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
Pvu1g0051 . . . . . . . . . . Amo06g0866 . . . . . . . . . . . . . . . . Lal25g0528 Lal10g0886 . Lan5g0452 Lan3g0439 . . . . . . . . . . . . . Phco2g00057 . . . . . . Spst8g02031 . . . . . . . . . . Vra6g2022
Pvu1g0052 . . . . . . . . . . Amo06g0865 . . . . . . . . . . . . . . . . . . . . . . Lasa6g00288 . . . . . . . . . . . Phco2g00058 . . . . . . Spst8g02030 . . . . . . . . . Vivi3g00623 Vra6g2023
Pvu1g0053 Acco05g2979 . Adu06g01286 . . . . Aip06g00045 Alju07g2938 . Amo06g0864 . Arst6g01700 . Bisa05g0606 . . . Dere05g2813 . . . . . . . . . . . . . . Lasa5g04534 . . . . . . . . Mibi08g2609 . . Phco2g00059 Prci2g0093 . Pste8g01403 . . . Spst8g02029 Ssu5g0055 Sto5g0129 . . . . . . . . Vra6g2024
Pvu1g0054 Acco05g2976 Accr3g00080 Adu06g01285 . . . Ahy6g1286 Aip06g00046 Alju07g2937 . Amo06g0863 . Arst6g01699 . Bisa05g0608 . . . Dere05g2810 . Enph7g1482 Glsi10g0124 . . . . Lal8g0531 . . Lan10g0515 . . . Lasa6g00285 . . . . . . Mepo4g01889 Mesa1g00037 Mibi08g2608 Mtr1g0723 . Phco2g00060 Prci2g0094 . Pste8g01399 . . . Spst8g02028 Ssu5g0056 Sto5g0130 . . . . . . . . Vra6g2025
Pvu1g0055 . . . . . . . . . . . . . Bach3g02419 . Bva10g00930 Car04g03592 Cca05g00379 . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00061 . . . . . Seca8g04053 Spst8g02027 . . Tpr1g3882 . . Vian7g00914 Vifa3g05203 . Viun8g00087 . Vra6g2026
Pvu1g0056 . . . . . Ahy16g0051 . . . . Amo06g0862 Apr9g0642 . . . . . Cca05g00377 . Dod08g2285 . . Gma17g02470 Gma14g02142 Gso14g1857 Gso17g2194 . . . . . . . . . . . . . Mal1g6098 . . . . . Phco2g00062 . Psa6g0052 . Pumo9g00059 . Seca4g00410 Spst8g02025 . . . . . Vian7g00913 . . Viun8g00098 . Vra6g2027
Pvu1g0057 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lan3g1274 . . . . . . Lja5g3330 . . . . . . Phco2g00063 . . . . . . Spst8g02024 . . . . . . . . . Vivi4g05928 Vra6g2028
Pvu1g0058 . . . . Aev07g0677 . . . . . Amo06g0860 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g6088 . . . . . Phco2g00065 . . . . . . Spst8g02023 . . . . Tsu01g00187 . . . . . Vra6g2029
Pvu1g0059 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00067 . . . . . . . . . . . . . . . . . .
Pvu1g0060 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00068 . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu1g0051 Chr1 423928 426428 -
Amo Amo06g0866 Chr06 11905351 11909094 +
Lal Lal25g0528 Chr25 3788007 3791138 +
Lal Lal10g0886 Chr10 16358901 16362207 -
Lan Lan5g0452 Chr5 9852093 9855236 -
Lan Lan3g0439 Chr3 3833101 3835971 +
Phco Phco2g00057 Chr2 604915 606981 -
Spst Spst8g02031 Chr8 28010102 28013241 +
Vra Vra6g2022 Chr6 36821043 36823484 -
Pvu Pvu1g0052 Chr1 429903 435392 +
Amo Amo06g0865 Chr06 11890807 11895772 -
Lasa Lasa6g00288 Chr6 8722114 8726272 -
Phco Phco2g00058 Chr2 609675 614283 +
Spst Spst8g02030 Chr8 27995611 28001176 -
Vivi Vivi3g00623 Chr3 10421712 10426795 +
Vra Vra6g2023 Chr6 36826562 36831373 +
Pvu Pvu1g0053 Chr1 438937 441350 +
Acco Acco05g2979 Chr05 44404532 44406276 +
Adu Adu06g01286 Chr06 17500043 17507038 +
Aip Aip06g00045 Chr06 379097 380588 -
Alju Alju07g2938 Chr07 54441104 54442539 +
Amo Amo06g0864 Chr06 11874437 11876376 -
Arst Arst6g01700 Chr6 17534788 17536144 +
Bisa Bisa05g0606 Chr05 10037357 10038837 -
Dere Dere05g2813 Chr05 38789389 38790756 +
Lasa Lasa5g04534 Chr5 670795244 670796543 +
Mibi Mibi08g2609 Chr08 43838860 43840896 +
