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
Pvu1g0861 Acco02g0809 Accr2g02903 Adu06g02225 Aed9g1085 . Ahy16g2347 Ahy6g2014 Aip06g02640 Alju01g0812 . . Apr4g1533 Arst6g02886 Bach8g01384 Bisa03g3557 Bva04g01914 Car03g01799 Cca07g00738 Dere01g2067 Dod01g1877 Enph2g0628 Glsi12g2116 . Gma16g00429 Gso19g0898 Gso16g0392 . . . . . . Lapu1g00496 Lasa3g02295 Lele05g0640 Lele06g0461 Lele07g0672 Lele08g0474 Lja1g1672 Mal3g3089 Mepo3g02452 . Mibi02g0722 Mtr7g2284 Phac1g01130 Phco2g00917 Prci1g3664 Psa3g2159 Pste5g00957 Pumo5g02105 Rops8g02401 Seca10g05027 Spst1g00247 Ssu4g1839 Sto8g1619 Tpr6g1054 Trre13g02834 Tsu07g02890 Vian2g01584 Vifa5g00450 . . Vivi6g03306 .
Pvu1g0862 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0863 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0864 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0865 . . . . . . . . . . . . . . . . Car03g00601 . . . . . . . . . . . . . . Lan3g0851 . . . . . . . . . . . . . Phco2g00920 . . . . . . . . . . . . . . . . . .
Pvu1g0866 Acco02g0804 Accr2g02906 Adu06g02229 Aed9g1086 . Ahy16g2351 Ahy6g2018 Aip06g02642 Alju01g0807 Amo16g3067 . Apr4g1535 Arst6g02890 Bach8g01386 Bisa03g3553 Bva04g01912 Car03g01796 Cca07g00739 Dere01g2062 Dod01g1871 Enph2g0626 Glsi12g2113 . . . . Lal8g1096 . . . . . Lapu1g00499 Lasa3g02291 Lele05g0637 Lele06g0457 Lele07g0668 Lele08g0470 Lja1g1676 Mal3g3086 Mepo3g02448 Mesa25g01736 Mibi02g0719 Mtr7g2281 . Phco2g00921 Prci1g3670 . . Pumo5g02107 Rops8g02398 Seca10g05025 Spst1g00249 Ssu4g1840 Sto8g1623 Tpr6g1050 Trre13g02836 Tsu07g02885 Vian2g01578 Vifa5g01891 . . Vivi6g03302 .
Pvu1g0867 Acco02g0803 Accr2g02907 Adu06g02230 . . Ahy16g2352 Ahy6g2020 Aip06g02645 Alju01g0805 . . Apr4g1537 Arst6g02891 . . Bva04g01911 . Cca07g00740 Dere01g2061 Dod01g1870 Enph2g0625 Glsi02g0482 . Gma16g00430 Gso19g0897 Gso16g0393 . . . . . . . . Lele05g0636 Lele06g0456 Lele07g0667 Lele08g0469 Lja1g1677 . . . Mibi02g0718 . . Phco2g00923 . . Pste5g00451 Pumo5g02108 Rops8g02396 Seca10g05023 Spst1g00250 Ssu4g1841 Sto8g1624 . . . Vian2g01576 . . . Vivi3g02256 .
Pvu1g0868 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0869 . . . Aed9g1088 . . . . . . . . . . . . . . . . . . . . Gso19g0896 Gso16g0394 . . . . . . . . . . . . . . . . . . . Phco2g00928 . . Pste5g00942 . . . Spst1g00252 . . . . . . . . . . .
