre Trre3g00279 Chr3 1861980 1864982 +
Vian Vian6g01915 Chr6 36364143 36368275 -
Vifa Vifa1g10684 Chr1 1795876319 1795878814 -
Vimu Vimu2g00490 Chr2 2789563 2790450 +
Viun Viun6g02979 Chr6 32704631 32710146 -
Vivi Vivi1g08523 Chr1 243818069 243821247 -
Vvi Vvi3g0984 Chr3 10899900 10904577 +
Adu Adu10g00465 Chr10 5359083 5362454 -
Ahy Ahy20g0668 Chr20 7269504 7272727 -
Aip Aip10g00673 Chr10 7032049 7034370 -
Amo Amo20g0455 Chr20 5644979 5648398 -
Arst Arst10g00600 Chr10 5008807 5012072 -
Bach Bach7g00815 Chr7 19333894 19337333 -
Bisa Bisa07g0692 Chr07 18180104 18183504 +
Car Car01g00187 Chr01 1422830 1426702 +
Dere Dere02g2934 Chr02 33440419 33444263 +
Dod Dod03g0251 Chr03 2664409 2667891 +
Glsi Glsi11g2567 Chr11 18226011 18229152 -
Gma Gma15g00567 Chr15 4711858 4714908 -
Gma Gma13g02273 Chr13 37532844 37536316 +
Gso Gso15g0515 Chr15 4632426 4635967 -
Gso Gso15g0515 Chr15 4632426 4635967 -
Lapu Lapu6g01124 Chr6 11208466 11212249 +
Phac Phac6g02873 Chr6 25482441 25486419 -
Phco Phco11g00254 Chr11 1661496 1664767 +
Pste Pste2g01794 Chr2 18340271 18354222 +
Pte Pte2g00730 Chr2 5970074 5973825 +
Pvu Pvu6g2070 Chr6 30451542 30455196 -
Spst Spst6g00624 Chr6 5646300 5650571 +
Sto Sto13g2569 Chr13 31820241 31822580 +
Vimu Vimu2g00492 Chr2 2794883 2798143 +
Vvi Vvi3g0985 Chr3 10909100 10909219 -
Vvi Vvi3g0986 Chr3 10922238 10932668 +
Adu Adu10g00464 Chr10 5351850 5358097 -
Aev Aev04g0743 Chr04 4574246 4580014 -
Ahy Ahy20g0667 Chr20 7260856 7267117 -
Aip Aip10g00672 Chr10 7024811 7031047 -
Amo Amo20g0454 Chr20 5636397 5642675 -
Arst Arst10g00599 Chr10 5001507 5007763 -
Bach Bach7g00814 Chr7 19325602 19332279 -
Bva Bva14g01127 Chr14 5466040 5469805 +
Dod Dod03g0252 Chr03 2681838 2688580 +
Lapu Lapu6g01125 Chr6 11216463 11223988 +
Lasa Lasa1g00261 Chr1 16951471 16959068 +
Lja Lja6g3221 Chr6 60651519 60658856 -
Mepo Mepo6g00255 Chr6 2456976 2464950 +
Mesa Mesa5g04405 Chr5 73219360 73226470 -
Phac Phac6g02872 Chr6 25472426 25480417 -
Phco Phco11g00255 Chr11 1664930 1674160 +
Psa Psa1g4872 Chr1 362647632 362655912 -
Pste Pste2g01795 Chr2 18368605 18376448 +
Pumo Pumo2g01001 Chr2 15067218 15074245 -
Pvu Pvu6g2069 Chr6 30441579 30448913 -
Rops Rops11g00348 Chr11 4790580 4798109 +
Seca Seca6g05062 Chr6 117856746 117865221 -
Spst Spst6g00625 Chr6 5655384 5664012 +
Trre Trre3g00282 Chr3 1879111 1886305 +
Vian Vian6g01913 Chr6 36349943 36356696 -
Vimu Vimu2g00493 Chr2 2800401 2807338 +
Viun Viun6g02977 Chr6 32687984 32695558 -
Vivi Vivi1g08521 Chr1 243759285 243767153 -
Vvi Vvi3g0987 Chr3 10961081 10961374 -
Vvi Vvi3g0988 Chr3 10961496 10963430 -
