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
Vvi3g0433 . . . . . . . . Aev03g0257 . Ahy20g1605 . Aip10g01877 . . . . . Apr3g1635 . . . . . . . Bva13g00313 . Car06g01751 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3334 . . . . . . . Mtr4g2769 . . . . Phco8g02937 . . Psa7g2915 . . . . . . . . . . Pvu3g0492 . . . . . Spst3g02211 . . . Sto10g0279 Tpr2g3605 . . . Tsu02g03304 . . . . . . Vimu11g01224 . . . . . .
Vvi3g0434 . . . . . . . . Aev03g0256 Aev05g0664 Ahy20g1600 Ahy15g0622 Aip10g01872 Aip05g00625 . . Amo20g1847 . Apr3g1636 . . . . . . . Bva13g00312 Bva14g00391 Car06g01750 Car08g00480 . . . . . Dod02g0727 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0320 Mal7g3335 . . . . . . . Mtr4g2770 . . . . Phco8g02936 . . Psa7g2914 . . . . . . . . . . Pvu3g0493 . . . . . Spst3g02210 . . . Sto10g0278 Tpr2g3604 . . . Tsu02g03305 . . . . . . . . . . . . .
Vvi3g0435 . Acco11g2110 . Accr9g00358 . Adu05g00651 . . . Aev05g0663 . Ahy15g0623 . Aip05g00626 . Alju09g2107 . . . . . Arst5g00832 . . . Bisa11g1475 . . . . . . . Dere09g0713 . Dod02g0726 . Enph13g1051 . Glsi05g1617 . . . . . . . . . . . . . . . . . . . . . Lapu2g00549 . . . . . . Lele49g0288 . Lele51g0299 Lele52g0313 . Lja2g0321 . . . . . . . Mibi12g1823 . . . . . Phco4g01128 . Prci10g0474 . . . Pste1g02303 . . . . . Pumo8g01969 . Pvu2g0173 . Rops1g01800 . Seca10g00732 . Spst2g00661 . . . . . . . . . . . Vian10g00574 . . . Vimu7g02803 . Viun2g02124 . . . .
Vvi3g0436 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00311 Bva14g00390 . Car08g00009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0277 . . . . . . . . . . . . . . . . . .
Vvi3g0437 . . . . . . . . Aev03g0255 . Ahy20g1599 . Aip10g01871 . . . . . Apr3g1637 . . . . . . . Bva13g00310 Bva14g00389 Car06g01745 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3336 . . Mepo1g02630 . Mesa29g02823 . . Mtr4g2771 . . . . . . . Psa7g2913 . . . . . . . . . . Pvu3g0494 . . . . . Spst3g02209 . . Sto2g0582 Sto10g0273 Tpr2g3603 . . Trre15g02055 Tsu02g03306 . . . . . . . . . . . . .
Vvi3g0438 . . . . . . . . . . . . Aip10g01867 . . . . . Apr3g1638 . . . . . . . Bva13g00309 Bva14g00388 Car06g01744 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3337 . . . . . . . Mtr4g2772 . . . . Phco8g02934 . . Psa7g2912 . . . . . . Pte12g01260 . . . Pvu3g0495 . . . . . Spst3g02208 . . Sto2g0585 Sto10g0272 Tpr2g3602 . . . Tsu02g03308 . . . . . . Vimu11g01222 . . . . . .
Vvi3g0439 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00387 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0270 . . . . . . . . . . . . . . . . . .
Vvi3g0440 . . . . . . . . Aev03g0253 . Ahy20g1594 . Aip10g01865 . . . Amo20g1828 . Apr3g1641 . . . . . . . Bva13g00308 Bva14g00386 Car06g01743 Car08g00484 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3338 . . . . . . . Mtr4g2773 . . . . . . . Psa7g2910 . . . . . . . . . . . . . . . . . . . Sto2g0586 Sto10g0269 Tpr2g3601 . . . Tsu02g03309 . . . . . . . . . . . . .
Vvi3g0441 . . . . . . . . Aev03g0252 . Ahy20g1593 . Aip10g01864 . . . Amo20g1826 . Apr3g1642 . . . . . . . . Bva14g00385 Car06g01742 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3341 . . . . . . . Mtr4g2775 . . . . Phco8g02929 . . Psa7g2909 . . . . . . . . . . Pvu3g0497 . . . . . Spst3g02205 . . Sto2g0588 Sto10g0267 . . . . . . . . . . . Vimu11g01219 . . . . . .
