Hierarchical alignments with the V. vinifera 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 Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi18g1576 Acco01g0163 . . . Adu05g03491 . . . Aev09g2135 . Ahy19g2814 . Aip09g03280 . . . Amo19g3580 . . Apr6g1286 Arst5g04483 . Bach1g00024 . Bisa01g0862 . . . Car04g01124 . . . . . Dod06g0885 . Enph12g0831 . Glsi01g1341 . Gma10g02150 Gma20g01564 Gma16g01496 . Gso10g2015 Gso10g2015 Gso10g2015 . . Lal12g0086 Lal24g0071 . Lal2g0981 Lal9g0861 . . . . . . . . Lasa1g02527 . Lele45g0108 Lele46g0133 Lele47g1193 . . . . . Lja5g0717 Lja2g2749 Mal1g2155 . Mepo5g04079 . Mesa22g01513 . . . Mtr1g3653 . . . Phco5g00944 . . . . . Pste9g01021 . . . . . Pumo6g02398 . Pvu4g1018 . . . . . Spst4g03362 . . . Sto10g2166 . Tpr1g0848 . Trre11g00999 . Tsu01g04305 . . . Vifa1g04752 . . . . . Vivi2g05221 . . .
Vvi18g1577 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1578 Acco01g0160 . . . Adu05g03489 . . . . . . . . . Alju02g3741 . . . . Apr6g1283 Arst5g04481 . Bach1g00025 . Bisa01g0861 . . . . . . . Dere06g1245 . . . . . Glsi01g1342 . . . Gma16g01498 . . . . . . . . . Lal2g0980 . . . . . . . Lapu4g00842 . . . Lele45g0106 Lele46g0132 Lele47g1194 Lele48g1325 . . . . . Lja2g2747 . . . . . . Mibi01g3503 . . . . . Phco5g00940 . Prci14g2272 . . . Pste9g01023 . Pte16g00354 Pte9g00430 . . Pumo6g02401 . Pvu4g1020 . . . Seca10g03645 . Spst4g03359 . . . Sto10g2186 . . . . . . . Vian8g00892 . . . . . Viun4g01852 . . . . .
Vvi18g1579 . . . . . . . . Aev09g2059 . Ahy19g2714 . Aip09g03175 . . . Amo19g3443 . . . . . . . . . . . . . . . . . Dod06g0970 . . . . . . . . . . . . . . . Lal24g0096 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1580 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1581 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1582 Acco01g0159 . . . Adu05g03488 . . . . . Ahy19g2815 . Aip09g03281 . . . Amo19g3581 . . Apr6g1282 Arst5g04480 . . . Bisa01g0860 . . . . . . . Dere06g1244 . . . Enph12g0829 . Glsi01g1343 . Gma10g02151 Gma20g01563 Gma16g01499 . Gso10g2016 Gso10g2016 Gso10g2016 . . . . . Lal2g0979 . . . . . . . Lapu4g00841 . Lasa1g02742 . Lele45g0105 Lele46g0131 Lele47g1195 . . . . . Lja5g0716 Lja2g2746 . . Mepo5g04078 . Mesa22g01514 . . . . . . . Phco5g00939 . . . . . Pste9g01025 . . Pte9g00428 . . Pumo6g02402 . Pvu4g1021 . . . Seca10g03646 . Spst4g03358 . . . Sto10g2187 . . . Trre11g00996 . . . Vian8g00893 . Vifa1g04762 . Vimu8g02602 . Viun4g01854 . Vivi2g05219 . . .
Vvi18g1583 . . . . . . . . . . . . . . . . . . . Apr6g1281 . . . . . . . . Car04g01125 . . . . . . . . . . . Gma10g02152 Gma20g01562 . . Gso10g2017 Gso10g2017 . . . Lal12g0084 . . . . . . . . . . Lapu7g01957 . Lasa6g03976 . . . . . . . . . Lja5g0715 . Mal1g2154 . Mepo4g04160 . Mesa1g04528 . . . Mtr1g3654 . Phac7g01205 . Phco6g02382 . . . Psa6g4403 . Pste4g02629 . . Pte9g00427 . . Pumo3g01120 . Pvu7g0817 . Rops6g02604 . Seca10g03659 . Spst10g00872 . . . . . Tpr1g0847 . Trre1g05251 . Tsu01g04306 . Vian3g00708 . Vifa3g02798 . Vimu3g02942 . Viun7g03136 . Vivi1g04512 . . .
