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
Vvi1g1521 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1522 . . . . . Adu04g03201 Aed3g0162 . . . . . . . . . . . Apr4g2658 . . Arst4g04190 . . . . Bva06g01710 Bva05g00074 . . Cca07g02390 . . . . . . . . . Gma02g00875 . . . Gso2g0803 . . . . . . . . . . . . . . . . Lapu1g01144 . Lasa3g00503 . . . . . . . . . . . . . Mepo3g00517 . Mesa25g04253 . . . . . Phac8g00252 . Phco3g03083 . . . . . Pste5g00372 . . . . . Pumo5g00566 . Pvu8g0172 . Rops8g00265 . Seca2g00269 . Spst1g01576 . . Sto3g2018 . . . . Trre13g00468 . . . Vian2g00169 . Vifa1g00744 . Vimu6g01193 . Viun5g00257 . . Vra4g1241 .
Vvi1g1523 . . . . Adu03g02854 . . . . . . . . . . . . . . . Arst3g03771 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g04666 . . . . . . . . . . . . Mal7g4878 Mepo2g04561 . Mesa13g00532 . . . . Mtr8g3409 . . Phco4g03238 . . . . . . . . . . . Pumo6g00542 . Pvu2g2936 . Rops2g00610 . Seca12g06424 . . . . . . Sto4g0150 . Tpr3g0692 Trre7g05372 . . Tsu02g00515 Vian1g03786 . Vifa6g03439 . Vimu11g04349 . Viun3g00642 . Vivi5g05777 . . .
Vvi1g1524 . . . . Adu03g02855 . . . . . . . . . . . . . . . Arst3g03774 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03542 . . . . . . . . . . . . Lja4g0466 . Mal7g4877 . . . . . . . Mtr8g3408 Phac2g04291 . . . . . . Psa7g0849 Pste3g01176 . . Pte3g00147 . . . . Pvu2g2935 . . . . . Spst3g01152 . . . . Sto4g0152 . Tpr3g0693 . . . Tsu02g00517 . . . . . . . . . . . .
Vvi1g1525 . . . . . Adu04g03202 Aed3g0160 . . . . . . . . . . . Apr4g2659 . . Arst4g04191 . . . . Bva06g01709 Bva05g00076 . . Cca07g02392 . . . . . . . . . Gma02g00874 . . . Gso2g0802 . . . . . Lal18g0582 . . . . . . . . . . Lapu1g01142 . Lasa3g00504 . . . . . . . . . . . . . Mepo3g00518 . Mesa25g04252 . . . . . . . Phco3g03084 . . . . . Pste5g00371 . . . . . Pumo5g00565 . Pvu8g0171 . Rops8g00264 . Seca2g00268 . Spst1g01577 Ssu3g0207 . Sto3g2034 . . . . Trre13g00469 . . . Vian2g00168 . Vifa1g00776 . Vimu6g01194 . Viun5g00256 . . Vra4g1242 .
Vvi1g1526 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01708 Bva05g00077 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco4g03230 . . . . . . . . Pte12g00127 . . . . Pvu2g2924 . . . . . Spst3g01164 . . . . . . . . . . . . . . . Vimu11g04339 . . . . . . .
Vvi1g1527 . . . . . Adu04g03203 Aed3g0159 . . . . . . . . . . . Apr4g2660 . . Arst4g04192 . . . . Bva06g01707 . . . Cca07g02393 . . . . . . . . . Gma02g00873 . . . . . . . Lal6g1664 . . . . . Lan8g0108 . . . . . . Lapu1g01141 . . . . . . . . . . . . . . . Mepo3g00520 . Mesa25g04251 . . . . . Phac8g00249 . Phco3g03085 . . . . . Pste5g00369 . . . . . Pumo5g00562 . Pvu8g0170 . Rops8g00263 . Seca2g00266 . Spst1g01578 Ssu3g0206 . Sto3g2043 . . . . Trre13g00470 . . . . . Vifa1g00780 . Vimu6g01195 . Viun5g00255 . . Vra4g1243 .
