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
Vvi3g0903 . . . . Adu10g00429 . . . Aev04g0719 . Ahy20g0635 . Aip10g00641 . Alju03g1072 . Amo20g0721 . . . Arst10g00552 . Bach7g00784 . Bisa07g0724 . . . . . . . . . . . . . . . Gma15g00592 Gma13g02241 . . Gso15g0536 Gso15g0536 . . . . . . . . . . . . . . . . Lasa1g05172 . . . . . . . . . . . . . . . Mesa5g04372 . Mibi06g0827 . . . . . Phco11g00280 . . . . . . . . . . . . . Pvu6g2043 . . . . . Spst6g00649 . . . . . . . Trre3g00317 . . . . . . . Vimu2g00521 . . . . . . .
Vvi3g0904 . . . . Adu10g00431 . . . Aev04g0720 . Ahy20g0636 . Aip10g00642 . Alju03g1071 Alju03g1071 Amo20g0720 . . Apr1g1305 Arst10g00554 . . . Bisa07g0723 Bisa07g0723 Bva13g00988 Bva14g01163 . Car01g00210 . . . . Dod03g0274 . . . . . Gma15g00591 Gma13g02243 . . . . . . . . . . . Lal11g0113 . . . . . . Lapu6g01148 . Lasa1g05173 Lasa7g03431 . . . . . . . . . . . . . Mepo2g03413 . Mesa13g01738 Mibi06g0825 Mibi06g0825 . . . . Phco11g00279 Phco4g02495 . . . Psa1g4840 . . Pte19g00864 . . . . . Pvu6g2044 Pvu2g2240 Rops11g00392 . Seca12g05050 . Spst6g00648 Spst3g00469 . . . . . . Trre3g00316 Trre7g03842 . . . . Vifa1g10658 . Vimu2g00520 Vimu11g03437 Viun6g02948 . . Vivi5g04325 . .
Vvi3g0905 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0906 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0907 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0908 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0909 . . . . Adu10g00433 . . . . . Ahy20g0680 . Aip10g00686 . Alju03g1070 . Amo20g0695 . . Apr1g1303 Arst10g00559 . Bach7g00788 . Bisa07g2586 . Bva13g00987 Bva14g01162 . . . . . . . . Enph4g1128 . . . . Gma13g02245 . . . . . . . . . . Lal5g1782 . . . . . . . . . Lasa1g05174 . Lele13g1169 . . . . . . . Lja6g3196 . . . . . . . Mibi06g0822 . . . . . Phco11g00278 . Prci3g1982 . . . . . . . . . . . Pvu6g2045 . Rops11g00389 . Seca6g05040 . Spst6g00647 . . . . . . . Trre3g00315 . . . Vian6g01888 . Vifa1g10659 . Vimu2g00519 . . . Vivi1g08488 . . .
Vvi3g0910 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0911 . . . . Adu10g00436 . Aed10g2004 . . . Ahy20g0639 . Aip10g00645 . . Alju03g1070 Amo20g0716 . Apr3g1921 Apr1g1302 Arst10g00561 . Bach7g00789 . . Bisa07g2586 . . . Car01g00209 Cca09g01371 . . . Dod03g0273 . . Enph4g1128 . . Gma15g00590 Gma13g02246 . . Gso15g0535 Gso15g0535 . . . . . . Lal5g1783 Lal11g0112 . . . . . . Lapu6g01147 . Lasa1g05175 . . . . . Lele13g1169 . . . Lja6g3198 . Mal7g3716 . Mepo6g00282 . . . . Mibi06g0822 Mtr4g3097 . Phac6g02841 . Phco11g00277 Phco4g02489 . Prci3g1982 . Psa1g4848 . . Pte19g00863 . . . . Pumo6g01745 Pvu6g2046 Pvu2g2238 Rops11g00385 Rops2g01910 Seca12g05054 Seca12g05050 Spst6g00646 Spst3g00468 . . Sto2g2836 . . . Trre3g00314 . . . Vian6g01889 Vian1g03087 Vifa1g10660 Vifa1g10653 Vimu2g00518 Vimu11g03434 Viun6g02951 Viun3g01626 . . Vra7g1581 .
