Hierarchical alignments with the P. vulgaris 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 Pvu Acco Accr Adu Aed Aev Ahy_1 Ahy_2 Aip Alju Amo_1 Amo_2 Apr Arst Bach Bisa Bva Car Cca Dere Dod Enph Glsi Gma_1 Gma_2 Gso_1 Gso_2 Lal_1 Lal_2 Lal_3 Lan_1 Lan_2 Lan_3 Lapu Lasa Lele_1 Lele_2 Lele_3 Lele_4 Lja Mal Mepo Mesa Mibi Mtr Phac Phco Prci Psa Pste Pumo Rops Seca Spst Ssu Sto Tpr Trre Tsu Vian Vifa Vimu Viun Vivi Vra
Pvu9g2638 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g2639 . . . . . . . . . . . Apr1g2080 . . . . . . . . . . . Gma09g00340 . . . . . . . . . . . . . . Lja6g2306 . . . . . . Phco7g03012 . . . . . . . . . . . . . . . . . .
Pvu9g2640 . . . . . . . . . . . . . . . . . . . . . . Gma15g01333 Gma09g00339 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vimu10g00114 . . Vra5g0072
Pvu9g2641 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g2642 . . . . . . . . . . . . . . . . . Cca08g01748 . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g03014 . . . . . . . . . . . . Vian4g00070 . Vimu10g00113 . . .
Pvu9g2643 . . . . . . . . . Amo14g1350 Amo04g0018 Apr1g2079 Arst4g01282 . . . . . . . . . . Gma09g00338 . Gso9g0321 . . . . . . . . . . . . . . . . . . . Phco7g03015 . . . . . . . . . . . . . . Vimu10g00112 . . Vra5g0071
Pvu9g2644 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g03017 . . . . . . . . . . . . . . Vimu10g00110 . . .
Pvu9g2645 . . Adu04g00867 . Aev04g1089 Ahy14g0947 Ahy4g0854 Aip04g01035 . Amo14g1349 Amo04g0019 Apr1g2078 Arst4g01280 Bach2g01260 . Bva06g00290 Car01g00947 Cca08g01751 . Dod03g1235 . . Gma15g01332 Gma09g00337 Gso15g1187 Gso9g0320 . . . . Lan16g0204 . Lapu9g00064 Lasa1g01480 . . . . Lja6g2307 Mal4g3766 Mepo6g01390 Mesa5g03248 . Mtr2g1223 . Phco7g03018 . . Pste2g03066 Pumo2g01301 . Seca6g04070 . Ssu1g1246 . Tpr5g2811 Trre3g01606 Tsu07g01751 Vian4g00065 . Vimu10g00109 Viun9g00085 Vivi4g02870 Vra5g0070
Pvu9g2646 . . Adu04g00865 . Aev04g1088 Ahy14g0946 Ahy4g0852 Aip04g01033 . . Amo04g0020 Apr1g2077 Arst4g01278 Bach2g01261 . Bva06g00291 Car01g00946 . . Dod03g1234 . . Gma15g01331 Gma09g00336 Gso15g1186 Gso9g0319 . . . . Lan16g0205 . Lapu9g00063 Lasa1g01479 . . . . Lja6g2308 Mal4g3767 Mepo6g01389 Mesa5g03249 . Mtr2g1222 . . . Psa1g3691 Pste2g03063 . . . . Ssu1g1245 . Tpr5g2810 Trre3g01605 Tsu07g01750 . . Vimu10g00108 . Vivi4g02872 Vra5g0069
Pvu9g2647 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vivi Vivi4g02870 Chr4 134930488 134932425 +
Pvu Pvu9g2638 Chr9 36838913 36839437 +
Pvu Pvu9g2639 Chr9 36841162 36842238 +
Apr Apr1g2080 Chr1 30334627 30335531 -
Gma Gma09g00340 Chr09 3184422 3185195 -
Lja Lja6g2306 Chr6 51999659 52000626 +
Phco Phco7g03012 Chr7 48795785 48796939 -
Pvu Pvu9g2640 Chr9 36842951 36843934 +
Gma Gma15g01333 Chr15 11840411 11842671 -
Gma Gma09g00339 Chr09 3173665 3174136 -
Vimu Vimu10g00114 Chr10 636541 637443 -
Vra Vra5g0072 Chr5 565704 567783 -
Pvu Pvu9g2641 Chr9 36856455 36857457 +
Pvu Pvu9g2642 Chr9 36865907 36866938 +
Cca Cca08g01748 Chr08 49448465 49449327 +
Phco Phco7g03014 Chr7 48812064 48812966 +
Vian Vian4g00070 Chr4 630645 631553 -
Vimu Vimu10g00113 Chr10 631787 632593 -
Pvu Pvu9g2643 Chr9 36885123 36886332 +
Amo Amo14g1350 Chr14 22254499 22255670 -
Amo Amo04g0018 Chr04 230900 231935 +
Apr Apr1g2079 Chr1 30330208 30331070 -
Arst Arst4g01282 Chr4 13451866 13452795 -