Vvi1g1528 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1529 . . . . . Adu04g03204 Aed3g0158 . . . . . . . . . . . Apr4g2662 . . . . . . . Bva06g01706 . . . Cca07g02395 . . . . . . . . . . . . . . . . . Lal6g1665 . . . . . Lan8g0107 . . . . . . Lapu1g01139 . Lasa3g00521 . . . . . . . . . . . . . Mepo3g00521 . Mesa25g04250 . . . . . Phac8g00247 . Phco3g03086 . . . . . Pste5g00367 . . . . . . . Pvu8g0169 . . . . . Spst1g01579 Ssu3g0204 . . . . . . Trre13g00471 . . . . . . . Vimu6g01196 . . . . Vra4g1245 .
Vvi1g1530 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aed Aed3g0160 Chr3 1158042 1161939 -
Cca Cca07g02392 Chr07 52619787 52622783 +
Ssu Ssu3g0207 Chr3 3704491 3707014 -
Vra Vra4g1242 Chr4 19411119 19414092 +
Lal Lal6g1664 Chr6 19418491 19425534 +
Lan Lan8g0108 Chr8 1778794 1783345 -
Vvi Vvi1g1521 Chr1 21835223 21835885 -
Vvi Vvi1g1522 Chr1 21855982 21861348 +
Adu Adu04g03201 Chr04 120111471 120115371 +
Aed Aed3g0162 Chr3 1170379 1175110 -
Apr Apr4g2658 Chr4 35314624 35319026 +
Arst Arst4g04190 Chr4 120074594 120078328 +
Bva Bva06g01710 Chr06 11942273 11947473 -
Bva Bva05g00074 Chr05 372172 376173 +
Cca Cca07g02390 Chr07 52593036 52598037 +
Gma Gma02g00875 Chr02 8813651 8817912 -
Gso Gso2g0803 Chr2 8617765 8622199 -
Lapu Lapu1g01144 Chr1 24407250 24417348 -
Lasa Lasa3g00503 Chr3 35434727 35438952 +
Mepo Mepo3g00517 Chr3 7415772 7422733 +
Mesa Mesa25g04253 Chr25 76475389 76482310 -
Phac Phac8g00252 Chr8 1487165 1491951 -
Phco Phco3g03083 Chr3 56946142 56952588 +
Pste Pste5g00372 Chr5 2458966 2462464 -
Pumo Pumo5g00566 Chr5 11386278 11390907 -
Pvu Pvu8g0172 Chr8 1436783 1441474 -
Rops Rops8g00265 Chr8 5253192 5258081 -
Seca Seca2g00269 Chr2 3803742 3808296 -
Spst Spst1g01576 Chr1 19630004 19633890 +
Sto Sto3g2018 Chr3 16692639 16697945 +
Trre Trre13g00468 Chr13 3685068 3689669 +
Vian Vian2g00169 Chr2 1612649 1616714 -
Vifa Vifa1g00744 Chr1 125070030 125074704 +
Vimu Vimu6g01193 Chr6 12158234 12163829 +
Viun Viun5g00257 Chr5 1472497 1477210 -
Vra Vra4g1241 Chr4 19396325 19401015 +
Vvi Vvi1g1523 Chr1 21864353 21867213 +
Adu Adu03g02854 Chr03 107745630 107747412 +
Arst Arst3g03771 Chr3 106471873 106473437 +
Lasa Lasa7g04666 Chr7 677967393 677968788 -
Mal Mal7g4878 Chr7 117355521 117356953 -
Mepo Mepo2g04561 Chr2 54067104 54068864 -
Mesa Mesa13g00532 Chr13 6220948 6222757 +
Mtr Mtr8g3409 Chr8 44663852 44665494 -
Phco Phco4g03238 Chr4 53037475 53040137 -
Pumo Pumo6g00542 Chr6 6761118 6764723 +
Pvu Pvu2g2936 Chr2 44873503 44874235 -
Rops Rops2g00610 Chr2 8705356 8707202 +
Seca Seca12g06424 Chr12 156299367 156301197 -
Sto Sto4g0150 Chr4 1131211 1143449 +
Tpr Tpr3g0692 Chr3 6660342 6663109 +
