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
Pvu1g1881 . . . Aed2g1900 Aev06g0306 . . . . Amo16g2033 . Apr4g0240 . . . . Car03g02532 Cca03g02419 . Dod01g2782 . . Gma19g01764 . Gso19g1548 . . . Lal20g0119 . Lan5g1144 . Lapu6g00553 . . . . . Lja1g0797 . . . . . . Phco2g02081 . . Pste5g02095 . Rops8g03380 . Spst1g02846 Ssu4g0966 . . . . Vian2g02404 . Vimu6g02458 Viun1g02419 . Vra3g0459
Pvu1g1882 Acco02g1467 Accr2g02268 Adu06g01591 Aed2g1901 Aev06g0308 . Ahy6g1526 . Alju01g1461 . Amo06g1448 Apr4g0241 Arst6g02088 Bach8g00863 Bisa03g0888 Bva04g02513 Car03g02534 Cca03g02420 Dere01g2795 Dod01g2783 Enph2g1131 Glsi02g2715 . Gma03g01713 Gso19g1549 Gso3g1571 . . . . . . Lapu6g00554 Lasa3g03477 Lele05g1156 Lele06g1015 Lele07g1197 Lele08g0998 Lja1g0793 Mal3g4265 Mepo3g03388 Mesa25g00814 Mibi02g1338 Mtr7g3142 Phac1g02635 Phco2g02083 Prci1g2857 Psa3g0947 Pste5g02097 Pumo5g03101 Rops8g03381 Seca2g04711 Spst1g02845 Ssu4g0964 Sto8g0960 Tpr6g0854 Trre13g04345 Tsu07g03925 Vian2g02405 Vifa5g03086 Vimu6g02456 Viun1g02420 Vivi6g04108 Vra3g0460
Pvu1g1883 . . . . . . . . . . . . . . . . . . . . . . Gma19g01765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu4g0963 . . . . . . . . . .
Pvu1g1884 . . . Aed2g1902 Aev06g0309 . . . . . . . . . . . . . . . . . . . Gso19g1550 . Lal11g1182 . . . . . . . . . . . . Mal3g4266 . . . . . Phco2g02084 . Psa3g0945 Pste5g02102 . . . . . . . . . . . Vimu6g02454 . Vivi6g04107 .
Pvu1g1885 . . Adu06g01592 . . . Ahy6g1528 . . . Amo06g1449 Apr4g0242 Arst6g02090 . . . Car03g02535 Cca03g02421 . Dod01g2784 . . . . . . . . . . . Lan19g0416 Lapu6g00555 . . . . . Lja1g0792 . Mepo3g03390 Mesa25g00815 . Mtr7g3143 Phac1g02636 . . Psa3g0944 . Pumo5g03102 Rops8g03382 Seca2g04713 Spst1g02844 Ssu4g0962 . Tpr6g0853 Trre13g04346 Tsu07g03926 Vian2g02406 Vifa5g03087 Vimu6g02453 Viun1g02422 Vivi6g04106 Vra3g0461
Pvu1g1886 Acco02g1466 Accr2g02269 . . . . . . Alju01g1460 . . . . Bach8g00864 Bisa03g0889 Bva04g02512 . . Dere01g2794 . Enph2g1130 . . Gma03g01714 . . . . . . . . . . . Lele06g1014 Lele07g1196 . . Mal3g4267 . . Mibi02g1337 . . . Prci1g2860 . . . . . . . Sto8g0962 . . . . . Vimu6g02452 . . .
Pvu1g1887 . . Adu10g02340 Aed2g1903 Aev06g0310 . Ahy6g1529 . . . Amo06g1451 Apr4g0243 . . . . Car03g02536 Cca03g02424 . Dod01g2788 . . Gma19g01766 . Gso19g1551 . . . . . . . . . . . . . Lja1g0791 . . . . Mtr7g3144 Phac1g02637 . . Psa3g0930 . . . . . Ssu4g0960 . Tpr6g0852 . Tsu07g03927 . . . . . Vra3g0463
Pvu1g1888 . . Adu10g02339 . Aev06g0311 . . . . . . . . . . . . Cca03g02427 . . . . . Gma03g01715 . Gso3g1572 . . . . . . . . . . . . . Mal3g4268 . . . . Phac1g02640 . . Psa3g0919 . . . . . . Sto8g0965 Tpr6g0851 . Tsu07g03928 . . . . . .
