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
Pvu1g1051 . . . . . . . . . . . . . . . . Car03g01958 Cca07g00543 . . . . Gma19g01178 . Gso19g1032 . . . . . . . Lapu1g00330 Lasa3g02521 . . . . Lja1g1480 Mal3g3284 Mepo3g02648 Mesa25g01488 . Mtr7g2458 Phac1g01401 Phco2g01329 . Psa3g1946 Pste5g01439 Pumo5g02435 Rops8g02613 Seca2g03715 Spst1g03574 Ssu4g1661 . Tpr6g1286 Trre13g03001 . Vian2g01769 . Vimu6g03286 . Vivi6g03620 .
Pvu1g1052 . . . . . . . . . . . . . . . . Car03g01957 . . . . . Gma19g01176 . Gso19g1030 . . . . . . . Lapu1g00331 Lasa3g02520 . . . . Lja1g1481 Mal3g3282 Mepo3g02647 Mesa25g01489 . Mtr7g2457 Phac1g01402 Phco2g01328 . Psa3g1947 Pste5g01437 . . . Spst1g03575 Ssu4g1662 . Tpr6g1285 Trre13g03000 Tsu07g03134 . . Vimu6g03287 . Vivi6g03621 .
Pvu1g1053 . . . . . . . . . . . . . . . . Car03g01956 Cca07g00545 . . . . Gma19g01175 . Gso19g1029 . . . . Lan10g0798 . . . Lasa3g02519 . . . . Lja1g1483 Mal3g3281 Mepo3g02646 Mesa25g01490 . Mtr7g2456 Phac1g01403 Phco2g01326 . Psa3g1948 Pste5g01436 Pumo5g02432 Rops8g02609 Seca2g03706 Spst1g03576 Ssu4g1664 . Tpr6g1284 Trre13g02999 Tsu07g03133 Vian2g01767 . Vimu6g03288 . Vivi6g03622 .
Pvu1g1054 . . . . . . . . . . . . . . . . Car03g01955 Cca07g00546 . . . . Gma19g01174 . Gso19g1028 . . . . Lan10g0797 . . . Lasa3g02518 . . . . Lja1g1484 Mal3g3280 Mepo3g02645 Mesa25g01491 . Mtr7g2455 . Phco2g01325 . . Pste5g01435 Pumo5g02428 Rops8g02607 Seca2g03703 Spst1g03578 Ssu4g1665 . Tpr6g1283 Trre13g02992 Tsu07g03132 Vian2g01765 . Vimu6g03290 . Vivi6g03623 .
Pvu1g1055 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1056 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g01324 . Psa3g1963 . . . . . . . . . . . . Vimu6g03292 . . .
Pvu1g1057 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g01323 . Psa3g1964 . . . . . . . . . . . . Vimu6g03293 . . .
Pvu1g1058 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g01322 . . . . . . . . . . . . . . Vimu6g03295 . . .
