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
Vvi17g0383 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0384 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0385 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa1g02847 . . . . . . . . . . . . . . . . . . . . . . . Phco5g01354 . . . . . . . . . . . . . Pvu4g0678 . . . . . . . . . . . . . . . . . . . . . . . . . Vivi2g04907 . . .
Vvi17g0386 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0387 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0388 . . . . Adu01g03105 . . Aed6g1708 . . . . . . . . . . . Apr9g2884 Arst1g04014 . . . . . . Bva05g00632 Car07g00817 . . Cca11g02106 . . . . . . . . . . Gma05g00122 Gma17g01133 . . . . . Lal7g1304 Lal14g1860 . . . . . . . . . Lapu3g00903 . Lasa4g03425 . . . . . . . . . . Lja4g2003 Mal5g4425 . Mepo1g01114 . Mesa29g01054 . . . Mtr4g4059 . Phac3g02683 . Phco8g01497 . . . Psa4g1007 . Pste6g02823 . . Pte2g02278 . . Pumo4g01134 . Pvu3g1827 . Rops2g03731 . Seca12g01207 . Spst3g04847 . . Ssu6g1107 . Sto12g1034 Tpr4g3740 . Trre15g04389 . Tsu04g03847 . Vian1g00906 . Vifa4g03526 . Vimu7g00951 . Viun3g04759 . Vivi1g01718 . . Vra7g2014
Vvi17g0389 . Acco13g1022 . Accr12g00996 Adu01g03106 . . Aed6g1706 . . . . . . . Alju13g1137 . . . Apr9g2885 Arst1g04016 . Bach5g00533 Bach2g01719 . Bisa02g0350 Bva06g01066 Bva05g00631 Car07g00818 . . Cca11g02105 . Dere14g0113 . . . Enph5g0815 . Glsi13g0837 . . Gma05g00123 Gma17g01134 . . . . . Lal7g1305 . . . . . . . . . . Lapu3g00904 Lapu9g00654 Lasa4g03424 Lasa1g04349 . . . . . . . . . Lja4g2004 Mal5g4424 . Mepo1g01116 . Mesa29g01055 . . Mibi13g0986 Mtr4g4058 . Phac3g02686 Phac9g03469 Phco8g01279 Phco7g02483 . Prci9g1148 Psa4g1010 . Pste6g02821 Pste2g00909 . . Pte3g00525 Pte1g00786 Pumo4g01135 . Pvu3g1828 Pvu9g2145 Rops2g03732 . Seca12g01208 . Spst3g04846 . . Ssu6g1108 . Sto12g1033 Tpr4g3741 . Trre15g04387 . Tsu04g03846 . Vian1g00905 . Vifa4g03525 . Vimu7g00949 Vimu10g00737 Viun3g04757 . Vivi1g01719 . . Vra7g2013
Vvi17g0390 . . . . Adu01g03108 . . . . . . . . . . . . . . Apr9g2886 Arst1g04018 . Bach5g00532 . Bisa08g2289 . Bva06g01067 Bva05g00630 . . . . Dere03g1100 . . . . . Glsi02g1019 . Gma06g01902 Gma04g01457 Gma05g00124 Gma17g01135 Gso6g1789 Gso6g1789 Gso6g1789 Gso6g1789 Lal19g1413 . . . . . Lan1g1095 . . . . . . . . . . . . . . . . . Lja1g5396 . . . . . . . . . . . . . Phco8g01495 . . . Psa1g0576 . Pste6g02820 . . . . . Pumo4g01137 . Pvu3g1829 . Rops2g03733 . Seca12g01211 . Spst3g04845 . . . Sto3g1710 Sto12g1032 . . . . . . Vian1g00904 . Vifa4g03524 . Vimu7g00948 . Viun3g04751 . . . . .
Vvi17g0391 . . . . Adu01g00925 . . . . . . . . . . . . . . . Arst1g01254 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo1g02330 . . . . . . . . . Phco8g00297 . . . . . . . . . . . . . Pvu3g2808 . . . . . Spst3g03678 . . . . . . . Trre15g01778 . . . . . . . Vimu11g00919 . . . . . . .
