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
Vvi4g0264 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0265 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0266 Acco10g2104 . Accr4g00684 . Adu10g02102 . . . . . . . . . Alju08g0702 . . . Apr5g1157 . Arst10g02681 . Bach12g00588 . Bisa09g1318 . Bva10g00245 Bva06g02509 . . Cca03g01464 . Dere04g0684 . . . Enph1g1463 . Glsi08g1476 . . . Gma04g00712 Gma06g00699 . . . . . . Lal17g0284 . . . . . . . . . Lapu9g01789 . . . Lele01g0554 Lele02g0549 Lele03g0559 Lele04g0567 . . . . Lja1g3763 . . . . . . . Mibi05g0622 . . . . . Phco7g00870 . Prci15g0871 . Psa5g0580 . . . Pte3g01046 . . . Pumo10g00891 . Pvu9g1064 . Rops10g01521 . Seca4g00788 . Spst9g00903 . Ssu1g3340 . Sto5g0721 Sto9g3224 . . . . . . Vian4g01871 . . . Vimu10g02811 . Viun9g02912 . Vivi4g04936 . Vra5g1091 .
Vvi4g0267 . . . . Adu10g02103 . . . . Aev08g1251 . Ahy20g2318 . Aip10g02746 . . . . Apr5g1158 . Arst10g02682 . . . . . Bva10g00246 . . . Cca03g01465 . . . . . . . . . . . Gma04g00711 . . . . . . . . . . . . . . . . . Lapu9g01790 . . . . . . . . . . . Lja1g3764 . . . . . . . . . . . . . Phco7g00869 . . . Psa5g0579 . Pste2g02059 . . . . . Pumo10g00890 . Pvu9g1063 . . . . . Spst9g00902 . . . Sto5g0722 . . . . . . . Vian4g01872 . . . Vimu10g02812 . Viun9g02913 . . . Vra5g1092 .
Vvi4g0268 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00247 . . . . . . . . . . . . . . . . . . . . . . . . . . Lal10g0074 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0894 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0269 . . . . . . . . . Aev08g1253 . Ahy20g2321 . Aip10g02749 . . . Amo20g3064 . . . . . . . . Bva10g00249 Bva06g02508 . . . . . . . Dod09g1038 . . . . . . . . . . . . . . Lal17g0283 . . . . . . . . . . . . . . . . . . . . . . Lja5g2159 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3227 . . . . . . . . . . . . . . . . . .
Vvi4g0270 . . . . Adu10g02112 . . . . . . . . . . . . . Apr5g1161 . Arst10g02694 . Bach12g00586 . . . . Bva06g02507 . . Cca03g01468 . . . . . . . . . . . Gma04g00708 Gma06g00695 . . . . Lal21g0391 . . . . . Lan3g1483 . . . . . Lapu9g01792 . Lasa5g04210 . . . . . . . . . Lja1g3766 . . . Mepo3g07546 . Mesa9g05231 . . . . . . . Phco7g00867 . . . Psa5g0577 . Pste2g02056 . Pte3g01048 . . . Pumo10g00887 . Pvu9g1061 . Rops10g01519 . Seca4g00791 . Spst9g00900 . Ssu1g3344 . Sto5g0725 . . . Trre5g05370 . . . . . Vifa2g04155 . . . Viun9g02916 . Vivi3g00027 . Vra5g1094 .