Pvu1g0870 . . Adu06g02236 Aed9g1092 . Ahy16g2356 Ahy6g2025 Aip06g02647 . . Amo06g2455 Apr4g1541 . Bach8g01388 . Bva04g01908 Car03g01789 Cca07g00743 . . . . . Gma16g00433 Gso19g0894 Gso16g0396 Lal8g1095 . . . . . Lapu1g00504 Lasa3g02286 . . . . Lja1g1681 Mal3g3079 Mepo3g02444 Mesa25g01742 . Mtr7g2277 Phac1g01146 Phco2g00929 . Psa3g2166 Pste5g00929 Pumo5g02117 Rops8g02392 Seca2g03378 Spst1g00255 Ssu4g1844 . Tpr6g1043 Trre13g02037 Tsu07g02877 Vian2g01573 Vifa5g01878 . . Vivi6g03298 .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu1g0861 Chr1 14835344 14844135 -
Acco Acco02g0809 Chr02 5726799 5732689 +
Accr Accr2g02903 Chr2 64893900 64902215 -
Adu Adu06g02225 Chr06 93061551 93069943 -
Aed Aed9g1085 Chr9 8007856 8020013 -
Ahy Ahy16g2347 Chr16 129339976 129348352 -
Ahy Ahy6g2014 Chr6 98647524 98655927 -
Aip Aip06g02640 Chr06 115819795 115828107 -
Alju Alju01g0812 Chr01 6015279 6021267 +
Apr Apr4g1533 Chr4 16599216 16607702 -
Arst Arst6g02886 Chr6 92276645 92285038 -
Bach Bach8g01384 Chr8 9492311 9497796 -
Bisa Bisa03g3557 Chr03 72309904 72322160 +
Bva Bva04g01914 Chr04 19459646 19465996 +
Car Car03g01799 Chr03 63966826 63973740 +
Cca Cca07g00738 Chr07 11360210 11370297 -
Dere Dere01g2067 Chr01 34688173 34695888 +
Dod Dod01g1877 Chr01 53533121 53545100 +
Enph Enph2g0628 Chr2 4860343 4881184 +
Glsi Glsi12g2116 Chr12 36175990 36185186 +
Gma Gma16g00429 Chr16 4562433 4572231 -
Gso Gso19g0898 Chr19 35354017 35374451 +
Gso Gso16g0392 Chr16 4454093 4463400 -
Lapu Lapu1g00496 Chr1 16338153 16353664 -
Lasa Lasa3g02295 Chr3 542413090 542417805 +
Lele Lele05g0640 Chr05 3769141 3771261 +
Lele Lele06g0461 Chr06 2824556 2830879 +
Lele Lele07g0672 Chr07 3827566 3833851 +
Lele Lele08g0474 Chr08 2896634 2903096 +
Lja Lja1g1672 Chr1 18465112 18480631 -
Mal Mal3g3089 Chr3 105923210 105929815 +
Mepo Mepo3g02452 Chr3 34514076 34523362 +
Mibi Mibi02g0722 Chr02 6948666 6955280 +
Mtr Mtr7g2284 Chr7 39233740 39240677 +
Phac Phac1g01130 Chr1 11178259 11187146 -
Phco Phco2g00917 Chr2 11406225 11414595 -
Prci Prci1g3664 Chr1 53232821 53240091 -
Psa Psa3g2159 Chr3 190120910 190126955 -
Pste Pste5g00957 Chr5 6286177 6297479 +
Pumo Pumo5g02105 Chr5 57529243 57538182 -
Rops Rops8g02401 Chr8 55548913 55559575 +
Seca Seca10g05027 Chr10 115770061 115783312 +
Spst Spst1g00247 Chr1 3361793 3362850 -
Ssu Ssu4g1839 Chr4 33503375 33513860 -
Sto Sto8g1619 Chr8 10405623 10412848 -
Tpr Tpr6g1054 Chr6 9928847 9935328 +
Trre Trre13g02834 Chr13 27556053 27562329 -
Tsu Tsu07g02890 Chr07 34120685 34126084 +
Vian Vian2g01584 Chr2 32837312 32847926 +
Vifa Vifa5g00450 Chr5 99586647 99588701 +
Vivi Vivi6g03306 Chr6 124001552 124006365 +
Pvu Pvu1g0862 Chr1 14849735 14852320 +
Pvu Pvu1g0863 Chr1 14852629 14857063 -
Pvu Pvu1g0864 Chr1 14870712 14872316 -
Pvu Pvu1g0865 Chr1 14916196 14920955 -
Car Car03g00601 Chr03 29571151 29588945 -