Vvi18g1584 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car04g01126 . . . . . . . . . . . Gma10g02153 . . . Gso10g2018 . . . . Lal12g0083 . . . . . . . . . . Lapu7g01958 . . . . . . . . . . . Lja5g0714 Lja2g2863 Mal1g2153 . Mepo4g04161 . Mesa1g04529 . . . Mtr1g3655 . Phac7g01204 . Phco6g02384 . . . Psa6g4404 . . . . . . . Pumo3g01119 . Pvu7g0816 . Rops6g02606 . Seca8g07280 . Spst10g00873 . . . . Sto8g2323 Tpr1g0846 . Trre1g05252 . Tsu01g04307 . Vian3g00707 . Vifa3g02799 . Vimu3g02943 . Viun7g03137 . Vivi1g04511 . . .
Vvi18g1585 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca08g00881 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g1576 Chr18 19919361 19920683 -
Acco Acco01g0163 Chr01 1631801 1633147 +
Adu Adu05g03491 Chr05 107450301 107452285 +
Aev Aev09g2135 Chr09 24390013 24391356 -
Ahy Ahy19g2814 Chr19 150181415 150184240 -
Aip Aip09g03280 Chr09 138927696 138930131 -
Amo Amo19g3580 Chr19 150496915 150499718 -
Apr Apr6g1286 Chr6 17820604 17824169 +
Arst Arst5g04483 Chr5 106128532 106131182 +
Bach Bach1g00024 Chr1 263252 265471 -
Bisa Bisa01g0862 Chr01 14304598 14305944 +
Car Car04g01124 Chr04 11438565 11439914 -
Dod Dod06g0885 Chr06 11169712 11172309 +
Enph Enph12g0831 Chr12 14835196 14836542 +
Glsi Glsi01g1341 Chr01 67994665 67996617 -
Gma Gma10g02150 Chr10 49025757 49028005 -
Gma Gma20g01564 Chr20 42678482 42681192 +
Gma Gma16g01496 Chr16 34390189 34391520 -
Gso Gso10g2015 Chr10 47147373 47149626 -
Gso Gso10g2015 Chr10 47147373 47149626 -
Gso Gso10g2015 Chr10 47147373 47149626 -
Lal Lal12g0086 Chr12 588091 589036 +
Lal Lal24g0071 Chr24 438591 441682 +
Lal Lal2g0981 Chr2 6629912 6635667 +
Lal Lal9g0861 Chr9 6384814 6388393 +
Lasa Lasa1g02527 Chr1 335979400 335982160 +
Lele Lele45g0108 Chr45 982365 984292 +
Lele Lele46g0133 Chr46 755847 757193 +
Lele Lele47g1193 Chr47 17404833 17406179 -
Lja Lja5g0717 Chr5 6546890 6550942 +
Lja Lja2g2749 Chr2 41540109 41542392 -
Mal Mal1g2155 Chr1 28374649 28376001 +
Mepo Mepo5g04079 Chr5 51739542 51741746 +
Mesa Mesa22g01513 Chr22 31069043 31070398 -
Mtr Mtr1g3653 Chr1 48219433 48223888 -
Phco Phco5g00944 Chr5 14246591 14247919 +
Pste Pste9g01021 Chr9 6941400 6943337 -
Pumo Pumo6g02398 Chr6 48062150 48063391 -
Pvu Pvu4g1018 Chr4 26802474 26805894 -
Spst Spst4g03362 Chr4 73609165 73610499 +
Sto Sto10g2166 Chr10 31609100 31612090 -
Tpr Tpr1g0848 Chr1 7160265 7163335 +
Trre Trre11g00999 Chr11 9101149 9102489 +
Tsu Tsu01g04305 Chr01 50863732 50865964 -
Vifa Vifa1g04752 Chr1 742937752 742939089 -
Vivi Vivi2g05221 Chr2 175295781 175297771 +
Vvi Vvi18g1577 Chr18 19935459 19938061 +
Vvi Vvi18g1578 Chr18 19951296 19958639 +
Acco Acco01g0160 Chr01 1618974 1621033 -
Adu Adu05g03489 Chr05 107442016 107443003 -
Alju Alju02g3741 Chr02 56431940 56434644 +
Apr Apr6g1283 Chr6 17756410 17759585 -
Arst Arst5g04481 Chr5 106120135 106121443 -
Bach Bach1g00025 Chr1 267552 271290 +