Vvi3g0442 . . . . . . . . Aev03g0251 . Ahy20g1610 . Aip10g01882 . . . . . Apr3g1643 . . . . . . . Bva13g00307 Bva14g00384 Car06g01741 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3342 . . . . . . . Mtr4g2776 . . . . Phco8g02928 . . . . . . . . . . . . . Pvu3g0498 . . . . . Spst3g02204 . . Sto2g0591 Sto10g0264 Tpr2g3599 . . . Tsu02g03313 . . . . . . Vimu11g01217 . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev03g0251 Chr03 1938622 1939866 +
Ahy Ahy20g1610 Chr20 60403717 60406014 -
Aip Aip10g01882 Chr10 57332769 57334564 -
Vvi Vvi3g0433 Chr3 3628918 3643243 -
Aev Aev03g0257 Chr03 1973088 1978558 +
Ahy Ahy20g1605 Chr20 59697368 59702744 +
Aip Aip10g01877 Chr10 55424133 55430052 +
Apr Apr3g1635 Chr3 31817118 31824969 -
Bva Bva13g00313 Chr13 1477749 1483564 +
Car Car06g01751 Chr06 17331174 17338000 +
Mal Mal7g3334 Chr7 98034223 98039481 -
Mtr Mtr4g2769 Chr4 41384443 41391481 -
Phco Phco8g02937 Chr8 43203998 43210231 +
Psa Psa7g2915 Chr7 209012188 209018904 +
Pvu Pvu3g0492 Chr3 5665489 5673351 -
Spst Spst3g02211 Chr3 61939727 61946024 +
Sto Sto10g0279 Chr10 2246185 2247595 +
Tpr Tpr2g3605 Chr2 39151902 39158530 +
Tsu Tsu02g03304 Chr02 36965738 36972867 -
Vimu Vimu11g01224 Chr11 13363302 13369928 -
Vvi Vvi3g0434 Chr3 3656583 3664516 +
Aev Aev03g0256 Chr03 1965134 1968838 -
Aev Aev05g0664 Chr05 4608070 4611724 -
Ahy Ahy20g1600 Chr20 58699611 58704589 -
Ahy Ahy15g0622 Chr15 7994545 7999744 +
Aip Aip10g01872 Chr10 54508671 54513647 -
Aip Aip05g00625 Chr05 7728718 7733861 +
Amo Amo20g1847 Chr20 63475997 63481015 -
Apr Apr3g1636 Chr3 31852807 31858572 +
Bva Bva13g00312 Chr13 1470734 1475988 -
Bva Bva14g00391 Chr14 1939774 1945153 -
Car Car06g01750 Chr06 17311934 17316204 -
Car Car08g00480 Chr08 4036737 4041662 +
Dod Dod02g0727 Chr02 9424095 9429692 -
Lja Lja2g0320 Chr2 2888681 2893014 +
Mal Mal7g3335 Chr7 98055841 98059327 +
Mtr Mtr4g2770 Chr4 41399966 41404732 +
Phco Phco8g02936 Chr8 43182160 43185956 -
Psa Psa7g2914 Chr7 208775110 208779332 -
Pvu Pvu3g0493 Chr3 5690505 5695482 +
Spst Spst3g02210 Chr3 61903919 61907680 -
Sto Sto10g0278 Chr10 2229996 2234220 -
Tpr Tpr2g3604 Chr2 39140456 39145155 -
Tsu Tsu02g03305 Chr02 36997355 37002044 +
Vvi Vvi3g0435 Chr3 3665117 3668086 -
Acco Acco11g2110 Chr11 35109166 35112065 -
Accr Accr9g00358 Chr9 4024314 4027214 +
Adu Adu05g00651 Chr05 7387420 7389596 -
Aev Aev05g0663 Chr05 4605421 4607534 +
Ahy Ahy15g0623 Chr15 7999979 8002190 -
Aip Aip05g00626 Chr05 7734077 7736293 -
Alju Alju09g2107 Chr09 44644028 44646915 -
Arst Arst5g00832 Chr5 7411619 7413768 -
Bisa Bisa11g1475 Chr11 34608539 34611600 -
Dere Dere09g0713 Chr09 9808073 9811436 -
Dod Dod02g0726 Chr02 9421058 9423510 +
Enph Enph13g1051 Chr13 16466681 16470309 +
Glsi Glsi05g1617 Chr05 64506347 64509342 +
Lapu Lapu2g00549 Chr2 4749728 4752181 -
Lele Lele49g0288 Chr49 1700716 1703777 +
Lele Lele51g0299 Chr51 1697698 1700750 +
Lele Lele52g0313 Chr52 1836804 1837467 +
Lja Lja2g0321 Chr2 2893819 2896306 -