Lan Lan3g0851 Chr3 16222816 16234430 +
Phco Phco2g00920 Chr2 11461405 11464830 -
Pvu Pvu1g0866 Chr1 14930933 14933651 -
Acco Acco02g0804 Chr02 5704371 5706464 +
Accr Accr2g02906 Chr2 64930778 64932853 -
Adu Adu06g02229 Chr06 93165510 93169114 +
Aed Aed9g1086 Chr9 8021190 8025284 -
Ahy Ahy16g2351 Chr16 129500940 129504619 +
Ahy Ahy6g2018 Chr6 98708379 98712041 +
Aip Aip06g02642 Chr06 115907661 115910265 +
Alju Alju01g0807 Chr01 5991749 5993958 +
Amo Amo16g3067 Chr16 132924558 132927658 +
Apr Apr4g1535 Chr4 16636082 16638878 -
Arst Arst6g02890 Chr6 92380561 92384150 +
Bach Bach8g01386 Chr8 9512233 9514783 -
Bisa Bisa03g3553 Chr03 72249282 72250898 +
Bva Bva04g01912 Chr04 19444381 19447412 +
Car Car03g01796 Chr03 63946520 63948772 +
Cca Cca07g00739 Chr07 11372570 11375257 -
Dere Dere01g2062 Chr01 34653967 34656480 +
Dod Dod01g1871 Chr01 53511088 53514318 +
Enph Enph2g0626 Chr2 4847640 4852461 +
Glsi Glsi12g2113 Chr12 36148657 36156150 +
Lal Lal8g1096 Chr8 9129981 9136212 +
Lapu Lapu1g00499 Chr1 16404805 16407632 -
Lasa Lasa3g02291 Chr3 542343154 542345636 +
Lele Lele05g0637 Chr05 3749132 3751131 +
Lele Lele06g0457 Chr06 2807983 2810007 +
Lele Lele07g0668 Chr07 3809353 3811338 +
Lele Lele08g0470 Chr08 2879929 2881928 +
Lja Lja1g1676 Chr1 18499666 18502111 -
Mal Mal3g3086 Chr3 105896129 105899063 +
Mepo Mepo3g02448 Chr3 34488500 34491486 +
Mesa Mesa25g01736 Chr25 20971487 20973992 -
Mibi Mibi02g0719 Chr02 6923501 6926501 +
Mtr Mtr7g2281 Chr7 39208701 39211408 +
Phco Phco2g00921 Chr2 11476495 11478847 -
Prci Prci1g3670 Chr1 53271368 53273862 -
Pumo Pumo5g02107 Chr5 57560507 57564097 -
Rops Rops8g02398 Chr8 55512483 55515011 +
Seca Seca10g05025 Chr10 115737361 115745593 +
Spst Spst1g00249 Chr1 3402871 3405228 -
Ssu Ssu4g1840 Chr4 33540674 33542963 -
Sto Sto8g1623 Chr8 10427825 10430523 -
Tpr Tpr6g1050 Chr6 9883682 9886514 +
Trre Trre13g02836 Chr13 27596793 27599584 -
Tsu Tsu07g02885 Chr07 34084860 34087271 +
Vian Vian2g01578 Chr2 32769067 32771380 +
Vifa Vifa5g01891 Chr5 547645784 547647882 +
Vivi Vivi6g03302 Chr6 123973228 123975847 +
Pvu Pvu1g0867 Chr1 14986698 14988815 -
Acco Acco02g0803 Chr02 5696340 5698285 +
Accr Accr2g02907 Chr2 64939030 64940364 -
Adu Adu06g02230 Chr06 93204439 93207642 -
Ahy Ahy16g2352 Chr16 129566496 129568914 -
Ahy Ahy6g2020 Chr6 98737106 98739381 -
Aip Aip06g02645 Chr06 116036805 116044233 -
Alju Alju01g0805 Chr01 5985393 5987381 +
Apr Apr4g1537 Chr4 16659586 16661424 -
Arst Arst6g02891 Chr6 92419316 92421483 -
Bva Bva04g01911 Chr04 19438822 19440844 +
Cca Cca07g00740 Chr07 11436554 11439395 -
Dere Dere01g2061 Chr01 34616764 34618744 +
Dod Dod01g1870 Chr01 53471796 53474079 +
Enph Enph2g0625 Chr2 4840468 4843101 +
Glsi Glsi02g0482 Chr02 3071301 3072363 -
Gma Gma16g00430 Chr16 4586155 4590176 -
Gso Gso19g0897 Chr19 35278165 35303093 +
Gso Gso16g0393 Chr16 4477208 4479422 -