Pvu1g1059 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1060 . . Adu06g01906 . . Ahy16g2040 Ahy6g1751 . . . . . . . . . . Cca07g00551 . Dod01g2088 . . . . . . . Lal25g0767 . . . . . . . . . . . . . . . . . Phco2g01321 . . . Pumo5g02419 Rops8g02597 Seca2g03693 Spst1g03584 Ssu4g1672 . . . . Vian2g01759 Vifa5g02121 Vimu6g03297 . . .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu1g1051 Chr1 23330763 23337780 -
Car Car03g01958 Chr03 65649805 65662229 +
Cca Cca07g00543 Chr07 7735318 7747537 -
Gma Gma19g01178 Chr19 40448044 40453055 +
Gso Gso19g1032 Chr19 37988941 37994036 +
Lapu Lapu1g00330 Chr1 12487536 12493767 -
Lasa Lasa3g02521 Chr3 563473877 563476787 +
Lja Lja1g1480 Chr1 15948852 15952702 -
Mal Mal3g3284 Chr3 108958842 108962050 +
Mepo Mepo3g02648 Chr3 36394141 36398245 +
Mesa Mesa25g01488 Chr25 18061609 18064849 -
Mtr Mtr7g2458 Chr7 41047538 41051362 +
Phac Phac1g01401 Chr1 16346824 16355118 -
Phco Phco2g01329 Chr2 41720265 41725831 +
Psa Psa3g1946 Chr3 174479808 174483679 -
Pste Pste5g01439 Chr5 9208497 9213961 +
Pumo Pumo5g02435 Chr5 67391564 67395523 +
Rops Rops8g02613 Chr8 59602218 59613686 +
Seca Seca2g03715 Chr2 114973577 114975803 +
Spst Spst1g03574 Chr1 45003279 45007160 -
Ssu Ssu4g1661 Chr4 29005381 29010729 -
Tpr Tpr6g1286 Chr6 13371831 13375919 +
Trre Trre13g03001 Chr13 30581287 30584797 +
Vian Vian2g01769 Chr2 35832612 35835364 +
Vimu Vimu6g03286 Chr6 29424252 29428961 -
Vivi Vivi6g03620 Chr6 129958683 129962325 -
Pvu Pvu1g1052 Chr1 23337905 23339789 +
Car Car03g01957 Chr03 65646467 65649459 -
Gma Gma19g01176 Chr19 40427020 40429576 -
Gso Gso19g1030 Chr19 37971211 37973802 -
Lapu Lapu1g00331 Chr1 12494321 12496353 +
Lasa Lasa3g02520 Chr3 563443235 563447087 -
Lja Lja1g1481 Chr1 15955347 15958483 +
Mal Mal3g3282 Chr3 108939400 108941950 -
Mepo Mepo3g02647 Chr3 36390511 36392420 -
Mesa Mesa25g01489 Chr25 18066613 18068775 +
Mtr Mtr7g2457 Chr7 41039549 41042730 -
Phac Phac1g01402 Chr1 16353455 16354886 +
Phco Phco2g01328 Chr2 41718514 41720075 -
Psa Psa3g1947 Chr3 174548670 174553151 +
Pste Pste5g01437 Chr5 9201487 9203113 -
Spst Spst1g03575 Chr1 45008665 45010351 +
Ssu Ssu4g1662 Chr4 29016441 29018538 +
Tpr Tpr6g1285 Chr6 13367267 13368903 -
Trre Trre13g03000 Chr13 30574761 30577108 -
Tsu Tsu07g03134 Chr07 37313828 37315923 -
Vimu Vimu6g03287 Chr6 29429746 29431723 +
Vivi Vivi6g03621 Chr6 129965143 129968226 +
Pvu Pvu1g1053 Chr1 23363774 23365238 +
Car Car03g01956 Chr03 65642334 65644636 -
Cca Cca07g00545 Chr07 7782615 7788655 +
Gma Gma19g01175 Chr19 40421440 40423697 -
Gso Gso19g1029 Chr19 37965575 37967842 -
Lan Lan10g0798 Chr10 10976827 10978764 -
Lasa Lasa3g02519 Chr3 563440874 563441925 -
Lja Lja1g1483 Chr1 15983314 15985052 +
Mal Mal3g3281 Chr3 108934942 108936394 -
Mepo Mepo3g02646 Chr3 36385785 36387565 -
Mesa Mesa25g01490 Chr25 18073011 18074694 +
Mtr Mtr7g2456 Chr7 41034901 41036448 -