Trre Trre7g05372 Chr7 59816258 59817762 -
Tsu Tsu02g00515 Chr02 4323785 4326574 +
Vian Vian1g03786 Chr1 60841561 60843285 -
Vifa Vifa6g03439 Chr6 1131670562 1131672016 -
Vimu Vimu11g04349 Chr11 64815074 64816945 -
Viun Viun3g00642 Chr3 3941145 3944298 +
Vivi Vivi5g05777 Chr5 161544640 161546591 -
Vvi Vvi1g1524 Chr1 21872667 21876065 +
Adu Adu03g02855 Chr03 107972826 107973694 -
Arst Arst3g03774 Chr3 106698638 106700224 -
Lapu Lapu3g03542 Chr3 58832595 58835190 -
Lja Lja4g0466 Chr4 3807061 3809243 +
Mal Mal7g4877 Chr7 117351783 117353517 -
Mtr Mtr8g3408 Chr8 44643301 44646152 -
Phac Phac2g04291 Chr2 41370061 41373201 -
Psa Psa7g0849 Chr7 62397775 62399618 +
Pste Pste3g01176 Chr3 7487757 7499502 +
Pte Pte3g00147 Chr3 1464057 1466079 -
Pvu Pvu2g2935 Chr2 44865293 44866721 -
Spst Spst3g01152 Chr3 14947460 14957601 +
Sto Sto4g0152 Chr4 1149749 1150978 +
Tpr Tpr3g0693 Chr3 6665406 6667034 +
Tsu Tsu02g00517 Chr02 4333097 4334597 +
Vvi Vvi1g1525 Chr1 21888386 21891049 +
Adu Adu04g03202 Chr04 120116807 120120487 +
Aed Aed3g0160 Chr3 1158042 1161939 -
Apr Apr4g2659 Chr4 35323764 35326588 +
Arst Arst4g04191 Chr4 120079918 120083662 +
Bva Bva06g01709 Chr06 11935041 11938305 -
Bva Bva05g00076 Chr05 381298 384122 +
Cca Cca07g02392 Chr07 52619787 52622783 +
Gma Gma02g00874 Chr02 8795849 8798229 -
Gso Gso2g0802 Chr2 8600698 8603825 -
Lal Lal18g0582 Chr18 4949605 4959326 +
Lapu Lapu1g01142 Chr1 24395618 24398586 -
Lasa Lasa3g00504 Chr3 35560277 35562310 +
Mepo Mepo3g00518 Chr3 7436637 7440332 +
Mesa Mesa25g04252 Chr25 76442840 76445989 -
Phco Phco3g03084 Chr3 56960301 56962864 +
Pste Pste5g00371 Chr5 2443298 2446261 -
Pumo Pumo5g00565 Chr5 11361126 11364079 -
Pvu Pvu8g0171 Chr8 1423425 1426436 -
Rops Rops8g00264 Chr8 5242550 5245149 -
Seca Seca2g00268 Chr2 3788381 3791670 -
Spst Spst1g01577 Chr1 19642001 19644533 +
Ssu Ssu3g0207 Chr3 3704491 3707014 -
Sto Sto3g2034 Chr3 16829632 16832366 +
Trre Trre13g00469 Chr13 3708420 3711366 +
Vian Vian2g00168 Chr2 1591991 1599479 -
Vifa Vifa1g00776 Chr1 129500073 129502187 +
Vimu Vimu6g01194 Chr6 12174151 12176628 +
Viun Viun5g00256 Chr5 1459234 1462214 -
Vra Vra4g1242 Chr4 19411119 19414092 +
Vvi Vvi1g1526 Chr1 21897745 21913173 -
Bva Bva06g01708 Chr06 11930447 11933503 +
Bva Bva05g00077 Chr05 384970 388148 -
Phco Phco4g03230 Chr4 52963135 52963829 -
Pte Pte12g00127 Chr12 1053992 1056529 -
Pvu Pvu2g2924 Chr2 44774062 44776072 -
Spst Spst3g01164 Chr3 15192518 15193045 +
Vimu Vimu11g04339 Chr11 64711642 64713799 -
Vvi Vvi1g1527 Chr1 21915511 21919488 +
Adu Adu04g03203 Chr04 120121250 120123766 +
Aed Aed3g0159 Chr3 1154239 1157527 -
Apr Apr4g2660 Chr4 35327764 35333597 +