Vvi4g0271 Acco10g2100 . Accr4g00689 . Adu10g02113 . . . . Aev08g1257 . Ahy20g2324 . Aip10g02751 Alju08g0706 . . Amo20g3067 Apr5g1162 . Arst10g02695 . Bach12g00585 . Bisa09g1312 . Bva10g00250 Bva06g02506 . . Cca03g01469 . Dere04g0679 . . Dod09g1035 Enph1g1459 . Glsi08g1481 . . . Gma04g00707 Gma06g00694 . . . . Lal21g0390 . Lal17g0282 . . . Lan3g1482 . Lan3g1482 . . . Lapu9g01793 . . . Lele01g0560 Lele02g0553 Lele03g0563 Lele04g0570 . . . . Lja1g3767 . . . . . . . Mibi05g0625 . . . . . Phco7g00866 . Prci15g0874 . Psa5g0576 . Pste2g02052 . Pte3g01049 . . . Pumo10g00886 . Pvu9g1060 . Rops10g01518 . Seca4g00792 . Spst9g00899 . Ssu1g3345 . Sto5g0726 Sto9g3228 . . . . . . Vian4g01874 . . . Vimu10g02814 . Viun9g02917 . . . Vra5g1095 .
Vvi4g0272 Acco10g2099 . Accr4g00690 . Adu10g02115 . . . . Aev08g1258 . Ahy20g2330 . Aip10g02757 Alju08g0707 . . Amo20g3071 Apr5g1163 . Arst10g02697 . Bach12g00584 . Bisa09g1311 . Bva10g00251 Bva06g02505 . . Cca03g01470 . Dere04g0677 . . Dod09g1034 Enph1g1458 . Glsi08g1482 . . . Gma04g00706 Gma06g00693 . . . . Lal21g0389 . Lal17g0281 . . . Lan3g1481 . Lan3g1481 . . . Lapu9g01795 . . . Lele01g0561 Lele02g0554 Lele03g0564 Lele04g0571 . . . . Lja1g3769 . . Mal1g5049 . . . . Mibi05g0626 . . Mtr1g0927 . . . . Prci15g0875 . . . Pste2g02050 . . . . . Pumo10g00885 . Pvu9g1059 . Rops10g01515 . Seca4g00801 . . . Ssu1g3346 . Sto5g0727 Sto9g3229 . Tpr1g3039 . . . Tsu01g01046 Vian4g01875 . . . Vimu10g02816 . Viun9g02919 . Vivi4g04943 . Vra5g1096 .
Vvi4g0273 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00252 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0762 . . . . . . . . . . . . . . . . . . Sto5g0729 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0264 Chr4 2305090 2312210 -
Vvi Vvi4g0265 Chr4 2317071 2324873 -
Vvi Vvi4g0266 Chr4 2329254 2329742 +
Acco Acco10g2104 Chr10 33287096 33287626 -
Accr Accr4g00684 Chr4 6612063 6612593 +
Adu Adu10g02102 Chr10 92991036 92991581 +
Alju Alju08g0702 Chr08 5235196 5235711 +
Apr Apr5g1157 Chr5 16111465 16111959 +
Arst Arst10g02681 Chr10 92275451 92276735 +
Bach Bach12g00588 Chr12 4007361 4007855 -
Bisa Bisa09g1318 Chr09 18977000 18979861 -
Bva Bva10g00245 Chr10 3554000 3554500 +
Bva Bva06g02509 Chr06 15914119 15914628 -
Cca Cca03g01464 Chr03 33133591 33134461 +
Dere Dere04g0684 Chr04 6753503 6754021 -
Enph Enph1g1463 Chr1 40016884 40017366 -
Glsi Glsi08g1476 Chr08 10750067 10750564 -
Gma Gma04g00712 Chr04 6618566 6619081 -
Gma Gma06g00699 Chr06 6355497 6356497 -