Vvi17g0392 . . . . Adu01g03110 . . Aed6g1705 . . . . . . Alju06g2856 . . . . Apr9g2887 Arst1g04020 . Bach10g01187 . Bisa08g2290 . Bva06g01069 Bva05g00629 Car07g00819 . . Cca11g02104 Dere03g1099 . . . . . Glsi02g1018 . . . Gma05g00125 Gma17g01136 . . . . Lal19g1414 . Lal14g1861 . . . Lan1g1094 . Lan1g1094 . . . Lapu3g00906 . Lasa4g03423 . Lele21g2015 . Lele23g0002 . . . . . . Lja4g2005 Mal5g4423 . Mepo1g01117 . Mesa29g01057 . Mibi09g0001 . Mtr4g4057 . Phac3g02701 . Phco8g01494 . . . Psa4g1011 . Pste6g02818 . . . . . . . Pvu3g1830 . . . . . Spst3g04844 . . Ssu6g1110 Sto3g1709 Sto12g1031 Tpr4g3742 . Trre15g04385 . Tsu04g03845 . . . . . Vimu7g00947 . . . Vivi1g01721 . . Vra7g2012
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Acco Acco13g1022 Chr13 8282590 8289360 -
Accr Accr12g00996 Chr12 10471448 10475935 -
Alju Alju13g1137 Chr13 30148814 30153049 +
Bach Bach2g01719 Chr2 25652358 25656554 +
Bisa Bisa02g0350 Chr02 6016990 6037323 +
Dere Dere14g0113 Chr14 1258606 1262783 +
Enph Enph5g0815 Chr5 6695152 6699491 -
Glsi Glsi13g0837 Chr13 26927001 26931160 +
Lapu Lapu9g00654 Chr9 7789358 7795805 +
Lasa Lasa1g04349 Chr1 728069991 728074115 +
Mibi Mibi13g0986 Chr13 12548515 12554523 -
Phac Phac9g03469 Chr9 34018762 34024796 +
Phco Phco7g02483 Chr7 43609982 43614231 +
Prci Prci9g1148 Chr9 25628908 25634168 +
Pste Pste2g00909 Chr2 9749296 9759768 +
Pte Pte3g00525 Chr3 4110532 4114787 -
Pte Pte3g00525 Chr3 4110532 4114787 -
Pte Pte1g00786 Chr1 13207604 13208498 -
Pvu Pvu9g2145 Chr9 30736980 30743308 +
Vimu Vimu10g00737 Chr10 6407373 6411227 -
Lasa Lasa1g02847 Chr1 554723986 554725738 +
Vvi Vvi17g0383 Chr17 4148911 4149215 +
Vvi Vvi17g0384 Chr17 4152084 4153854 +
Vvi Vvi17g0385 Chr17 4155405 4159737 +
Lasa Lasa1g02847 Chr1 554723986 554725738 +
Phco Phco5g01354 Chr5 48623666 48634746 +
Pvu Pvu4g0678 Chr4 8564326 8574795 -
Vivi Vivi2g04907 Chr2 169119021 169124282 -
Vvi Vvi17g0386 Chr17 4166093 4174318 +
Vvi Vvi17g0387 Chr17 4191395 4194749 +
Vvi Vvi17g0388 Chr17 4200396 4219255 +
Adu Adu01g03105 Chr01 102545035 102553059 +
Aed Aed6g1708 Chr6 20739587 20747413 -
Apr Apr9g2884 Chr9 35750039 35757941 +
Arst Arst1g04014 Chr1 101812556 101820582 +
Bva Bva05g00632 Chr05 3141094 3147880 -
Car Car07g00817 Chr07 7254015 7267560 +
Cca Cca11g02106 Chr11 46644858 46657947 -
Gma Gma05g00122 Chr05 1225928 1233283 +
Gma Gma17g01133 Chr17 9819133 9827999 +
Lal Lal7g1304 Chr7 18400440 18408099 +
Lal Lal14g1860 Chr14 18135543 18144851 +
Lapu Lapu3g00903 Chr3 9765588 9774237 +
Lasa Lasa4g03425 Chr4 592975727 592991867 -