Phco Phco2g00059 Chr2 619177 620939 +
Prci Prci2g0093 Chr2 786800 788625 -
Pste Pste8g01403 Chr8 7654656 7656182 +
Spst Spst8g02029 Chr8 27956428 27958486 -
Ssu Ssu5g0055 Chr5 1017690 1019325 -
Sto Sto5g0129 Chr5 756751 757598 -
Vra Vra6g2024 Chr6 36834956 36837663 +
Pvu Pvu1g0054 Chr1 458580 460919 +
Acco Acco05g2976 Chr05 44395361 44398080 +
Accr Accr3g00080 Chr3 1031260 1032499 -
Adu Adu06g01285 Chr06 17492888 17495303 +
Ahy Ahy6g1286 Chr6 19412144 19414983 +
Aip Aip06g00046 Chr06 386238 388835 -
Alju Alju07g2937 Chr07 54433431 54434601 +
Amo Amo06g0863 Chr06 11867132 11868622 -
Arst Arst6g01699 Chr6 17534788 17537085 +
Bisa Bisa05g0608 Chr05 10054716 10056056 -
Dere Dere05g2810 Chr05 38759550 38760876 -
Enph Enph7g1482 Chr7 20021026 20024250 +
Glsi Glsi10g0124 Chr10 934789 941001 -
Lal Lal8g0531 Chr8 3628132 3630171 -
Lan Lan10g0515 Chr10 4113464 4116484 -
Lasa Lasa6g00285 Chr6 8703625 8706392 -
Mepo Mepo4g01889 Chr4 24171439 24173966 +
Mesa Mesa1g00037 Chr1 539691 541638 -
Mibi Mibi08g2608 Chr08 43828658 43831833 +
Mtr Mtr1g0723 Chr1 8185282 8187469 +
Phco Phco2g00060 Chr2 626894 628382 +
Prci Prci2g0094 Chr2 786800 788625 -
Pste Pste8g01399 Chr8 7629654 7632603 +
Spst Spst8g02028 Chr8 27915835 27917321 -
Ssu Ssu5g0056 Chr5 1047330 1050412 -
Sto Sto5g0130 Chr5 764024 765267 -
Vra Vra6g2025 Chr6 36843393 36845604 +
Pvu Pvu1g0055 Chr1 462621 467321 -
Bach Bach3g02419 Chr3 30454631 30459649 -
Bva Bva10g00930 Chr10 6987875 6993014 -
Car Car04g03592 Chr04 65149274 65154278 -
Cca Cca05g00379 Chr05 8288088 8291914 -
Phco Phco2g00061 Chr2 630603 637621 -
Seca Seca8g04053 Chr8 116061500 116066600 -
Spst Spst8g02027 Chr8 27887561 27892106 +
Tpr Tpr1g3882 Chr1 42940956 42946156 -
Vian Vian7g00914 Chr7 17415777 17419780 +
Vifa Vifa3g05203 Chr3 1520332363 1520336903 -
Viun Viun8g00087 Chr8 439860 444595 -
Vra Vra6g2026 Chr6 36847990 36852698 -
Pvu Pvu1g0056 Chr1 471470 472128 +
Ahy Ahy16g0051 Chr16 460131 460478 -
Amo Amo06g0862 Chr06 11848448 11849127 -
Apr Apr9g0642 Chr9 10438403 10439317 +
Cca Cca05g00377 Chr05 8266707 8267622 +
Dod Dod08g2285 Chr08 50894969 50896570 +
Gma Gma17g02470 Chr17 42737001 42737563 +
Gma Gma14g02142 Chr14 52577847 52578328 +
Gso Gso14g1857 Chr14 50999501 51000313 +
Gso Gso17g2194 Chr17 41648549 41649793 +
Mal Mal1g6098 Chr1 139881107 139881448 +
Phco Phco2g00062 Chr2 638198 638545 +
Psa Psa6g0052 Chr6 1572564 1573657 -
Pumo Pumo9g00059 Chr9 921837 922663 -
Seca Seca4g00410 Chr4 6700366 6700692 -
Spst Spst8g02025 Chr8 27844221 27845391 -
Vian Vian7g00913 Chr7 17402920 17403267 -
Viun Viun8g00098 Chr8 561979 562507 +
Vra Vra6g2027 Chr6 36860343 36860904 +
Pvu Pvu1g0057 Chr1 474133 477911 -
Lan Lan3g1274 Chr3 24793602 24798988 -
Lja Lja5g3330 Chr5 64740917 64748764 -
Phco Phco2g00063 Chr2 641788 644952 -
Spst Spst8g02024 Chr8 27834617 27837778 +
Vivi Vivi4g05928 Chr4 196371554 196376816 -
Vra Vra6g2028 Chr6 36862993 36869924 -
Pvu Pvu1g0058 Chr1 482995 488112 -
Aev Aev07g0677 Chr07 4301440 4306118 +
Amo Amo06g0860 Chr06 11840341 11842134 +
Mal Mal1g6088 Chr1 139659503 139660390 +
Phco Phco2g00065 Chr2 651090 654943 -
Spst Spst8g02023 Chr8 27804212 27809580 +
Tsu Tsu01g00187 Chr01 1442686 1447700 +
Vra Vra6g2029 Chr6 36872484 36877003 -
Pvu Pvu1g0059 Chr1 489428 492472 +
Phco Phco2g00067 Chr2 657000 661340 +
Pvu Pvu1g0060 Chr1 493387 495898 +
Phco Phco2g00068 Chr2 662679 664887 +
Lasa Lasa5g04534 Chr5 670795244 670796543 +