Lal Lal17g0284 Chr17 1768413 1768901 -
Lapu Lapu9g01789 Chr9 32764666 32765187 +
Lele Lele01g0554 Chr01 3292724 3293263 +
Lele Lele02g0549 Chr02 3305272 3305775 +
Lele Lele03g0559 Chr03 3318867 3320028 +
Lele Lele04g0567 Chr04 3441613 3442125 +
Lja Lja1g3763 Chr1 47255725 47256748 +
Mibi Mibi05g0622 Chr05 6023781 6024296 +
Phco Phco7g00870 Chr7 6910329 6910814 -
Prci Prci15g0871 Chr15 5625335 5626615 +
Psa Psa5g0580 Chr5 46819788 46821125 -
Pte Pte3g01046 Chr3 8901943 8902401 +
Pumo Pumo10g00891 Chr10 11637285 11638180 -
Pvu Pvu9g1064 Chr9 15660726 15661205 -
Rops Rops10g01521 Chr10 28526658 28527149 -
Seca Seca4g00788 Chr4 13214406 13214789 +
Spst Spst9g00903 Chr9 7900989 7901507 -
Ssu Ssu1g3340 Chr1 86456251 86456760 +
Sto Sto5g0721 Chr5 4909153 4909665 +
Sto Sto9g3224 Chr9 32534545 32540050 +
Vian Vian4g01871 Chr4 35216279 35216797 +
Vimu Vimu10g02811 Chr10 39474259 39474810 +
Viun Viun9g02912 Chr9 37349014 37349878 +
Vivi Vivi4g04936 Chr4 179501422 179502213 -
Vra Vra5g1091 Chr5 17416639 17417557 +
Vvi Vvi4g0267 Chr4 2331522 2332477 -
Adu Adu10g02103 Chr10 92993895 92995231 -
Aev Aev08g1251 Chr08 7862998 7863572 -
Ahy Ahy20g2318 Chr20 126673680 126675940 -
Aip Aip10g02746 Chr10 118759164 118763500 -
Apr Apr5g1158 Chr5 16115973 16116634 -
Arst Arst10g02682 Chr10 92278431 92280133 -
Bva Bva10g00246 Chr10 3556668 3559456 -
Cca Cca03g01465 Chr03 33138166 33138940 -
Gma Gma04g00711 Chr04 6612900 6613951 +
Lapu Lapu9g01790 Chr9 32769518 32770912 -
Lja Lja1g3764 Chr1 47261470 47262378 -
Phco Phco7g00869 Chr7 6905970 6906624 +
Psa Psa5g0579 Chr5 46816755 46817969 +
Pste Pste2g02059 Chr2 20761669 20765594 +
Pumo Pumo10g00890 Chr10 11631780 11632565 +
Pvu Pvu9g1063 Chr9 15643693 15644598 +
Spst Spst9g00902 Chr9 7896280 7896928 +
Sto Sto5g0722 Chr5 4912434 4913846 -
Vian Vian4g01872 Chr4 35221686 35222203 -
Vimu Vimu10g02812 Chr10 39479018 39479557 -
Viun Viun9g02913 Chr9 37352975 37353888 -
Vra Vra5g1092 Chr5 17420898 17421784 -
Vvi Vvi4g0268 Chr4 2332725 2333711 +
Bva Bva10g00247 Chr10 3558343 3559377 +
Lal Lal10g0074 Chr10 849687 859406 -
Psa Psa6g0894 Chr6 33238546 33241824 +
Vvi Vvi4g0269 Chr4 2344376 2360860 +
Aev Aev08g1253 Chr08 7867059 7870991 +
Ahy Ahy20g2321 Chr20 126711122 126713438 +
Aip Aip10g02749 Chr10 118795919 118800231 +
Amo Amo20g3064 Chr20 134359192 134363782 +
Bva Bva10g00249 Chr10 3564573 3574513 +
Bva Bva06g02508 Chr06 15898106 15910047 -
Dod Dod09g1038 Chr09 30842341 30849778 -
Lal Lal17g0283 Chr17 1754124 1766009 -