Bisa Bisa01g0861 Chr01 14258950 14261298 -
Dere Dere06g1245 Chr06 24320105 24322862 -
Glsi Glsi01g1342 Chr01 68015363 68017785 +
Gma Gma16g01498 Chr16 34403291 34406288 +
Lal Lal2g0980 Chr2 6625591 6628907 -
Lapu Lapu4g00842 Chr4 21105901 21108419 -
Lele Lele45g0106 Chr45 975134 977287 -
Lele Lele46g0132 Chr46 749746 751860 -
Lele Lele47g1194 Chr47 17415717 17417870 +
Lele Lele48g1325 Chr48 17455819 17457982 +
Lja Lja2g2747 Chr2 41432130 41434675 -
Mibi Mibi01g3503 Chr01 61350704 61352745 +
Phco Phco5g00940 Chr5 14197609 14200174 -
Prci Prci14g2272 Chr14 29854915 29857315 +
Pste Pste9g01023 Chr9 6971108 6974207 +
Pte Pte16g00354 Chr16 4663335 4665576 -
Pte Pte9g00430 Chr9 5167248 5169741 -
Pumo Pumo6g02401 Chr6 48119948 48122428 +
Pvu Pvu4g1020 Chr4 26893212 26896202 +
Seca Seca10g03645 Chr10 69727997 69731728 +
Spst Spst4g03359 Chr4 73592849 73595936 -
Sto Sto10g2186 Chr10 31855232 31858204 +
Vian Vian8g00892 Chr8 21386602 21389059 +
Viun Viun4g01852 Chr4 33260896 33264023 +
Vvi Vvi18g1579 Chr18 19959801 20018606 -
Aev Aev09g2059 Chr09 23772698 23785987 +
Ahy Ahy19g2714 Chr19 148385932 148398350 +
Aip Aip09g03175 Chr09 137076908 137093043 +
Amo Amo19g3443 Chr19 147774333 147789753 +
Dod Dod06g0970 Chr06 12364705 12378891 -
Lal Lal24g0096 Chr24 637381 650670 -
Vvi Vvi18g1580 Chr18 20019218 20019480 -
Vvi Vvi18g1581 Chr18 20030815 20031048 -
Vvi Vvi18g1582 Chr18 20041893 20046589 -
Acco Acco01g0159 Chr01 1612749 1618252 +
Adu Adu05g03488 Chr05 107438955 107441540 +
Ahy Ahy19g2815 Chr19 150201922 150204115 -
Aip Aip09g03281 Chr09 138947016 138949656 -
Amo Amo19g3581 Chr19 150509851 150512252 -
Apr Apr6g1282 Chr6 17742735 17746863 +
Arst Arst5g04480 Chr5 106117135 106120106 +
Bisa Bisa01g0860 Chr01 14252172 14256695 +
Dere Dere06g1244 Chr06 24314362 24319429 +
Enph Enph12g0829 Chr12 14821399 14822455 +
Glsi Glsi01g1343 Chr01 68018861 68023238 -
Gma Gma10g02151 Chr10 49030167 49034350 -
Gma Gma20g01563 Chr20 42671125 42675918 +
Gma Gma16g01499 Chr16 34407382 34412657 -
Gso Gso10g2016 Chr10 47151607 47155988 -
Gso Gso10g2016 Chr10 47151607 47155988 -
Gso Gso10g2016 Chr10 47151607 47155988 -
Lal Lal2g0979 Chr2 6620561 6625923 +
Lapu Lapu4g00841 Chr4 21098231 21104475 +
Lasa Lasa1g02742 Chr1 534718792 534723962 -
Lele Lele45g0105 Chr45 971049 974367 +
Lele Lele46g0131 Chr46 745433 748987 +
Lele Lele47g1195 Chr47 17418636 17422384 -
Lja Lja5g0716 Chr5 6539693 6543732 +
Lja Lja2g2746 Chr2 41425723 41429902 +
Mepo Mepo5g04078 Chr5 51728710 51735412 +
Mesa Mesa22g01514 Chr22 31073634 31079769 -
Phco Phco5g00939 Chr5 14189647 14196121 +
Pste Pste9g01025 Chr9 6979856 6983476 -
Pte Pte9g00428 Chr9 5160858 5165839 +
Pumo Pumo6g02402 Chr6 48123861 48129640 -
Pvu Pvu4g1021 Chr4 26898781 26905070 -
Seca Seca10g03646 Chr10 69738398 69744040 -
Spst Spst4g03358 Chr4 73586798 73590898 +
Sto Sto10g2187 Chr10 31859127 31865999 -
