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
Pvu1g0301 . . Adu06g03086 Aed6g0409 . Ahy16g3417 Ahy6g2682 Aip06g03675 . Amo16g4137 . Apr9g0348 . . . Bva10g00617 Car04g03363 Cca05g00896 . . . . Gma17g02237 Gma14g00800 Gso14g0782 Gso17g1986 Lal8g0689 . Lal10g0765 . . Lan3g0528 . . . . . . Lja5g3062 Mal1g5680 . Mesa1g00397 . Mtr1g0436 . . . . . . . . . Ssu5g0348 . Tpr1g3606 . Tsu01g00475 . Vifa3g04812 . . . .
Pvu1g0302 . . . Aed6g0410 Aev07g0930 . . . . . . Apr9g0347 . . . . Car04g03362 Cca05g00895 . . . . Gma17g02236 Gma14g00801 Gso14g0783 Gso17g1985 . . . . . Lan3g1168 Lapu8g00808 Lasa5g03829 . . . . Lja5g3061 Mal1g5679 Mepo4g00359 Mesa1g00398 . Mtr1g0435 . Phco2g00353 . . Pste8g00735 Pumo9g00366 Rops9g02119 Seca4g01322 . Ssu5g0349 . Tpr1g3605 Trre1g00431 Tsu01g00476 Vian7g00646 Vifa3g04810 Vimu1g02895 Viun8g00428 Vivi4g05481 Vra6g1788
Pvu1g0303 . . Adu06g03080 Aed6g0411 Aev07g0931 Ahy16g3413 Ahy6g2678 Aip06g03669 . Amo16g4130 . Apr9g0346 Arst6g03973 . . . Car04g03361 Cca05g00894 . Dod08g1980 . . Gma17g02235 Gma14g00802 Gso14g0784 Gso17g1984 . . Lal10g0764 . . Lan3g0530 Lapu8g00807 . . . . . Lja5g3060 Mal1g5678 Mepo4g00360 Mesa1g00399 . Mtr1g0434 . Phco2g00354 . . Pste8g00730 Pumo9g00367 Rops9g02118 Seca8g03522 . Ssu5g0350 . Tpr1g3604 Trre1g00432 Tsu01g00477 . Vifa3g04809 . Viun8g00429 Vivi4g05480 .
Pvu1g0304 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0305 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00355 . . . . . . . . . . . . . . . . . .
Pvu1g0306 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0307 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00356 . . . . . . . . . . . . . . . . . .
Pvu1g0308 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00357 . . . . . . . . . . . . . . . . . .
Pvu1g0309 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Spst8g02312 . . . . . . . . . . .
Pvu1g0310 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Spst Spst8g02312 Chr8 34083158 34085656 -
Pvu Pvu1g0301 Chr1 2733745 2740908 +
Adu Adu06g03086 Chr06 109028955 109035300 +
Aed Aed6g0409 Chr6 3509767 3516244 +
Ahy Ahy16g3417 Chr16 151380899 151387382 +
Ahy Ahy6g2682 Chr6 112318023 112324512 +
Aip Aip06g03675 Chr06 134280614 134287228 +
Amo Amo16g4137 Chr16 154016526 154022765 +
Apr Apr9g0348 Chr9 4667348 4674179 -
Bva Bva10g00617 Chr10 5456570 5463110 -
Car Car04g03363 Chr04 62121856 62128623 -
Cca Cca05g00896 Chr05 24131621 24142099 -
Gma Gma17g02237 Chr17 40236372 40243196 -
Gma Gma14g00800 Chr14 8333403 8340418 +
Gso Gso14g0782 Chr14 8301960 8309196 +
Gso Gso17g1986 Chr17 39189365 39196432 -
Lal Lal8g0689 Chr8 4855408 4862933 +
Lal Lal10g0765 Chr10 15365297 15371085 -
Lan Lan3g0528 Chr3 5175170 5177566 +
Lja Lja5g3062 Chr5 60038471 60046289 -
Mal Mal1g5680 Chr1 133273688 133280464 -
Mesa Mesa1g00397 Chr1 4963053 4970397 +
Mtr Mtr1g0436 Chr1 5007458 5014626 -
Ssu Ssu5g0348 Chr5 7270062 7277273 +
Tpr Tpr1g3606 Chr1 40233977 40240526 -
Tsu Tsu01g00475 Chr01 4102360 4108609 +
Vifa Vifa3g04812 Chr3 1389746446 1389751764 -
Pvu Pvu1g0302 Chr1 2746302 2747917 +
Aed Aed6g0410 Chr6 3518797 3520278 +
Aev Aev07g0930 Chr07 6634603 6636490 +
Apr Apr9g0347 Chr9 4661143 4662571 -