Lja Lja5g2159 Chr5 33339183 33354230 +
Sto Sto9g3227 Chr9 32553971 32564063 +
Vvi Vvi4g0270 Chr4 2362224 2365333 +
Adu Adu10g02112 Chr10 93093692 93095515 -
Apr Apr5g1161 Chr5 16124810 16126444 -
Arst Arst10g02694 Chr10 92378228 92380388 -
Bach Bach12g00586 Chr12 3987180 3989915 +
Bva Bva06g02507 Chr06 15895032 15897454 +
Cca Cca03g01468 Chr03 33160922 33163700 -
Gma Gma04g00708 Chr04 6599528 6601832 +
Gma Gma06g00695 Chr06 6338493 6340572 +
Lal Lal21g0391 Chr21 2656519 2662457 +
Lan Lan3g1483 Chr3 26348093 26349864 +
Lapu Lapu9g01792 Chr9 32775219 32778092 -
Lasa Lasa5g04210 Chr5 639944115 639945006 -
Lja Lja1g3766 Chr1 47268091 47270394 -
Mepo Mepo3g07546 Chr3 88816214 88818133 -
Mesa Mesa9g05231 Chr9 87037677 87039392 -
Phco Phco7g00867 Chr7 6899616 6902222 +
Psa Psa5g0577 Chr5 46725181 46728587 +
Pste Pste2g02056 Chr2 20748494 20750691 +
Pte Pte3g01048 Chr3 8917879 8920060 -
Pumo Pumo10g00887 Chr10 11620629 11622600 +
Pvu Pvu9g1061 Chr9 15636605 15639474 +
Rops Rops10g01519 Chr10 28510870 28513017 +
Seca Seca4g00791 Chr4 13243806 13246337 -
Spst Spst9g00900 Chr9 7889241 7891929 +
Ssu Ssu1g3344 Chr1 86475917 86478264 -
Sto Sto5g0725 Chr5 4925498 4927632 -
Trre Trre5g05370 Chr5 54440075 54441899 -
Vifa Vifa2g04155 Chr2 1212522263 1212523130 -
Viun Viun9g02916 Chr9 37357907 37360659 -
Vivi Vivi3g00027 Chr3 322602 323857 -
Vra Vra5g1094 Chr5 17430509 17433216 -
Vvi Vvi4g0271 Chr4 2365712 2368814 -
Acco Acco10g2100 Chr10 33254758 33259907 +
Accr Accr4g00689 Chr4 6655950 6660012 -
Adu Adu10g02113 Chr10 93096762 93100745 -
Aev Aev08g1257 Chr08 7877786 7880400 -
Ahy Ahy20g2324 Chr20 126748585 126752425 -
Aip Aip10g02751 Chr10 118827963 118832118 -
Alju Alju08g0706 Chr08 5262757 5268671 -
Amo Amo20g3067 Chr20 134396456 134400555 -
Apr Apr5g1162 Chr5 16127365 16131330 -
Arst Arst10g02695 Chr10 92381854 92385579 -
Bach Bach12g00585 Chr12 3982794 3985764 +
Bisa Bisa09g1312 Chr09 18919735 18925824 +
Bva Bva10g00250 Chr10 3576392 3580082 -
Bva Bva06g02506 Chr06 15891808 15894580 +
Cca Cca03g01469 Chr03 33163925 33168007 -
Dere Dere04g0679 Chr04 6711770 6715007 +
Dod Dod09g1035 Chr09 30827990 30831158 +
Enph Enph1g1459 Chr1 39985323 39989223 +
Glsi Glsi08g1481 Chr08 10792280 10793025 -
Gma Gma04g00707 Chr04 6594635 6598455 +
Gma Gma06g00694 Chr06 6334090 6337742 +
Lal Lal21g0390 Chr21 2652426 2655859 +
Lal Lal17g0282 Chr17 1750668 1753925 +
Lan Lan3g1482 Chr3 26344247 26347504 +
Lan Lan3g1482 Chr3 26344247 26347504 +
Lapu Lapu9g01793 Chr9 32778174 32783284 -