Arst Arst4g04192 Chr4 120084362 120086811 +
Bva Bva06g01707 Chr06 11925902 11929586 -
Cca Cca07g02393 Chr07 52626972 52632044 +
Gma Gma02g00873 Chr02 8790436 8794461 -
Lal Lal6g1664 Chr6 19418491 19425534 +
Lan Lan8g0108 Chr8 1778794 1783345 -
Lapu Lapu1g01141 Chr1 24389219 24394047 -
Mepo Mepo3g00520 Chr3 7453922 7459126 +
Mesa Mesa25g04251 Chr25 76421691 76424983 -
Phac Phac8g00249 Chr8 1465953 1470674 -
Phco Phco3g03085 Chr3 56964850 56969348 +
Pste Pste5g00369 Chr5 2435859 2440530 -
Pumo Pumo5g00562 Chr5 11342343 11346305 -
Pvu Pvu8g0170 Chr8 1417234 1421777 -
Rops Rops8g00263 Chr8 5237098 5240988 -
Seca Seca2g00266 Chr2 3766662 3767780 -
Spst Spst1g01578 Chr1 19646737 19651307 +
Ssu Ssu3g0206 Chr3 3690650 3700492 -
Sto Sto3g2043 Chr3 16987799 16993606 +
Trre Trre13g00470 Chr13 3716735 3720175 +
Vifa Vifa1g00780 Chr1 129998501 130001307 +
Vimu Vimu6g01195 Chr6 12178210 12181609 +
Viun Viun5g00255 Chr5 1454237 1458013 -
Vra Vra4g1243 Chr4 19414966 19418997 +
Vvi Vvi1g1528 Chr1 21920862 21931349 -
Vvi Vvi1g1529 Chr1 21937512 21939198 -
Adu Adu04g03204 Chr04 120123992 120125368 -
Aed Aed3g0158 Chr3 1140288 1141253 +
Apr Apr4g2662 Chr4 35336152 35337273 -
Bva Bva06g01706 Chr06 11924069 11925629 +
Cca Cca07g02395 Chr07 52640783 52642015 -
Lal Lal6g1665 Chr6 19424389 19425507 -
Lan Lan8g0107 Chr8 1777130 1778436 +
Lapu Lapu1g01139 Chr1 24384819 24385295 +
Lasa Lasa3g00521 Chr3 37560133 37561182 -
Mepo Mepo3g00521 Chr3 7459345 7460775 -
Mesa Mesa25g04250 Chr25 76419707 76420999 +
Phac Phac8g00247 Chr8 1461028 1462174 +
Phco Phco3g03086 Chr3 56971753 56972730 -
Pste Pste5g00367 Chr5 2423586 2431077 +
Pvu Pvu8g0169 Chr8 1414917 1416190 +
Spst Spst1g01579 Chr1 19654142 19655170 -
Ssu Ssu3g0204 Chr3 3678567 3679535 +
Trre Trre13g00471 Chr13 3724346 3725494 -
Vimu Vimu6g01196 Chr6 12183196 12184146 -
Vra Vra4g1245 Chr4 19424370 19425426 -
Vvi Vvi1g1530 Chr1 21941247 21943211 -
Lja Lja4g0466 Chr4 3807061 3809243 +
Mal Mal7g4877 Chr7 117351783 117353517 -
Mtr Mtr8g3408 Chr8 44643301 44646152 -
Psa Psa7g0849 Chr7 62397775 62399618 +
Tpr Tpr3g0693 Chr3 6665406 6667034 +
Tsu Tsu02g00517 Chr02 4333097 4334597 +
Adu Adu03g02855 Chr03 107972826 107973694 -
Arst Arst3g03774 Chr3 106698638 106700224 -
Lapu Lapu3g03542 Chr3 58832595 58835190 -
Mal Mal7g4878 Chr7 117355521 117356953 -
Mtr Mtr8g3409 Chr8 44663852 44665494 -
Phac Phac2g04291 Chr2 41370061 41373201 -
Pste Pste3g01176 Chr3 7487757 7499502 +
Pte Pte3g00147 Chr3 1464057 1466079 -
Pvu Pvu2g2935 Chr2 44865293 44866721 -
Spst Spst3g01152 Chr3 14947460 14957601 +
Sto Sto4g0152 Chr4 1149749 1150978 +
Tpr Tpr3g0692 Chr3 6660342 6663109 +
Tsu Tsu02g00515 Chr02 4323785 4326574 +