Car Car04g03362 Chr04 62117178 62118966 -
Cca Cca05g00895 Chr05 24125789 24127383 -
Gma Gma17g02236 Chr17 40228455 40230204 -
Gma Gma14g00801 Chr14 8345190 8346785 +
Gso Gso14g0783 Chr14 8313584 8315464 +
Gso Gso17g1985 Chr17 39181694 39183394 -
Lan Lan3g1168 Chr3 23936327 23937989 -
Lapu Lapu8g00808 Chr8 26241693 26243267 -
Lasa Lasa5g03829 Chr5 602099833 602101047 +
Lja Lja5g3061 Chr5 60035912 60037278 -
Mal Mal1g5679 Chr1 133264490 133266313 -
Mepo Mepo4g00359 Chr4 5424888 5429238 +
Mesa Mesa1g00398 Chr1 4974831 4977343 +
Mtr Mtr1g0435 Chr1 5000596 5002895 -
Phco Phco2g00353 Chr2 2928458 2929912 +
Pste Pste8g00735 Chr8 3821409 3823040 -
Pumo Pumo9g00366 Chr9 5683370 5683891 +
Rops Rops9g02119 Chr9 39069187 39070698 -
Seca Seca4g01322 Chr4 21104174 21106076 -
Ssu Ssu5g0349 Chr5 7289429 7290988 +
Tpr Tpr1g3605 Chr1 40229941 40231777 -
Trre Trre1g00431 Chr1 3174313 3176112 +
Tsu Tsu01g00476 Chr01 4111238 4112916 +
Vian Vian7g00646 Chr7 14555344 14556835 +
Vifa Vifa3g04810 Chr3 1389507862 1389510093 -
Vimu Vimu1g02895 Chr1 41327311 41328692 +
Viun Viun8g00428 Chr8 2988885 2990372 +
Vivi Vivi4g05481 Chr4 189327366 189329424 -
Vra Vra6g1788 Chr6 34262288 34264017 +
Pvu Pvu1g0303 Chr1 2748280 2762811 -
Adu Adu06g03080 Chr06 108926056 108935138 +
Aed Aed6g0411 Chr6 3519732 3532529 -
Aev Aev07g0931 Chr07 6637082 6647461 -
Ahy Ahy16g3413 Chr16 151275182 151284593 +
Ahy Ahy6g2678 Chr6 112231678 112241064 +
Aip Aip06g03669 Chr06 134177574 134187360 +
Amo Amo16g4130 Chr16 153908049 153918256 +
Apr Apr9g0346 Chr9 4646144 4660519 +
Arst Arst6g03973 Chr6 108033924 108043230 +
Car Car04g03361 Chr04 62104066 62116531 +
Cca Cca05g00894 Chr05 24107621 24125439 +
Dod Dod08g1980 Chr08 46911166 46925105 +
Gma Gma17g02235 Chr17 40213293 40227896 +
Gma Gma14g00802 Chr14 8347044 8363151 -
Gso Gso14g0784 Chr14 8315626 8331689 -
Gso Gso17g1984 Chr17 39165522 39181442 +
Lal Lal10g0764 Chr10 15350619 15366700 +
Lan Lan3g0530 Chr3 5185815 5198798 -
Lapu Lapu8g00807 Chr8 26226851 26241555 +
Lja Lja5g3060 Chr5 60013141 60034585 +
Mal Mal1g5678 Chr1 133243496 133263787 +
Mepo Mepo4g00360 Chr4 5429646 5446272 -
Mesa Mesa1g00399 Chr1 4978158 4994199 -
Mtr Mtr1g0434 Chr1 4984851 5000527 +
Phco Phco2g00354 Chr2 2930690 2944523 -
Pste Pste8g00730 Chr8 3807460 3820911 +
Pumo Pumo9g00367 Chr9 5684635 5693408 -
Rops Rops9g02118 Chr9 39044990 39068851 +
Seca Seca8g03522 Chr8 101367807 101384192 +
Ssu Ssu5g0350 Chr5 7293624 7305895 -
Tpr Tpr1g3604 Chr1 40218734 40229771 +
Trre Trre1g00432 Chr1 3176790 3189414 -
Tsu Tsu01g00477 Chr01 4113219 4124622 -
Vifa Vifa3g04809 Chr3 1389496575 1389506725 +
Viun Viun8g00429 Chr8 2990795 3005960 -
Vivi Vivi4g05480 Chr4 189309785 189326665 +
Pvu Pvu1g0304 Chr1 2759937 2760621 +
Pvu Pvu1g0305 Chr1 2765707 2771514 -
Phco Phco2g00355 Chr2 2951219 2956756 -
Pvu Pvu1g0306 Chr1 2770527 2770825 +
Pvu Pvu1g0307 Chr1 2772424 2779115 -
Phco Phco2g00356 Chr2 2958266 2965049 -
Pvu Pvu1g0308 Chr1 2781373 2785179 +
Phco Phco2g00357 Chr2 2966904 2970721 +
Pvu Pvu1g0309 Chr1 2803893 2805591 -
Spst Spst8g02312 Chr8 34083158 34085656 -
Pvu Pvu1g0310 Chr1 2814763 2816717 -
Lan Lan3g1168 Chr3 23936327 23937989 -
Seca Seca4g01322 Chr4 21104174 21106076 -