Pvu1g1889 . . Adu10g02338 Aed2g1905 Aev06g0313 . . . . . . Apr4g0244 . . . . Car03g02537 Cca03g02428 . . . . Gma19g01767 . Gso19g1552 . . . . . . . . . . . . . Lja1g0790 . . . . Mtr7g3145 . . . Psa3g0917 . . . . . Ssu4g0958 . Tpr6g0850 . Tsu07g03929 . . . . . Vra3g0464
Pvu1g1890 . . Adu10g02337 . Aev06g0314 . . . . . . . . . . . . Cca03g02431 . . . . . Gma03g01716 . Gso3g1573 . . . . . . . . . . . . . Mal3g4269 . . . . Phac8g01867 . . Psa3g0914 . . . . . . Sto8g0968 Tpr6g0849 . Tsu07g03930 . . . . . Vra3g0465
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu1g1881 Chr1 44623426 44625593 -
Aed Aed2g1900 Chr2 23610744 23611613 -
Aev Aev06g0306 Chr06 2287533 2289197 -
Amo Amo16g2033 Chr16 66578169 66579956 -
Apr Apr4g0240 Chr4 2029481 2031395 -
Car Car03g02532 Chr03 71236280 71238811 -
Cca Cca03g02419 Chr03 45276164 45277399 -
Dod Dod01g2782 Chr01 67696899 67698888 -
Gma Gma19g01764 Chr19 46925096 46926977 -
Gso Gso19g1548 Chr19 44417135 44419061 -
Lal Lal20g0119 Chr20 781139 782514 -
Lan Lan5g1144 Chr5 24751287 24753672 +
Lapu Lapu6g00553 Chr6 5805946 5807147 -
Lja Lja1g0797 Chr1 7723493 7725501 +
Phco Phco2g02081 Chr2 51561822 51563599 -
Pste Pste5g02095 Chr5 13527268 13529178 -
Rops Rops8g03380 Chr8 72703927 72706201 -
Spst Spst1g02846 Chr1 37028578 37031207 +
Ssu Ssu4g0966 Chr4 15384489 15386930 +
Vian Vian2g02404 Chr2 44500893 44501811 -
Vimu Vimu6g02458 Chr6 21392395 21393520 +
Viun Viun1g02419 Chr1 34639117 34640293 -
Vra Vra3g0459 Chr3 5287307 5288605 -
Pvu Pvu1g1882 Chr1 44633864 44642937 +
Acco Acco02g1467 Chr02 11169853 11174440 -
Accr Accr2g02268 Chr2 57640209 57644865 +
Adu Adu06g01591 Chr06 45895850 45901060 +
Aed Aed2g1901 Chr2 23614247 23619381 +
Aev Aev06g0308 Chr06 2292416 2298304 +
Ahy Ahy6g1526 Chr6 49768467 49773864 +
Alju Alju01g1461 Chr01 11632160 11637131 -
Amo Amo06g1448 Chr06 40597077 40602552 -
Apr Apr4g0241 Chr4 2039280 2044294 +
Arst Arst6g02088 Chr6 45108351 45113603 +
Bach Bach8g00863 Chr8 5641982 5645431 +
Bisa Bisa03g0888 Chr03 11761763 11766055 +
Bva Bva04g02513 Chr04 22726141 22729181 -
Car Car03g02534 Chr03 71246849 71251971 +
Cca Cca03g02420 Chr03 45282835 45288407 +
Dere Dere01g2795 Chr01 42857711 42862477 -
Dod Dod01g2783 Chr01 67755828 67761242 +
Enph Enph2g1131 Chr2 9439525 9445990 -
Glsi Glsi02g2715 Chr02 76582572 76586850 -
Gma Gma03g01713 Chr03 43302736 43309381 +
Gso Gso19g1549 Chr19 44422135 44428828 +
Gso Gso3g1571 Chr3 41659510 41666717 +
Lapu Lapu6g00554 Chr6 5817309 5825217 +
Lasa Lasa3g03477 Chr3 650289292 650294843 +
Lele Lele05g1156 Chr05 7248037 7252294 -
Lele Lele06g1015 Chr06 6323354 6327599 -
Lele Lele07g1197 Chr07 7256746 7260994 -
Lele Lele08g0998 Chr08 6346455 6379308 -
Lja Lja1g0793 Chr1 7672335 7676926 -
Mal Mal3g4265 Chr3 121951558 121956515 +
Mepo Mepo3g03388 Chr3 43961242 43966671 +
Mesa Mesa25g00814 Chr25 9402095 9407000 +
Mibi Mibi02g1338 Chr02 13281744 13286196 -
Mtr Mtr7g3142 Chr7 48406047 48411035 +