Lja Lja4g2003 Chr4 20699182 20710730 +
Mal Mal5g4425 Chr5 115819590 115828909 -
Mepo Mepo1g01114 Chr1 10835588 10844349 +
Mesa Mesa29g01054 Chr29 13513776 13523914 +
Mtr Mtr4g4059 Chr4 54439252 54449474 -
Phac Phac3g02683 Chr3 29428828 29438431 +
Phco Phco8g01497 Chr8 15398622 15406644 -
Psa Psa4g1007 Chr4 75393845 75404007 +
Pste Pste6g02823 Chr6 15914096 15915525 -
Pte Pte2g02278 Chr2 42447261 42454518 +
Pumo Pumo4g01134 Chr4 14586211 14598171 +
Pvu Pvu3g1827 Chr3 38852184 38860879 +
Rops Rops2g03731 Chr2 69063172 69073899 +
Seca Seca12g01207 Chr12 11846302 11856246 +
Spst Spst3g04847 Chr3 100214939 100224331 -
Ssu Ssu6g1107 Chr6 18105580 18114534 +
Sto Sto12g1034 Chr12 6452282 6458550 -
Tpr Tpr4g3740 Chr4 43313517 43320847 +
Trre Trre15g04389 Chr15 54538464 54545653 -
Tsu Tsu04g03847 Chr04 47346893 47354631 -
Vian Vian1g00906 Chr1 9482919 9493380 -
Vifa Vifa4g03526 Chr4 1106004114 1106024966 -
Vimu Vimu7g00951 Chr7 9227654 9239292 -
Viun Viun3g04759 Chr3 54951717 54959956 -
Vivi Vivi1g01718 Chr1 37133185 37153037 +
Vra Vra7g2014 Chr7 39652463 39663614 -
Vvi Vvi17g0389 Chr17 4225877 4226898 -
Acco Acco13g1022 Chr13 8282590 8289360 -
Accr Accr12g00996 Chr12 10471448 10475935 -
Adu Adu01g03106 Chr01 102555594 102557058 -
Aed Aed6g1706 Chr6 20736931 20738524 +
Alju Alju13g1137 Chr13 30148814 30153049 +
Apr Apr9g2885 Chr9 35760525 35762011 -
Arst Arst1g04016 Chr1 101823083 101824563 -
Bach Bach5g00533 Chr5 3640530 3641600 +
Bach Bach2g01719 Chr2 25652358 25656554 +
Bisa Bisa02g0350 Chr02 6016990 6037323 +
Bva Bva06g01066 Chr06 8641762 8643460 -
Bva Bva05g00631 Chr05 3139534 3140806 +
Car Car07g00818 Chr07 7270200 7271979 -
Cca Cca11g02105 Chr11 46641077 46642772 +
Dere Dere14g0113 Chr14 1258606 1262783 +
Enph Enph5g0815 Chr5 6695152 6699491 -
Glsi Glsi13g0837 Chr13 26927001 26931160 +
Gma Gma05g00123 Chr05 1235977 1237622 -
Gma Gma17g01134 Chr17 9830133 9831778 -
Lal Lal7g1305 Chr7 18408546 18410922 -
Lapu Lapu3g00904 Chr3 9775597 9777801 -
Lapu Lapu9g00654 Chr9 7789358 7795805 +
Lasa Lasa4g03424 Chr4 592972653 592973747 +
Lasa Lasa1g04349 Chr1 728069991 728074115 +
Lja Lja4g2004 Chr4 20712580 20714373 -
Mal Mal5g4424 Chr5 115797936 115799068 +
Mepo Mepo1g01116 Chr1 10848797 10850640 -
Mesa Mesa29g01055 Chr29 13526595 13527798 -
Mibi Mibi13g0986 Chr13 12548515 12554523 -
Mtr Mtr4g4058 Chr4 54435654 54437480 +
Phac Phac3g02686 Chr3 29439619 29441629 -
Phac Phac9g03469 Chr9 34018762 34024796 +
Phco Phco8g01279 Chr8 13389382 13390865 +
Phco Phco7g02483 Chr7 43609982 43614231 +
Prci Prci9g1148 Chr9 25628908 25634168 +