Lele Lele05g0636 Chr05 3743641 3744918 +
Lele Lele06g0456 Chr06 2798782 2800662 +
Lele Lele07g0667 Chr07 3802791 3804717 +
Lele Lele08g0469 Chr08 2873322 2874606 +
Lja Lja1g1677 Chr1 18513130 18515367 -
Mibi Mibi02g0718 Chr02 6910527 6912190 +
Phco Phco2g00923 Chr2 11524383 11527647 -
Pste Pste5g00451 Chr5 2948709 2961214 +
Pumo Pumo5g02108 Chr5 57582173 57583853 -
Rops Rops8g02396 Chr8 55482894 55484616 +
Seca Seca10g05023 Chr10 115671969 115673984 +
Spst Spst1g00250 Chr1 3436212 3439012 -
Ssu Ssu4g1841 Chr4 33588940 33598925 -
Sto Sto8g1624 Chr8 10434009 10435142 -
Vian Vian2g01576 Chr2 32720344 32722905 +
Vivi Vivi3g02256 Chr3 37181479 37182935 +
Pvu Pvu1g0868 Chr1 15041588 15041854 -
Pvu Pvu1g0869 Chr1 15051135 15052103 -
Aed Aed9g1088 Chr9 8038761 8043356 -
Gso Gso19g0896 Chr19 35271306 35272743 +
Gso Gso16g0394 Chr16 4480794 4481258 -
Phco Phco2g00928 Chr2 11581331 11582293 -
Pste Pste5g00942 Chr5 6186432 6187337 +
Spst Spst1g00252 Chr1 3450569 3451534 -
Pvu Pvu1g0870 Chr1 15069319 15071621 -
Adu Adu06g02236 Chr06 93388108 93389584 -
Aed Aed9g1092 Chr9 8093584 8095965 -
Ahy Ahy16g2356 Chr16 129765062 129767148 -
Ahy Ahy6g2025 Chr6 98925964 98928116 -
Aip Aip06g02647 Chr06 116209659 116211299 -
Amo Amo06g2455 Chr06 86735195 86737459 -
Apr Apr4g1541 Chr4 16739336 16741614 -
Bach Bach8g01388 Chr8 9533994 9535808 -
Bva Bva04g01908 Chr04 19422899 19424701 +
Car Car03g01789 Chr03 63771531 63774098 +
Cca Cca07g00743 Chr07 11523959 11526207 -
Gma Gma16g00433 Chr16 4617332 4619678 +
Gso Gso19g0894 Chr19 35181847 35184014 +
Gso Gso16g0396 Chr16 4506235 4508602 +
Lal Lal8g1095 Chr8 9119779 9121665 +
Lapu Lapu1g00504 Chr1 16492049 16494755 -
Lasa Lasa3g02286 Chr3 541899384 541900904 +
Lja Lja1g1681 Chr1 18538438 18541107 -
Mal Mal3g3079 Chr3 105758025 105760157 +
Mepo Mepo3g02444 Chr3 34450800 34453378 +
Mesa Mesa25g01742 Chr25 21036771 21038909 -
Mtr Mtr7g2277 Chr7 39173120 39175803 +
Phac Phac1g01146 Chr1 11377532 11380294 -
Phco Phco2g00929 Chr2 11592333 11594325 -
Psa Psa3g2166 Chr3 190409583 190412152 -
Pste Pste5g00929 Chr5 6086412 6088844 +
Pumo Pumo5g02117 Chr5 57698541 57700137 -
Rops Rops8g02392 Chr8 55341940 55344027 +
Seca Seca2g03378 Chr2 103788654 103791773 +
Spst Spst1g00255 Chr1 3523798 3526006 -
Ssu Ssu4g1844 Chr4 33728481 33730258 -
Tpr Tpr6g1043 Chr6 9754943 9757667 +
Trre Trre13g02037 Chr13 17642765 17644479 -
Tsu Tsu07g02877 Chr07 33957717 33960311 +
Vian Vian2g01573 Chr2 32663466 32665362 +
Vifa Vifa5g01878 Chr5 545445357 545446891 +
Vivi Vivi6g03298 Chr6 123813266 123815259 +
Vifa Vifa5g00450 Chr5 99586647 99588701 +
Glsi Glsi02g0482 Chr02 3071301 3072363 -
Gso Gso19g0898 Chr19 35354017 35374451 +
Gso Gso19g0897 Chr19 35278165 35303093 +
Pste Pste5g00451 Chr5 2948709 2961214 +
Lan Lan3g0851 Chr3 16222816 16234430 +
Vivi Vivi3g02256 Chr3 37181479 37182935 +