Vvi3g0912 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0903 Chr3 8986361 8986891 -
Adu Adu10g00429 Chr10 5009502 5010105 -
Aev Aev04g0719 Chr04 4434005 4434487 -
Ahy Ahy20g0635 Chr20 6895381 6895948 +
Aip Aip10g00641 Chr10 6672001 6672492 +
Alju Alju03g1072 Chr03 38627488 38628027 +
Amo Amo20g0721 Chr20 10497213 10497677 -
Arst Arst10g00552 Chr10 4532303 4532803 +
Bach Bach7g00784 Chr7 19117292 19117783 -
Bisa Bisa07g0724 Chr07 18939163 18939705 +
Gma Gma15g00592 Chr15 4888863 4889723 +
Gma Gma13g02241 Chr13 37286287 37286775 +
Gso Gso15g0536 Chr15 4800370 4801137 +
Gso Gso15g0536 Chr15 4800370 4801137 +
Lasa Lasa1g05172 Chr1 833747941 833748444 +
Mesa Mesa5g04372 Chr5 72927623 72928114 -
Mibi Mibi06g0827 Chr06 27223352 27223843 +
Phco Phco11g00280 Chr11 1839122 1844176 +
Pvu Pvu6g2043 Chr6 30268320 30269086 -
Spst Spst6g00649 Chr6 5868125 5868613 +
Trre Trre3g00317 Chr3 2100268 2100747 +
Vimu Vimu2g00521 Chr2 3014565 3015029 +
Vvi Vvi3g0904 Chr3 9044693 9045175 -
Adu Adu10g00431 Chr10 5034504 5034960 +
Aev Aev04g0720 Chr04 4439657 4440082 -
Ahy Ahy20g0636 Chr20 6899942 6900427 -
Aip Aip10g00642 Chr10 6676810 6677289 -
Alju Alju03g1071 Chr03 38592605 38593144 +
Alju Alju03g1071 Chr03 38592605 38593144 +
Amo Amo20g0720 Chr20 10492665 10493144 +
Apr Apr1g1305 Chr1 21980642 21981158 +
Arst Arst10g00554 Chr10 4562901 4563362 -
Bisa Bisa07g0723 Chr07 18924338 18932974 +
Bisa Bisa07g0723 Chr07 18924338 18932974 +
Bva Bva13g00988 Chr13 4747618 4748112 +
Bva Bva14g01163 Chr14 5663745 5664362 +
Car Car01g00210 Chr01 1608191 1608682 +
Dod Dod03g0274 Chr03 2906867 2907289 +
Gma Gma15g00591 Chr15 4882957 4883837 +
Gma Gma13g02243 Chr13 37329028 37329516 +
Lal Lal11g0113 Chr11 768589 769059 +
Lapu Lapu6g01148 Chr6 11417755 11418246 +
Lasa Lasa1g05173 Chr1 833792322 833792825 +
Lasa Lasa7g03431 Chr7 596207789 596208268 -
Mepo Mepo2g03413 Chr2 43857605 43858183 -
Mesa Mesa13g01738 Chr13 20623471 20623950 +
Mibi Mibi06g0825 Chr06 27137940 27138497 +
Mibi Mibi06g0825 Chr06 27137940 27138497 +
Phco Phco11g00279 Chr11 1835776 1836270 +
Phco Phco4g02495 Chr4 46118003 46118476 +
Psa Psa1g4840 Chr1 361618270 361619292 +
Pte Pte19g00864 Chr19 7138257 7138748 +
Pvu Pvu6g2044 Chr6 30272550 30273214 -
Pvu Pvu2g2240 Chr2 38049387 38050072 +
Rops Rops11g00392 Chr11 5365939 5366587 +
Seca Seca12g05050 Chr12 137236766 137243018 -
Spst Spst6g00648 Chr6 5864658 5865149 +
Spst Spst3g00469 Chr3 7905802 7906233 +
Trre Trre3g00316 Chr3 2095843 2096340 +
Trre Trre7g03842 Chr7 46583295 46583777 -
Vifa Vifa1g10658 Chr1 1791613649 1791614137 +
Vimu Vimu2g00520 Chr2 3010804 3011295 +
Vimu Vimu11g03437 Chr11 55570361 55574613 +
Viun Viun6g02948 Chr6 32507962 32508709 -
Vivi Vivi5g04325 Chr5 140712894 140713592 -
Vvi Vvi3g0905 Chr3 9050245 9055257 +
Vvi Vvi3g0906 Chr3 9072938 9073748 -
Vvi Vvi3g0907 Chr3 9080159 9081145 +
Vvi Vvi3g0908 Chr3 9083016 9083420 +
Vvi Vvi3g0909 Chr3 9101007 9101492 -
Adu Adu10g00433 Chr10 5066675 5067172 +
Ahy Ahy20g0680 Chr20 7735214 7738827 +
Aip Aip10g00686 Chr10 7442839 7446594 +
Alju Alju03g1070 Chr03 38547720 38549613 +
Amo Amo20g0695 Chr20 9636343 9640183 -
Apr Apr1g1303 Chr1 21961758 21962246 +
Arst Arst10g00559 Chr10 4646763 4647724 -
Bach Bach7g00788 Chr7 19148019 19148498 +
