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
Vvi17g0273 . . . . . Adu03g04033 . Aed5g2623 . . . . . . . . . . . Apr2g1541 . Arst3g05312 . . . . Bva04g00853 Bva03g00710 . . . Cca09g02795 . . . . . . . . . Gma08g00483 Gma05g02355 . . . . . . Lal16g0961 Lal23g0682 . . . . . . . . . . Lapu3g03921 . Lasa7g05245 . . . . . . . . . Lja4g0048 Mal5g0394 . . Mepo2g05067 . Mesa13g00064 . . Mtr8g3847 . . . . Phco4g03691 . . . . . . . . . . . Pumo6g00094 . Pvu2g3360 . Rops2g00093 . Seca12g06959 . Spst3g00701 . Ssu5g3460 . Sto8g2214 Tpr3g0259 . . Trre7g05937 Tsu02g00062 . . Vian1g04185 . Vifa6g04110 . Vimu11g04884 . Viun3g00103 . Vivi5g06540 . .
Vvi17g0274 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0275 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0276 . . . . . Adu03g04031 . Aed5g2622 . . . . . . . . . . . Apr2g1540 . Arst3g05310 . . . . Bva04g00852 . . Car06g00188 . Cca09g02794 . . . . . . . . . Gma08g00482 Gma05g02354 . . . . . Lal15g0930 . . . . . . . . . . . . Lapu3g03920 . Lasa7g05244 . . . . . . . . . Lja4g0051 Mal5g0392 . . Mepo2g05065 . . . . Mtr8g3846 . . . . Phco4g03690 . . . . . . . . . . . Pumo6g00095 . Pvu2g3359 . Rops2g00095 . Seca12g06958 . Spst3g00703 . Ssu5g3459 . Sto8g2213 . . . . . . . Vian1g04184 . Vifa6g04109 . Vimu11g04883 . Viun3g00104 . . . .
Vvi17g0277 . . . . . Adu03g04030 . Aed5g2621 . . . . . . . . . . . Apr2g1539 . Arst3g05308 . Bach1g01477 . . Bva04g00851 Bva03g00709 . Car06g00189 . Cca09g02793 . . . . . . . . . Gma08g00481 Gma05g02353 . . . . . . . . Lal8g0456 . Lal25g0468 . . . . . . . Lapu3g03919 . Lasa7g05243 . . . . . . . . . Lja4g0052 . . . . . . . . . . . Phac2g04884 . Phco4g03689 . . . Psa7g0129 . . . . . . . Pumo6g00096 . Pvu2g3358 . Rops2g00098 . Seca12g06957 . Spst3g00704 . Ssu5g3458 . Sto8g2212 . . . . . . . Vian1g04183 . Vifa6g04108 . . . Viun3g00105 . Vivi2g00717 . .
Vvi17g0278 . . . . Adu05g02718 . Aed7g0258 . Aev05g3484 . Ahy15g2687 . Aip05g02997 . . . . . Apr6g1017 . . . . . . . Bva04g00850 Bva03g00708 Car08g01650 . Cca08g00279 . . . . . . . . . Gma07g00900 . . Gma09g01661 . . . . . . . Lal8g0557 Lal10g0962 . . . . . . . . . . . . . . . . . . . . . . Mal6g3687 . . . . . . . Mtr6g2120 . . . . . . . . . . . . . . . . Pvu4g1615 . . . . . . . . . . Sto8g2211 . Tpr5g0314 . . . Tsu03g03071 . . Vifa1g07204 . . . . . . . Vra1g0654 .