Phac Phac1g01403 Chr1 16361724 16365574 +
Phco Phco2g01326 Chr2 41705573 41706702 -
Psa Psa3g1948 Chr3 174554066 174555117 +
Pste Pste5g01436 Chr5 9196249 9198284 -
Pumo Pumo5g02432 Chr5 67368083 67370179 -
Rops Rops8g02609 Chr8 59518912 59521128 -
Seca Seca2g03706 Chr2 114774019 114775879 -
Spst Spst1g03576 Chr1 45012235 45013380 +
Ssu Ssu4g1664 Chr4 29025148 29025369 +
Tpr Tpr6g1284 Chr6 13361516 13367117 -
Trre Trre13g02999 Chr13 30549601 30551139 -
Tsu Tsu07g03133 Chr07 37307252 37308753 -
Vian Vian2g01767 Chr2 35823437 35825067 -
Vimu Vimu6g03288 Chr6 29433430 29434525 +
Vivi Vivi6g03622 Chr6 129969958 129971255 +
Pvu Pvu1g1054 Chr1 23434417 23437727 +
Car Car03g01955 Chr03 65630221 65636266 -
Cca Cca07g00546 Chr07 7805209 7809344 +
Gma Gma19g01174 Chr19 40402910 40407168 -
Gso Gso19g1028 Chr19 37951080 37955445 -
Lan Lan10g0797 Chr10 10965923 10971153 -
Lasa Lasa3g02518 Chr3 563427019 563430155 -
Lja Lja1g1484 Chr1 16024472 16028495 +
Mal Mal3g3280 Chr3 108918671 108923268 -
Mepo Mepo3g02645 Chr3 36375881 36380200 -
Mesa Mesa25g01491 Chr25 18079304 18083357 +
Mtr Mtr7g2455 Chr7 41006529 41011410 -
Phco Phco2g01325 Chr2 41683061 41686242 -
Pste Pste5g01435 Chr5 9179997 9184094 -
Pumo Pumo5g02428 Chr5 67340126 67344397 -
Rops Rops8g02607 Chr8 59499777 59503834 -
Seca Seca2g03703 Chr2 114686449 114686700 -
Spst Spst1g03578 Chr1 45024333 45027630 +
Ssu Ssu4g1665 Chr4 29053693 29057913 +
Tpr Tpr6g1283 Chr6 13352602 13358110 -
Trre Trre13g02992 Chr13 30507407 30512610 -
Tsu Tsu07g03132 Chr07 37253800 37258521 -
Vian Vian2g01765 Chr2 35798242 35801332 -
Vimu Vimu6g03290 Chr6 29451462 29454869 +
Vivi Vivi6g03623 Chr6 129979619 129983466 +
Pvu Pvu1g1055 Chr1 23480100 23480822 -
Pvu Pvu1g1056 Chr1 23493137 23495499 +
Phco Phco2g01324 Chr2 41664607 41666789 -
Psa Psa3g1963 Chr3 175213913 175216745 +
Vimu Vimu6g03292 Chr6 29472519 29473926 +
Pvu Pvu1g1057 Chr1 23496344 23502669 -
Phco Phco2g01323 Chr2 41657662 41663063 +
Psa Psa3g1964 Chr3 175216723 175222599 -
Vimu Vimu6g03293 Chr6 29475964 29481032 -
Pvu Pvu1g1058 Chr1 23509918 23513029 -
Phco Phco2g01322 Chr2 41647268 41657451 +
Vimu Vimu6g03295 Chr6 29484503 29487049 -
Pvu Pvu1g1059 Chr1 23531064 23532063 +
Pvu Pvu1g1060 Chr1 23541819 23547045 -
Adu Adu06g01906 Chr06 80391751 80395990 +
Ahy Ahy16g2040 Chr16 113368347 113380208 +
Ahy Ahy6g1751 Chr6 85152280 85160834 +
Cca Cca07g00551 Chr07 7857970 7863522 +
Dod Dod01g2088 Chr01 57317256 57326913 +
Lal Lal25g0767 Chr25 6579880 6587537 -
Phco Phco2g01321 Chr2 41633116 41637753 +
Pumo Pumo5g02419 Chr5 67229118 67234167 -
Rops Rops8g02597 Chr8 59375750 59382462 -
Seca Seca2g03693 Chr2 114502244 114509399 -
Spst Spst1g03584 Chr1 45100478 45102589 +
Ssu Ssu4g1672 Chr4 29287697 29292913 +
Vian Vian2g01759 Chr2 35743379 35747921 +
Vifa Vifa5g02121 Chr5 702482312 702486537 -
Vimu Vimu6g03297 Chr6 29499447 29505133 -