Trre Trre11g00996 Chr11 9068415 9074172 +
Vian Vian8g00893 Chr8 21390355 21395786 -
Vifa Vifa1g04762 Chr1 744027727 744033547 -
Vimu Vimu8g02602 Chr8 35411961 35417345 +
Viun Viun4g01854 Chr4 33265015 33270779 -
Vivi Vivi2g05219 Chr2 175240733 175246307 +
Vvi Vvi18g1583 Chr18 20094449 20139887 +
Apr Apr6g1281 Chr6 17712117 17731709 -
Car Car04g01125 Chr04 11459198 11468219 +
Gma Gma10g02152 Chr10 49037484 49048056 +
Gma Gma20g01562 Chr20 42654600 42665924 -
Gso Gso10g2017 Chr10 47158799 47169416 +
Gso Gso10g2017 Chr10 47158799 47169416 +
Lal Lal12g0084 Chr12 576815 582745 -
Lapu Lapu7g01957 Chr7 35740137 35751097 +
Lasa Lasa6g03976 Chr6 609221111 609228790 +
Lja Lja5g0715 Chr5 6527908 6537130 -
Mal Mal1g2154 Chr1 28354678 28362215 -
Mepo Mepo4g04160 Chr4 51434027 51441502 +
Mesa Mesa1g04528 Chr1 71134556 71141892 +
Mtr Mtr1g3654 Chr1 48231444 48238875 +
Phac Phac7g01205 Chr7 7893632 7904901 -
Phco Phco6g02382 Chr6 45064156 45073734 +
Psa Psa6g4403 Chr6 388515592 388516697 -
Pste Pste4g02629 Chr4 18576522 18588191 +
Pte Pte9g00427 Chr9 5140211 5146349 -
Pumo Pumo3g01120 Chr3 17968679 17978717 -
Pvu Pvu7g0817 Chr7 7532053 7542411 -
Rops Rops6g02604 Chr6 46826989 46842185 +
Seca Seca10g03659 Chr10 69943264 69944229 +
Spst Spst10g00872 Chr10 9305174 9309500 +
Tpr Tpr1g0847 Chr1 7146252 7154564 -
Trre Trre1g05251 Chr1 58538420 58550573 +
Tsu Tsu01g04306 Chr01 50870294 50878785 +
Vian Vian3g00708 Chr3 7370409 7379466 -
Vifa Vifa3g02798 Chr3 781363731 781373624 +
Vimu Vimu3g02942 Chr3 43465723 43480901 +
Viun Viun7g03136 Chr7 33961501 33972094 +
Vivi Vivi1g04512 Chr1 96284544 96295107 -
Vvi Vvi18g1584 Chr18 20143132 20144391 +
Car Car04g01126 Chr04 11470298 11473398 +
Gma Gma10g02153 Chr10 49049146 49050677 +
Gso Gso10g2018 Chr10 47170981 47172870 +
Lal Lal12g0083 Chr12 573856 575121 -
Lapu Lapu7g01958 Chr7 35752594 35754691 +
Lja Lja5g0714 Chr5 6524709 6526621 -
Lja Lja2g2863 Chr2 46617745 46619794 -
Mal Mal1g2153 Chr1 28352103 28353389 -
Mepo Mepo4g04161 Chr4 51444134 51449577 +
Mesa Mesa1g04529 Chr1 71147414 71148673 +
Mtr Mtr1g3655 Chr1 48243479 48245815 +
Phac Phac7g01204 Chr7 7891542 7892792 -
Phco Phco6g02384 Chr6 45075046 45076296 +
Psa Psa6g4404 Chr6 388521326 388524509 -
Pumo Pumo3g01119 Chr3 17966605 17967751 -
Pvu Pvu7g0816 Chr7 7529861 7531021 -
Rops Rops6g02606 Chr6 46843961 46847122 +
Seca Seca8g07280 Chr8 169260252 169263061 +
Spst Spst10g00873 Chr10 9311102 9312343 +
Sto Sto8g2323 Chr8 15633034 15634602 -
Tpr Tpr1g0846 Chr1 7143205 7145160 -
Trre Trre1g05252 Chr1 58552058 58553326 +
Tsu Tsu01g04307 Chr01 50879944 50881925 +
Vian Vian3g00707 Chr3 7366780 7368033 -
Vifa Vifa3g02799 Chr3 781631695 781632960 +
Vimu Vimu3g02943 Chr3 43483012 43484076 +
Viun Viun7g03137 Chr7 33972547 33974387 +
Vivi Vivi1g04511 Chr1 96255700 96259009 -
Vvi Vvi18g1585 Chr18 20146103 20146513 -
Cca Cca08g00881 Chr08 19828433 19828843 +