Psa Psa4g1010 Chr4 75413165 75414713 -
Pste Pste6g02821 Chr6 15898460 15899787 +
Pste Pste2g00909 Chr2 9749296 9759768 +
Pte Pte3g00525 Chr3 4110532 4114787 -
Pte Pte1g00786 Chr1 13207604 13208498 -
Pumo Pumo4g01135 Chr4 14601164 14602778 -
Pvu Pvu3g1828 Chr3 38863384 38865060 -
Pvu Pvu9g2145 Chr9 30736980 30743308 +
Rops Rops2g03732 Chr2 69076736 69078172 -
Seca Seca12g01208 Chr12 11857237 11858881 -
Spst Spst3g04846 Chr3 100211589 100212724 +
Ssu Ssu6g1108 Chr6 18119276 18120397 -
Sto Sto12g1033 Chr12 6448702 6449963 +
Tpr Tpr4g3741 Chr4 43322198 43324079 -
Trre Trre15g04387 Chr15 54534685 54535759 +
Tsu Tsu04g03846 Chr04 47343821 47345708 +
Vian Vian1g00905 Chr1 9470439 9471547 +
Vifa Vifa4g03525 Chr4 1106001515 1106002600 +
Vimu Vimu7g00949 Chr7 9219381 9220489 +
Vimu Vimu10g00737 Chr10 6407373 6411227 -
Viun Viun3g04757 Chr3 54947733 54949323 +
Vivi Vivi1g01719 Chr1 37154376 37155970 -
Vra Vra7g2013 Chr7 39644666 39646264 +
Vvi Vvi17g0390 Chr17 4233499 4244331 -
Adu Adu01g03108 Chr01 102582372 102588381 -
Apr Apr9g2886 Chr9 35765516 35769733 -
Arst Arst1g04018 Chr1 101849823 101855859 -
Bach Bach5g00532 Chr5 3632651 3636082 +
Bisa Bisa08g2289 Chr08 54459466 54467347 -
Bva Bva06g01067 Chr06 8645094 8649329 -
Bva Bva05g00630 Chr05 3133535 3137914 +
Dere Dere03g1100 Chr03 17639175 17643353 +
Glsi Glsi02g1019 Chr02 6823368 6827835 +
Gma Gma06g01902 Chr06 21233246 21239410 +
Gma Gma04g01457 Chr04 35978756 35985570 -
Gma Gma05g00124 Chr05 1240473 1244246 -
Gma Gma17g01135 Chr17 9835649 9840254 -
Gso Gso6g1789 Chr6 20870907 20877683 +
Gso Gso6g1789 Chr6 20870907 20877683 +
Gso Gso6g1789 Chr6 20870907 20877683 +
Gso Gso6g1789 Chr6 20870907 20877683 +
Lal Lal19g1413 Chr19 16839383 16843684 -
Lan Lan1g1095 Chr1 21067559 21071847 +
Lja Lja1g5396 Chr1 90314763 90323297 -
Phco Phco8g01495 Chr8 15388085 15391303 +
Psa Psa1g0576 Chr1 34570704 34577753 -
Pste Pste6g02820 Chr6 15888030 15893836 +
Pumo Pumo4g01137 Chr4 14618160 14625181 -
Pvu Pvu3g1829 Chr3 38867811 38872215 -
Rops Rops2g03733 Chr2 69084477 69092719 -
Seca Seca12g01211 Chr12 11868620 11877711 -
Spst Spst3g04845 Chr3 100205060 100207999 +
Sto Sto3g1710 Chr3 13186620 13192301 +
Sto Sto12g1032 Chr12 6441418 6443935 +
Vian Vian1g00904 Chr1 9464064 9466857 +
Vifa Vifa4g03524 Chr4 1104924841 1104928587 +
Vimu Vimu7g00948 Chr7 9212893 9215747 +
Viun Viun3g04751 Chr3 54930997 54938741 +
Vvi Vvi17g0391 Chr17 4275111 4277252 +
Adu Adu01g00925 Chr01 12396238 12401154 +
Arst Arst1g01254 Chr1 12383444 12384656 +
Mepo Mepo1g02330 Chr1 24028786 24030938 +
Phco Phco8g00297 Chr8 2731253 2733333 -