Mibi Mibi12g1823 Chr12 34457891 34460878 -
Phco Phco4g01128 Chr4 9185351 9187429 +
Prci Prci10g0474 Chr10 3286286 3290042 +
Pste Pste1g02303 Chr1 7938261 7939857 -
Pumo Pumo8g01969 Chr8 56313802 56316232 +
Pvu Pvu2g0173 Chr2 1892598 1895103 -
Rops Rops1g01800 Chr1 37177718 37180276 +
Seca Seca10g00732 Chr10 6855527 6858838 -
Spst Spst2g00661 Chr2 5483071 5485169 -
Vian Vian10g00574 Chr10 5422568 5424623 -
Vimu Vimu7g02803 Chr7 23605840 23607173 -
Viun Viun2g02124 Chr2 29354546 29356926 +
Vvi Vvi3g0436 Chr3 3675715 3678053 -
Bva Bva13g00311 Chr13 1467796 1470733 +
Bva Bva14g00390 Chr14 1935932 1939300 +
Car Car08g00009 Chr08 162065 164627 +
Sto Sto10g0277 Chr10 2221980 2228843 +
Vvi Vvi3g0437 Chr3 3718260 3718694 -
Aev Aev03g0255 Chr03 1963857 1964291 +
Ahy Ahy20g1599 Chr20 58697924 58698693 +
Aip Aip10g01871 Chr10 54507055 54507948 +
Apr Apr3g1637 Chr3 31859958 31861651 -
Bva Bva13g00310 Chr13 1465105 1465841 -
Bva Bva14g00389 Chr14 1934317 1935153 -
Car Car06g01745 Chr06 17288602 17288901 +
Mal Mal7g3336 Chr7 98062900 98063331 -
Mepo Mepo1g02630 Chr1 27704960 27707495 +
Mesa Mesa29g02823 Chr29 39121843 39124106 +
Mtr Mtr4g2771 Chr4 41407195 41407954 -
Psa Psa7g2913 Chr7 208773549 208773980 +
Pvu Pvu3g0494 Chr3 5700370 5700810 -
Spst Spst3g02209 Chr3 61895499 61895939 +
Sto Sto2g0582 Chr2 4927999 4928445 +
Sto Sto10g0273 Chr10 2205179 2205625 -
Tpr Tpr2g3603 Chr2 39138055 39138824 +
Trre Trre15g02055 Chr15 16682217 16684375 +
Tsu Tsu02g03306 Chr02 37004165 37004691 -
Vvi Vvi3g0438 Chr3 3734066 3735168 -
Aip Aip10g01867 Chr10 53837271 53846166 -
Apr Apr3g1638 Chr3 31868736 31871079 -
Bva Bva13g00309 Chr13 1462146 1463562 +
Bva Bva14g00388 Chr14 1931821 1933950 +
Car Car06g01744 Chr06 17283222 17284882 +
Mal Mal7g3337 Chr7 98067661 98068849 -
Mtr Mtr4g2772 Chr4 41412001 41413536 -
Phco Phco8g02934 Chr8 43165877 43173094 +
Psa Psa7g2912 Chr7 208764345 208766181 +
Pte Pte12g01260 Chr12 34753616 34755966 -
Pvu Pvu3g0495 Chr3 5702889 5704695 -
Spst Spst3g02208 Chr3 61881827 61888555 +
Sto Sto2g0585 Chr2 4946527 4950032 -
Sto Sto10g0272 Chr10 2198424 2201187 +
Tpr Tpr2g3602 Chr2 39133409 39135234 +
Tsu Tsu02g03308 Chr02 37020526 37022256 -
Vimu Vimu11g01222 Chr11 13340556 13341924 +
Vvi Vvi3g0439 Chr3 3739263 3740627 -
Bva Bva14g00387 Chr14 1928111 1931212 +
Sto Sto10g0270 Chr10 2182677 2183963 +
Vvi Vvi3g0440 Chr3 3768918 3782237 +
Aev Aev03g0253 Chr03 1952529 1960100 -
Ahy Ahy20g1594 Chr20 57216837 57222017 -
Aip Aip10g01865 Chr10 53116273 53121691 -
Amo Amo20g1828 Chr20 61538081 61543717 -
Apr Apr3g1641 Chr3 31891523 31902951 +
Bva Bva13g00308 Chr13 1453197 1458374 -
Bva Bva14g00386 Chr14 1920363 1925687 -
Car Car06g01743 Chr06 17263383 17268059 -
Car Car08g00484 Chr08 4069448 4072684 +
Mal Mal7g3338 Chr7 98096817 98099879 +
Mtr Mtr4g2773 Chr4 41431268 41436516 +
Psa Psa7g2910 Chr7 208558973 208570123 -
Sto Sto2g0586 Chr2 4958675 4961783 +
Sto Sto10g0269 Chr10 2168095 2173157 -
Tpr Tpr2g3601 Chr2 39119002 39123515 -