Phac Phac1g02635 Chr1 35717121 35725811 +
Phco Phco2g02083 Chr2 51579998 51586261 +
Prci Prci1g2857 Chr1 47312812 47318189 +
Psa Psa3g0947 Chr3 88432638 88438951 -
Pste Pste5g02097 Chr5 13555373 13563650 +
Pumo Pumo5g03101 Chr5 79609318 79616462 +
Rops Rops8g03381 Chr8 72729410 72734615 +
Seca Seca2g04711 Chr2 133254370 133259042 +
Spst Spst1g02845 Chr1 37019297 37026151 -
Ssu Ssu4g0964 Chr4 15332846 15345597 -
Sto Sto8g0960 Chr8 6046126 6050257 +
Tpr Tpr6g0854 Chr6 7350903 7356539 -
Trre Trre13g04345 Chr13 51093928 51098538 +
Tsu Tsu07g03925 Chr07 45371718 45376805 +
Vian Vian2g02405 Chr2 44504562 44510730 +
Vifa Vifa5g03086 Chr5 1021217103 1021223199 +
Vimu Vimu6g02456 Chr6 21378446 21384573 -
Viun Viun1g02420 Chr1 34643090 34649367 +
Vivi Vivi6g04108 Chr6 139574999 139581890 -
Vra Vra3g0460 Chr3 5292155 5299952 +
Pvu Pvu1g1883 Chr1 44645841 44646439 +
Gma Gma19g01765 Chr19 46930624 46976314 +
Ssu Ssu4g0963 Chr4 15308864 15329652 -
Pvu Pvu1g1884 Chr1 44646750 44671400 +
Aed Aed2g1902 Chr2 23620655 23656758 +
Aev Aev06g0309 Chr06 2301555 2324924 +
Gso Gso19g1550 Chr19 44431407 44467595 +
Lal Lal11g1182 Chr11 15574513 15613388 +
Mal Mal3g4266 Chr3 121961802 121977391 +
Phco Phco2g02084 Chr2 51588807 51645523 +
Psa Psa3g0945 Chr3 88374082 88384578 -
Pste Pste5g02102 Chr5 13587839 13638888 +
Vimu Vimu6g02454 Chr6 21353338 21375903 -
Vivi Vivi6g04107 Chr6 139515723 139541757 -
Pvu Pvu1g1885 Chr1 44694968 44697293 +
Adu Adu06g01592 Chr06 46041575 46066679 +
Ahy Ahy6g1528 Chr6 49899430 49921421 +
Amo Amo06g1449 Chr06 40693276 40701957 +
Apr Apr4g0242 Chr4 2047161 2084286 +
Arst Arst6g02090 Chr6 45253621 45278923 +
Car Car03g02535 Chr03 71256744 71290825 +
Cca Cca03g02421 Chr03 45294636 45330783 +
Dod Dod01g2784 Chr01 67764203 67793783 +
Lan Lan19g0416 Chr19 5430382 5462831 -
Lapu Lapu6g00555 Chr6 5829209 5875141 +
Lja Lja1g0792 Chr1 7638554 7667699 -
Mepo Mepo3g03390 Chr3 43974356 43988426 +
Mesa Mesa25g00815 Chr25 9413155 9448110 +
Mtr Mtr7g3143 Chr7 48415987 48451294 +
Phac Phac1g02636 Chr1 35728479 35780399 +
Psa Psa3g0944 Chr3 88350762 88368302 -
Pumo Pumo5g03102 Chr5 79622381 79658592 +
Rops Rops8g03382 Chr8 72737618 72807104 +
Seca Seca2g04713 Chr2 133270408 133303595 +
Spst Spst1g02844 Chr1 36968418 37014581 -
Ssu Ssu4g0962 Chr4 15272347 15308854 -
Tpr Tpr6g0853 Chr6 7315681 7347854 -
Trre Trre13g04346 Chr13 51101730 51138473 +
Tsu Tsu07g03926 Chr07 45381587 45410474 +
Vian Vian2g02406 Chr2 44515725 44583472 +
Vifa Vifa5g03087 Chr5 1021286398 1021331556 +
Vimu Vimu6g02453 Chr6 21347373 21349600 -
Viun Viun1g02422 Chr1 34654053 34713961 +
Vivi Vivi6g04106 Chr6 139515723 139556882 -
Vra Vra3g0461 Chr3 5302389 5350021 +
Pvu Pvu1g1886 Chr1 44714397 44719976 +
Acco Acco02g1466 Chr02 11126098 11164989 -
Accr Accr2g02269 Chr2 57648430 57682422 +
Alju Alju01g1460 Chr01 11589399 11625407 -
Bach Bach8g00864 Chr8 5647633 5668169 +