Gma Gma09g00338 Chr09 3171655 3172476 -
Gso Gso9g0321 Chr9 3092351 3093608 -
Phco Phco7g03015 Chr7 48817071 48817808 +
Vimu Vimu10g00112 Chr10 627936 628808 -
Vra Vra5g0071 Chr5 557608 558607 -
Pvu Pvu9g2644 Chr9 36896548 36897494 +
Phco Phco7g03017 Chr7 48829309 48830064 +
Vimu Vimu10g00110 Chr10 625043 625819 -
Pvu Pvu9g2645 Chr9 36901413 36903915 +
Adu Adu04g00867 Chr04 13476621 13478323 -
Aev Aev04g1089 Chr04 6826387 6828313 -
Ahy Ahy14g0947 Chr14 15619654 15621849 -
Ahy Ahy4g0854 Chr4 14153073 14154902 -
Aip Aip04g01035 Chr04 14864253 14866002 -
Amo Amo14g1349 Chr14 22247399 22252001 -
Amo Amo04g0019 Chr04 243698 248289 +
Apr Apr1g2078 Chr1 30320202 30322542 -
Arst Arst4g01280 Chr4 13435806 13437920 -
Bach Bach2g01260 Chr2 22049837 22052283 +
Bva Bva06g00290 Chr06 4405377 4408418 +
Car Car01g00947 Chr01 8821891 8824681 -
Cca Cca08g01751 Chr08 49474646 49477783 +
Dod Dod03g1235 Chr03 15637490 15640328 -
Gma Gma15g01332 Chr15 11833032 11835902 -
Gma Gma09g00337 Chr09 3164946 3167587 -
Gso Gso15g1187 Chr15 11769711 11772175 -
Gso Gso9g0320 Chr9 3082671 3085175 -
Lan Lan16g0204 Chr16 1605431 1607703 +
Lapu Lapu9g00064 Chr9 515194 517997 -
Lasa Lasa1g01480 Chr1 127763003 127765390 -
Lja Lja6g2307 Chr6 52001942 52004860 +
Mal Mal4g3766 Chr4 110495156 110497832 +
Mepo Mepo6g01390 Chr6 15061819 15064796 -
Mesa Mesa5g03248 Chr5 58255279 58257848 +
Mtr Mtr2g1223 Chr2 13259368 13262315 -
Phco Phco7g03018 Chr7 48832406 48834422 +
Pste Pste2g03066 Chr2 30644123 30647080 -
Pumo Pumo2g01301 Chr2 19126690 19129464 -
Seca Seca6g04070 Chr6 108440119 108443133 +
Ssu Ssu1g1246 Chr1 27585160 27587269 -
Tpr Tpr5g2811 Chr5 51115232 51117779 -
Trre Trre3g01606 Chr3 12761496 12763805 -
Tsu Tsu07g01751 Chr07 17272358 17275646 -
Vian Vian4g00065 Chr4 595814 596696 -
Vimu Vimu10g00109 Chr10 622380 623180 -
Viun Viun9g00085 Chr9 516877 519181 -
Vivi Vivi4g02870 Chr4 134930488 134932425 +
Vra Vra5g0070 Chr5 550983 553591 -
Pvu Pvu9g2646 Chr9 36906228 36927937 -
Adu Adu04g00865 Chr04 13459284 13472689 +
Aev Aev04g1088 Chr04 6805107 6825181 +
Ahy Ahy14g0946 Chr14 15604758 15618724 +
Ahy Ahy4g0852 Chr4 14135154 14149129 +
Aip Aip04g01033 Chr04 14846904 14859952 +
Amo Amo04g0020 Chr04 249422 262389 -
Apr Apr1g2077 Chr1 30298610 30318550 +
Arst Arst4g01278 Chr4 13421547 13435133 +
Bach Bach2g01261 Chr2 22052922 22073576 -
Bva Bva06g00291 Chr06 4408865 4422298 -
Car Car01g00946 Chr01 8795248 8820924 +
Dod Dod03g1234 Chr03 15619491 15636651 +
Gma Gma15g01331 Chr15 11803772 11828778 +
Gma Gma09g00336 Chr09 3141991 3159906 +
Gso Gso15g1186 Chr15 11740884 11765730 +
Gso Gso9g0319 Chr9 3059003 3079896 +
Lan Lan16g0205 Chr16 1608533 1625952 -
Lapu Lapu9g00063 Chr9 488915 513097 +
Lasa Lasa1g01479 Chr1 127673076 127700029 +
Lja Lja6g2308 Chr6 52005767 52022332 -
Mal Mal4g3767 Chr4 110501261 110520066 -
Mepo Mepo6g01389 Chr6 15043375 15058433 +
Mesa Mesa5g03249 Chr5 58260704 58276776 -
Mtr Mtr2g1222 Chr2 13237021 13256661 +
Psa Psa1g3691 Chr1 310634928 310659894 +
Pste Pste2g03063 Chr2 30609671 30626330 +
Ssu Ssu1g1245 Chr1 27560298 27577725 +
Tpr Tpr5g2810 Chr5 51095552 51113685 +
Trre Trre3g01605 Chr3 12746746 12759793 +
Tsu Tsu07g01750 Chr07 17254078 17271894 +
Vimu Vimu10g00108 Chr10 601844 618556 +
Vivi Vivi4g02872 Chr4 134948207 134968552 -
Vra Vra5g0069 Chr5 529112 549229 +
Pvu Pvu9g2647 Chr9 36938335 36938921 -