Tsu Tsu02g03309 Chr02 37037878 37042802 +
Vvi Vvi3g0441 Chr3 3785857 3788100 +
Aev Aev03g0252 Chr03 1943709 1946707 -
Ahy Ahy20g1593 Chr20 57185426 57189749 -
Aip Aip10g01864 Chr10 53088992 53091974 -
Amo Amo20g1826 Chr20 61507070 61511046 -
Apr Apr3g1642 Chr3 31919562 31922580 +
Bva Bva14g00385 Chr14 1915673 1918355 -
Car Car06g01742 Chr06 17251462 17253980 -
Mal Mal7g3341 Chr7 98154940 98157274 +
Mtr Mtr4g2775 Chr4 41455991 41458314 +
Phco Phco8g02929 Chr8 43126612 43134415 -
Psa Psa7g2909 Chr7 208520922 208522914 -
Pvu Pvu3g0497 Chr3 5726997 5730941 +
Spst Spst3g02205 Chr3 61789640 61792956 -
Sto Sto2g0588 Chr2 4973271 4975348 +
Sto Sto10g0267 Chr10 2157354 2159178 -
Vimu Vimu11g01219 Chr11 13288188 13292818 -
Vvi Vvi3g0442 Chr3 3794545 3795792 -
Aev Aev03g0251 Chr03 1938622 1939866 +
Ahy Ahy20g1610 Chr20 60403717 60406014 -
Aip Aip10g01882 Chr10 57332769 57334564 -
Apr Apr3g1643 Chr3 31936954 31938601 -
Bva Bva13g00307 Chr13 1447328 1448992 +
Bva Bva14g00384 Chr14 1912673 1914260 +
Car Car06g01741 Chr06 17230801 17232815 +
Mal Mal7g3342 Chr7 98173648 98174880 -
Mtr Mtr4g2776 Chr4 41472007 41473674 -
Phco Phco8g02928 Chr8 43120919 43122160 +
Pvu Pvu3g0498 Chr3 5743206 5744447 -
Spst Spst3g02204 Chr3 61718431 61719672 +
Sto Sto2g0591 Chr2 4994708 4996366 -
Sto Sto10g0264 Chr10 2137658 2138917 +
Tpr Tpr2g3599 Chr2 39097156 39099077 +
Tsu Tsu02g03313 Chr02 37092467 37094717 -
Vimu Vimu11g01217 Chr11 13282438 13287584 +
Aev Aev05g0664 Chr05 4608070 4611724 -
Ahy Ahy15g0622 Chr15 7994545 7999744 +
Aip Aip05g00625 Chr05 7728718 7733861 +
Car Car08g00480 Chr08 4036737 4041662 +
Dod Dod02g0727 Chr02 9424095 9429692 -
Lja Lja2g0320 Chr2 2888681 2893014 +
Acco Acco11g2110 Chr11 35109166 35112065 -
Accr Accr9g00358 Chr9 4024314 4027214 +
Adu Adu05g00651 Chr05 7387420 7389596 -
Aev Aev05g0663 Chr05 4605421 4607534 +
Ahy Ahy15g0623 Chr15 7999979 8002190 -
Aip Aip05g00626 Chr05 7734077 7736293 -
Alju Alju09g2107 Chr09 44644028 44646915 -
Arst Arst5g00832 Chr5 7411619 7413768 -
Bisa Bisa11g1475 Chr11 34608539 34611600 -
Dere Dere09g0713 Chr09 9808073 9811436 -
Dod Dod02g0726 Chr02 9421058 9423510 +
Enph Enph13g1051 Chr13 16466681 16470309 +
Glsi Glsi05g1617 Chr05 64506347 64509342 +
Lapu Lapu2g00549 Chr2 4749728 4752181 -
Lele Lele49g0288 Chr49 1700716 1703777 +
Lele Lele51g0299 Chr51 1697698 1700750 +
Lele Lele52g0313 Chr52 1836804 1837467 +
Lja Lja2g0321 Chr2 2893819 2896306 -
Mibi Mibi12g1823 Chr12 34457891 34460878 -
Phco Phco4g01128 Chr4 9185351 9187429 +
Prci Prci10g0474 Chr10 3286286 3290042 +
Pste Pste1g02303 Chr1 7938261 7939857 -
Pumo Pumo8g01969 Chr8 56313802 56316232 +
Pvu Pvu2g0173 Chr2 1892598 1895103 -
Rops Rops1g01800 Chr1 37177718 37180276 +
Seca Seca10g00732 Chr10 6855527 6858838 -
Spst Spst2g00661 Chr2 5483071 5485169 -
Vian Vian10g00574 Chr10 5422568 5424623 -
Vimu Vimu7g02803 Chr7 23605840 23607173 -
Viun Viun2g02124 Chr2 29354546 29356926 +
Car Car08g00484 Chr08 4069448 4072684 +