Bisa Bisa03g0889 Chr03 11777664 11874681 +
Bva Bva04g02512 Chr04 22718368 22724047 -
Dere Dere01g2794 Chr01 42804868 42854778 -
Enph Enph2g1130 Chr2 9400464 9435276 -
Gma Gma03g01714 Chr03 43312195 43312516 +
Lele Lele06g1014 Chr06 6289156 6321158 -
Lele Lele07g1196 Chr07 7228444 7255763 -
Mal Mal3g4267 Chr3 121977401 122001217 +
Mibi Mibi02g1337 Chr02 13243294 13278834 -
Prci Prci1g2860 Chr1 47326810 47358389 +
Sto Sto8g0962 Chr8 6081839 6085895 +
Vimu Vimu6g02452 Chr6 21334145 21343452 -
Pvu Pvu1g1887 Chr1 44723223 44725216 +
Adu Adu10g02340 Chr10 98696684 98698362 +
Aed Aed2g1903 Chr2 23665363 23665988 +
Aev Aev06g0310 Chr06 2333623 2335134 +
Ahy Ahy6g1529 Chr6 50383862 50387890 +
Amo Amo06g1451 Chr06 40842098 40846292 +
Apr Apr4g0243 Chr4 2087063 2090181 +
Car Car03g02536 Chr03 71296558 71298488 +
Cca Cca03g02424 Chr03 45341409 45342947 +
Dod Dod01g2788 Chr01 68005008 68006548 +
Gma Gma19g01766 Chr19 46982258 46983992 +
Gso Gso19g1551 Chr19 44473199 44475196 +
Lja Lja1g0791 Chr1 7621590 7627518 -
Mtr Mtr7g3144 Chr7 48455940 48457744 +
Phac Phac1g02637 Chr1 35789378 35791091 +
Psa Psa3g0930 Chr3 87409552 87411572 -
Ssu Ssu4g0960 Chr4 15257219 15258733 -
Tpr Tpr6g0852 Chr6 7307622 7309729 -
Tsu Tsu07g03927 Chr07 45415784 45417451 +
Vra Vra3g0463 Chr3 5365868 5367626 +
Pvu Pvu1g1888 Chr1 44735155 44736955 +
Adu Adu10g02339 Chr10 98691067 98692539 +
Aev Aev06g0311 Chr06 2337774 2339252 +
Cca Cca03g02427 Chr03 45368480 45369871 +
Gma Gma03g01715 Chr03 43318423 43320187 +
Gso Gso3g1572 Chr3 41674881 41676555 +
Mal Mal3g4268 Chr3 122008891 122010384 +
Phac Phac1g02640 Chr1 35815157 35816626 +
Psa Psa3g0919 Chr3 86856047 86857443 +
Sto Sto8g0965 Chr8 6092664 6097861 +
Tpr Tpr6g0851 Chr6 7303856 7305886 -
Tsu Tsu07g03928 Chr07 45424971 45426617 +
Pvu Pvu1g1889 Chr1 44740078 44741673 +
Adu Adu10g02338 Chr10 98656391 98658112 +
Aed Aed2g1905 Chr2 23676051 23676893 +
Aev Aev06g0313 Chr06 2346364 2347875 +
Apr Apr4g0244 Chr4 2094813 2096984 +
Car Car03g02537 Chr03 71303276 71305156 +
Cca Cca03g02428 Chr03 45374792 45376768 +
Gma Gma19g01767 Chr19 46988023 46989474 +
Gso Gso19g1552 Chr19 44478864 44480999 +
Lja Lja1g0790 Chr1 7617207 7618694 -
Mtr Mtr7g3145 Chr7 48462688 48464388 +
Psa Psa3g0917 Chr3 86824428 86826062 +
Ssu Ssu4g0958 Chr4 15249017 15253217 -
Tpr Tpr6g0850 Chr6 7298084 7300384 -
Tsu Tsu07g03929 Chr07 45430688 45432775 +
Vra Vra3g0464 Chr3 5370415 5372044 +
Pvu Pvu1g1890 Chr1 44744475 44746373 +
Adu Adu10g02337 Chr10 98643399 98644871 +
Aev Aev06g0314 Chr06 2349924 2351414 +
Cca Cca03g02431 Chr03 45385918 45387384 +
Gma Gma03g01716 Chr03 43323525 43325273 +
Gso Gso3g1573 Chr3 41679910 41681692 +
Mal Mal3g4269 Chr3 122016884 122018398 +
Phac Phac8g01867 Chr8 17780953 17784363 -
Psa Psa3g0914 Chr3 86754025 86755464 -
Sto Sto8g0968 Chr8 6103820 6109177 -
Tpr Tpr6g0849 Chr6 7294120 7295883 -
Tsu Tsu07g03930 Chr07 45436551 45438116 +
Vra Vra3g0465 Chr3 5381140 5382968 +