Pvu Pvu3g2808 Chr3 49874597 49876924 +
Spst Spst3g03678 Chr3 86864385 86865959 -
Trre Trre15g01778 Chr15 14255072 14257301 +
Vimu Vimu11g00919 Chr11 9522936 9524431 +
Vvi Vvi17g0392 Chr17 4278718 4305424 -
Adu Adu01g03110 Chr01 102620111 102626596 -
Aed Aed6g1705 Chr6 20730504 20734493 +
Alju Alju06g2856 Chr06 55472997 55491900 -
Apr Apr9g2887 Chr9 35771633 35779150 -
Arst Arst1g04020 Chr1 101887588 101894309 -
Bach Bach10g01187 Chr10 9003523 9009306 +
Bisa Bisa08g2290 Chr08 54493904 54505248 -
Bva Bva06g01069 Chr06 8650274 8657360 -
Bva Bva05g00629 Chr05 3125472 3132892 +
Car Car07g00819 Chr07 7277419 7284219 -
Cca Cca11g02104 Chr11 46622763 46637838 +
Dere Dere03g1099 Chr03 17616637 17626464 +
Glsi Glsi02g1018 Chr02 6806135 6815379 +
Gma Gma05g00125 Chr05 1244540 1254510 -
Gma Gma17g01136 Chr17 9844733 9853111 -
Lal Lal19g1414 Chr19 16844396 16851256 -
Lal Lal14g1861 Chr14 18142591 18150425 -
Lan Lan1g1094 Chr1 21059000 21065785 +
Lan Lan1g1094 Chr1 21059000 21065785 +
Lapu Lapu3g00906 Chr3 9786415 9794624 -
Lasa Lasa4g03423 Chr4 592891616 592895560 +
Lele Lele21g2015 Chr21 26979817 26989227 -
Lele Lele23g0002 Chr23 9298 23953 +
Lja Lja4g2005 Chr4 20727583 20735898 -
Mal Mal5g4423 Chr5 115780391 115787792 +
Mepo Mepo1g01117 Chr1 10856751 10864544 -
Mesa Mesa29g01057 Chr29 13563913 13568841 -
Mibi Mibi09g0001 Chr09 24354 39716 +
Mtr Mtr4g4057 Chr4 54423580 54430944 +
Phac Phac3g02701 Chr3 29450497 29458536 -
Phco Phco8g01494 Chr8 15376050 15383284 +
Psa Psa4g1011 Chr4 75435804 75440015 -
Pste Pste6g02818 Chr6 15857710 15871123 +
Pvu Pvu3g1830 Chr3 38875896 38883943 -
Spst Spst3g04844 Chr3 100181940 100205021 +
Ssu Ssu6g1110 Chr6 18131884 18139498 -
Sto Sto3g1709 Chr3 13164133 13179350 +
Sto Sto12g1031 Chr12 6433522 6440324 +
Tpr Tpr4g3742 Chr4 43339952 43346115 -
Trre Trre15g04385 Chr15 54505912 54511356 +
Tsu Tsu04g03845 Chr04 47322825 47327443 +
Vimu Vimu7g00947 Chr7 9201842 9210167 +
Vivi Vivi1g01721 Chr1 37171853 37177512 -
Vra Vra7g2012 Chr7 39637932 39641377 +
Acco Acco13g1022 Chr13 8282590 8289360 -
Accr Accr12g00996 Chr12 10471448 10475935 -
Alju Alju13g1137 Chr13 30148814 30153049 +
Bisa Bisa02g0350 Chr02 6016990 6037323 +
Dere Dere14g0113 Chr14 1258606 1262783 +
Enph Enph5g0815 Chr5 6695152 6699491 -
Glsi Glsi13g0837 Chr13 26927001 26931160 +
Lasa Lasa1g04349 Chr1 728069991 728074115 +
Mibi Mibi13g0986 Chr13 12548515 12554523 -
Phac Phac9g03469 Chr9 34018762 34024796 +
Prci Prci9g1148 Chr9 25628908 25634168 +
Pte Pte2g02278 Chr2 42447261 42454518 +
Arst Arst1g04016 Chr1 101823083 101824563 -