Adu Adu10g00463 Chr10 5321332 5324186 +
Aev Aev04g0742 Chr04 4566872 4569481 -
Ahy Ahy20g0663 Chr20 7197771 7200674 +
Aip Aip10g00671 Chr10 6961192 6964043 +
Amo Amo20g0451 Chr20 5602187 5605129 +
Arst Arst10g00598 Chr10 4998722 5000357 +
Dod Dod03g0253 Chr03 2690060 2691845 -
Lapu Lapu6g01127 Chr6 11224690 11241778 -
Phac Phac6g02869 Chr6 25457343 25461385 +
Phco Phco11g00256 Chr11 1675450 1677255 -
Pte Pte19g00841 Chr19 6989850 6992530 -
Pumo Pumo2g00999 Chr2 15050767 15051590 +
Pvu Pvu6g2067 Chr6 30438951 30440756 +
Rops Rops11g00349 Chr11 4798591 4801084 -
Seca Seca6g05061 Chr6 117853457 117856378 +
Sto Sto13g2570 Chr13 31824570 31826326 -
Vian Vian6g01912 Chr6 36346998 36348787 +
Vifa Vifa1g10681 Chr1 1795105029 1795105880 +
Vimu Vimu2g00494 Chr2 2808465 2810183 -
Viun Viun6g02976 Chr6 32685131 32687615 +
Vivi Vivi1g08520 Chr1 243756794 243759164 +
Vvi Vvi3g0989 Chr3 10990126 10990576 -
Vvi Vvi3g0990 Chr3 10992978 11002120 -
Vvi Vvi3g0991 Chr3 11039329 11040732 -
Acco Acco06g2351 Chr06 19306112 19307545 +
Accr Accr5g00772 Chr5 32121648 32123078 -
Adu Adu10g00457 Chr10 5246017 5247792 +
Aev Aev04g0738 Chr04 4538462 4539940 +
Ahy Ahy20g0659 Chr20 7145465 7147253 +
Aip Aip10g00665 Chr10 6914930 6917433 +
Alju Alju03g1049 Chr03 38217130 38218560 -
Amo Amo20g0447 Chr20 5525318 5527215 +
Apr Apr1g1283 Chr1 21748364 21750175 -
Arst Arst10g00589 Chr10 4895663 4897451 +
Bach Bach7g00812 Chr7 19308927 19310360 +
Bisa Bisa07g0697 Chr07 18245145 18246584 -
Dod Dod03g0255 Chr03 2709775 2711957 -
Enph Enph4g0576 Chr4 19566014 19567444 -
Glsi Glsi11g2559 Chr11 18172239 18173663 +
Lapu Lapu6g01128 Chr6 11253805 11255573 -
Lasa Lasa1g00264 Chr1 17317544 17318911 -
Mepo Mepo6g00256 Chr6 2475607 2477526 -
Mesa Mesa5g04404 Chr5 73203718 73208584 +
Mibi Mibi06g0803 Chr06 26757115 26758566 -
Phac Phac6g02866 Chr6 25445565 25447359 +
Phco Phco11g00260 Chr11 1699889 1701241 -
Prci Prci3g0782 Chr3 9993854 9995562 -
Pte Pte19g00843 Chr19 7003454 7006234 -
Pte Pte2g00731 Chr2 5976324 5978164 -
Pumo Pumo2g00996 Chr2 15033899 15035627 +
Pvu Pvu6g2064 Chr6 30414649 30417455 +
Rops Rops11g00351 Chr11 4845402 4847050 -
Seca Seca6g05058 Chr6 117821929 117823323 +
Spst Spst6g00628 Chr6 5687611 5688987 -
Sto Sto2g2817 Chr2 41719352 41720839 -
Sto Sto13g2571 Chr13 31839663 31841105 -
Trre Trre3g00284 Chr3 1899519 1900886 -
Vian Vian6g01909 Chr6 36323624 36325006 +
Vifa Vifa1g10679 Chr1 1794482603 1794483910 +
Vimu Vimu2g00499 Chr2 2833693 2835075 -
Viun Viun6g02974 Chr6 32662652 32664380 +
Vivi Vivi1g08518 Chr1 243625949 243627716 +
Vvi Vvi3g0992 Chr3 11110921 11111247 -