Vvi17g0279 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0280 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0281 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0282 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0273 Chr17 2798874 2800520 +
Adu Adu03g04033 Chr03 129425838 129427780 -
Aed Aed5g2623 Chr5 26912640 26914414 -
Apr Apr2g1541 Chr2 21304831 21307009 -
Arst Arst3g05312 Chr3 128189864 128191914 -
Bva Bva04g00853 Chr04 5606105 5608619 -
Bva Bva03g00710 Chr03 4248373 4250527 -
Cca Cca09g02795 Chr09 53575519 53578178 -
Gma Gma08g00483 Chr08 4024254 4026800 -
Gma Gma05g02355 Chr05 44450938 44452810 -
Lal Lal16g0961 Chr16 6378755 6382151 +
Lal Lal23g0682 Chr23 9494880 9497980 -
Lapu Lapu3g03921 Chr3 62719095 62720989 -
Lasa Lasa7g05245 Chr7 717876966 717879389 -
Lja Lja4g0048 Chr4 401551 407265 +
Mal Mal5g0394 Chr5 6008505 6010183 +
Mepo Mepo2g05067 Chr2 58591410 58593532 +
Mesa Mesa13g00064 Chr13 786157 788913 +
Mtr Mtr8g3847 Chr8 49146258 49149119 -
Phco Phco4g03691 Chr4 56555978 56557838 -
Pumo Pumo6g00094 Chr6 1008099 1010037 +
Pvu Pvu2g3360 Chr2 48478928 48481211 -
Rops Rops2g00093 Chr2 1489794 1491713 +
Seca Seca12g06959 Chr12 161551048 161554546 -
Spst Spst3g00701 Chr3 10418852 10422081 +
Ssu Ssu5g3460 Chr5 85388865 85390763 -
Sto Sto8g2214 Chr8 14656109 14658778 -
Tpr Tpr3g0259 Chr3 3023757 3026584 +
Trre Trre7g05937 Chr7 63835162 63837770 -
Tsu Tsu02g00062 Chr02 392635 395208 +
Vian Vian1g04185 Chr1 64857105 64858959 -
Vifa Vifa6g04110 Chr6 1353077723 1353080020 -
Vimu Vimu11g04884 Chr11 68572886 68576675 -
Viun Viun3g00103 Chr3 469151 471239 +
Vivi Vivi5g06540 Chr5 172227982 172231020 +
Vvi Vvi17g0274 Chr17 2802009 2818610 -
Vvi Vvi17g0275 Chr17 2821133 2821522 -
Vvi Vvi17g0276 Chr17 2822113 2865012 -
Adu Adu03g04031 Chr03 129391094 129399310 +
Aed Aed5g2622 Chr5 26902815 26911889 +
Apr Apr2g1540 Chr2 21289900 21302646 +
Arst Arst3g05310 Chr3 128155078 128164003 +
Bva Bva04g00852 Chr04 5593973 5604985 +
Car Car06g00188 Chr06 2085741 2096912 -
Cca Cca09g02794 Chr09 53562615 53573897 +
Gma Gma08g00482 Chr08 4013817 4023121 +
Gma Gma05g02354 Chr05 44438646 44449250 +
Lal Lal15g0930 Chr15 7133594 7145445 -
Lapu Lapu3g03920 Chr3 62705677 62718049 +
Lasa Lasa7g05244 Chr7 717855215 717874698 +
Lja Lja4g0051 Chr4 419264 429814 -
Mal Mal5g0392 Chr5 5979649 5997561 +
Mepo Mepo2g05065 Chr2 58572339 58584501 +
Mtr Mtr8g3846 Chr8 49133262 49145774 +
Phco Phco4g03690 Chr4 56543119 56554310 +
Pumo Pumo6g00095 Chr6 1011553 1022984 -
Pvu Pvu2g3359 Chr2 48466095 48477213 +
Rops Rops2g00095 Chr2 1500562 1511671 -
Seca Seca12g06958 Chr12 161538664 161550053 +
Spst Spst3g00703 Chr3 10424130 10443744 -