Bisa Bisa07g2586 Chr07 57356457 57360805 -
Bva Bva13g00987 Chr13 4745232 4745877 +
Bva Bva14g01162 Chr14 5660720 5661269 +
Enph Enph4g1128 Chr4 24545783 24550800 -
Gma Gma13g02245 Chr13 37342178 37342666 -
Lal Lal5g1782 Chr5 19767643 19768140 -
Lasa Lasa1g05174 Chr1 833850413 833850916 +
Lele Lele13g1169 Chr13 22283657 22285678 +
Lja Lja6g3196 Chr6 60393976 60394737 -
Mibi Mibi06g0822 Chr06 27092001 27092435 +
Phco Phco11g00278 Chr11 1829205 1829696 +
Prci Prci3g1982 Chr3 34205027 34208228 +
Pvu Pvu6g2045 Chr6 30279443 30279923 -
Rops Rops11g00389 Chr11 5315764 5316255 +
Seca Seca6g05040 Chr6 117635306 117639409 -
Spst Spst6g00647 Chr6 5859427 5859915 +
Trre Trre3g00315 Chr3 2091931 2096340 +
Vian Vian6g01888 Chr6 36174303 36174794 -
Vifa Vifa1g10659 Chr1 1791781295 1791781783 +
Vimu Vimu2g00519 Chr2 3005851 3006342 +
Vivi Vivi1g08488 Chr1 242969988 242970612 -
Vvi Vvi3g0910 Chr3 9106967 9110222 -
Vvi Vvi3g0911 Chr3 9120045 9130663 -
Adu Adu10g00436 Chr10 5080667 5081701 -
Aed Aed10g2004 Chr10 24067903 24069739 -
Ahy Ahy20g0639 Chr20 6948170 6948999 -
Aip Aip10g00645 Chr10 6721056 6721861 -
Alju Alju03g1070 Chr03 38547720 38549613 +
Amo Amo20g0716 Chr20 10453361 10453843 +
Apr Apr3g1921 Chr3 35236158 35236631 -
Apr Apr1g1302 Chr1 21955150 21955658 +
Arst Arst10g00561 Chr10 4659146 4659792 -
Bach Bach7g00789 Chr7 19155399 19155899 +
Bisa Bisa07g2586 Chr07 57356457 57360805 -
Car Car01g00209 Chr01 1604864 1605651 +
Cca Cca09g01371 Chr09 36918722 36919501 -
Dod Dod03g0273 Chr03 2903467 2904349 +
Enph Enph4g1128 Chr4 24545783 24550800 -
Gma Gma15g00590 Chr15 4877020 4877715 +
Gma Gma13g02246 Chr13 37345266 37346044 +
Gso Gso15g0535 Chr15 4794404 4795136 +
Gso Gso15g0535 Chr15 4794404 4795136 +
Lal Lal5g1783 Chr5 19774796 19775296 -
Lal Lal11g0112 Chr11 755369 757414 +
Lapu Lapu6g01147 Chr6 11405910 11406392 +
Lasa Lasa1g05175 Chr1 833909709 833910212 +
Lele Lele13g1169 Chr13 22283657 22285678 +
Lja Lja6g3198 Chr6 60413129 60413939 -
Mal Mal7g3716 Chr7 102853096 102853587 -
Mepo Mepo6g00282 Chr6 2861232 2861507 +
Mibi Mibi06g0822 Chr06 27092001 27092435 +
Mtr Mtr4g3097 Chr4 44591564 44592288 -
Phac Phac6g02841 Chr6 25288151 25289058 -
Phco Phco11g00277 Chr11 1822412 1822978 +
Phco Phco4g02489 Chr4 46078168 46078641 +
Prci Prci3g1982 Chr3 34205027 34208228 +
Psa Psa1g4848 Chr1 361957033 361957910 +
Pte Pte19g00863 Chr19 7134521 7135465 +
Pumo Pumo6g01745 Chr6 26363547 26364029 -
Pvu Pvu6g2046 Chr6 30285266 30285760 -
Pvu Pvu2g2238 Chr2 38037149 38037811 +
Rops Rops11g00385 Chr11 5263463 5263946 +
Rops Rops2g01910 Chr2 29994925 29995519 +
Seca Seca12g05054 Chr12 137430629 137431075 -
Seca Seca12g05050 Chr12 137236766 137243018 -
Spst Spst6g00646 Chr6 5852372 5852848 +
Spst Spst3g00468 Chr3 7871299 7871775 +
Sto Sto2g2836 Chr2 41853994 41863465 +
Trre Trre3g00314 Chr3 2089794 2090273 +
Vian Vian6g01889 Chr6 36179006 36179497 -
Vian Vian1g03087 Chr1 51410640 51411113 +
Vifa Vifa1g10660 Chr1 1791843858 1791844337 -
Vifa Vifa1g10653 Chr1 1790540049 1790540495 -
Vimu Vimu2g00518 Chr2 2990170 2990649 +
Vimu Vimu11g03434 Chr11 55549739 55550170 +
Viun Viun6g02951 Chr6 32524214 32524896 -
Viun Viun3g01626 Chr3 11246841 11247634 -
Vra Vra7g1581 Chr7 34136077 34136833 +
Vvi Vvi3g0912 Chr3 9145287 9145858 +