Ssu Ssu5g3459 Chr5 85333310 85387427 +
Sto Sto8g2213 Chr8 14642442 14653511 +
Vian Vian1g04184 Chr1 64844084 64855863 +
Vifa Vifa6g04109 Chr6 1353061670 1353075760 +
Vimu Vimu11g04883 Chr11 68559853 68571650 +
Viun Viun3g00104 Chr3 472134 484245 -
Vvi Vvi17g0277 Chr17 2870999 2872600 +
Adu Adu03g04030 Chr03 129379638 129381842 -
Aed Aed5g2621 Chr5 26899562 26901823 -
Apr Apr2g1539 Chr2 21286836 21289030 -
Arst Arst3g05308 Chr3 128144135 128146079 -
Bach Bach1g01477 Chr1 28247666 28249267 +
Bva Bva04g00851 Chr04 5591706 5593676 -
Bva Bva03g00709 Chr03 4245742 4247714 -
Car Car06g00189 Chr06 2098620 2100737 +
Cca Cca09g02793 Chr09 53559008 53561116 -
Gma Gma08g00481 Chr08 4011438 4013039 -
Gma Gma05g02353 Chr05 44430278 44436888 -
Lal Lal8g0456 Chr8 3033536 3035140 -
Lal Lal25g0468 Chr25 3235994 3238553 -
Lapu Lapu3g03919 Chr3 62701322 62703535 -
Lasa Lasa7g05243 Chr7 717807984 717809576 -
Lja Lja4g0052 Chr4 431619 433656 +
Phac Phac2g04884 Chr2 45246385 45248867 -
Phco Phco4g03689 Chr4 56540368 56541969 -
Psa Psa7g0129 Chr7 9092663 9095309 +
Pumo Pumo6g00096 Chr6 1024692 1026810 +
Pvu Pvu2g3358 Chr2 48461831 48464221 -
Rops Rops2g00098 Chr2 1512988 1514883 +
Seca Seca12g06957 Chr12 161535902 161537503 -
Spst Spst3g00704 Chr3 10445060 10446661 +
Ssu Ssu5g3458 Chr5 85328031 85329632 -
Sto Sto8g2212 Chr8 14638185 14639786 -
Vian Vian1g04183 Chr1 64839891 64841492 -
Vifa Vifa6g04108 Chr6 1353042919 1353044511 -
Viun Viun3g00105 Chr3 486287 488401 +
Vivi Vivi2g00717 Chr2 20206173 20212956 +
Vvi Vvi17g0278 Chr17 2877711 2879446 -
Adu Adu05g02718 Chr05 94653522 94655419 -
Aed Aed7g0258 Chr7 1819636 1821666 +
Aev Aev05g3484 Chr05 34113674 34121521 +
Ahy Ahy15g2687 Chr15 143189724 143191827 +
Aip Aip05g02997 Chr05 132275004 132276959 +
Apr Apr6g1017 Chr6 14872582 14874403 -
Bva Bva04g00850 Chr04 5588280 5590466 +
Bva Bva03g00708 Chr03 4243445 4245741 +
Car Car08g01650 Chr08 26325615 26329791 -
Cca Cca08g00279 Chr08 3953193 3964762 +
Gma Gma07g00900 Chr07 9764842 9766895 +
Gma Gma09g01661 Chr09 42128529 42130858 -
Lal Lal8g0557 Chr8 3864664 3868940 +
Lal Lal10g0962 Chr10 16926835 16928955 -
Mal Mal6g3687 Chr6 107904382 107907600 -
Mtr Mtr6g2120 Chr6 37908606 37912077 -
Pvu Pvu4g1615 Chr4 43406256 43408549 -
Sto Sto8g2211 Chr8 14632927 14636139 +
Tpr Tpr5g0314 Chr5 4779587 4784639 +
Tsu Tsu03g03071 Chr03 42245562 42248652 -
Vifa Vifa1g07204 Chr1 1113128409 1113130971 +
Vra Vra1g0654 Chr1 7690997 7693904 +
Vvi Vvi17g0279 Chr17 2886956 2888989 -
Vvi Vvi17g0280 Chr17 2893561 2898013 +
Vvi Vvi17g0281 Chr17 2901717 2904263 +
Vvi Vvi17g0282 Chr17 2907541 2909885 +
Lal Lal8g0557 Chr8 3864664 3868940 +