Lele Lele01g0560 Chr01 3319708 3323088 -
Lele Lele02g0553 Chr02 3329045 3332442 -
Lele Lele03g0563 Chr03 3350493 3353614 -
Lele Lele04g0570 Chr04 3462806 3466056 -
Lja Lja1g3767 Chr1 47272131 47275588 -
Mibi Mibi05g0625 Chr05 6048520 6052068 -
Phco Phco7g00866 Chr7 6889567 6897527 +
Prci Prci15g0874 Chr15 5652011 5655858 -
Psa Psa5g0576 Chr5 46719412 46724659 +
Pste Pste2g02052 Chr2 20723447 20729186 +
Pte Pte3g01049 Chr3 8924790 8928397 -
Pumo Pumo10g00886 Chr10 11615300 11619783 +
Pvu Pvu9g1060 Chr9 15630602 15634944 +
Rops Rops10g01518 Chr10 28505230 28509231 +
Seca Seca4g00792 Chr4 13263875 13266794 -
Spst Spst9g00899 Chr9 7884010 7887781 +
Ssu Ssu1g3345 Chr1 86479782 86484911 -
Sto Sto5g0726 Chr5 4928601 4933607 -
Sto Sto9g3228 Chr9 32564389 32568765 -
Vian Vian4g01874 Chr4 35230625 35238252 -
Vimu Vimu10g02814 Chr10 39490729 39498819 -
Viun Viun9g02917 Chr9 37361888 37365940 -
Vra Vra5g1095 Chr5 17434602 17438859 -
Vvi Vvi4g0272 Chr4 2370339 2371898 -
Acco Acco10g2099 Chr10 33251889 33254384 +
Accr Accr4g00690 Chr4 6662072 6663630 -
Adu Adu10g02115 Chr10 93126250 93129392 -
Aev Aev08g1258 Chr08 7882005 7883364 -
Ahy Ahy20g2330 Chr20 126822969 126826007 -
Aip Aip10g02757 Chr10 118892692 118895716 -
Alju Alju08g0707 Chr08 5271959 5273485 -
Amo Amo20g3071 Chr20 134492993 134496117 -
Apr Apr5g1163 Chr5 16132990 16135710 -
Arst Arst10g02697 Chr10 92411271 92414273 -
Bach Bach12g00584 Chr12 3978983 3981596 +
Bisa Bisa09g1311 Chr09 18896462 18898039 +
Bva Bva10g00251 Chr10 3582601 3585253 -
Bva Bva06g02505 Chr06 15886381 15891156 +
Cca Cca03g01470 Chr03 33170770 33173650 -
Dere Dere04g0677 Chr04 6691030 6692570 +
Dod Dod09g1034 Chr09 30819154 30822048 +
Enph Enph1g1458 Chr1 39980323 39984442 +
Glsi Glsi08g1482 Chr08 10794982 10797068 -
Gma Gma04g00706 Chr04 6581614 6591220 +
Gma Gma06g00693 Chr06 6320618 6331472 +
Lal Lal21g0389 Chr21 2648360 2651304 +
Lal Lal17g0281 Chr17 1746893 1749375 +
Lan Lan3g1481 Chr3 26339539 26341918 +
Lan Lan3g1481 Chr3 26339539 26341918 +
Lapu Lapu9g01795 Chr9 32786672 32789871 -
Lele Lele01g0561 Chr01 3324554 3326556 -
Lele Lele02g0554 Chr02 3333509 3338360 -
Lele Lele03g0564 Chr03 3355060 3357174 -
Lele Lele04g0571 Chr04 3467271 3472733 -
Lja Lja1g3769 Chr1 47308523 47311154 -
Mal Mal1g5049 Chr1 121498123 121504022 +
Mibi Mibi05g0626 Chr05 6059354 6066961 -
Mtr Mtr1g0927 Chr1 10660129 10666076 -
Prci Prci15g0875 Chr15 5656999 5660035 -
Pste Pste2g02050 Chr2 20698209 20701259 +
Pumo Pumo10g00885 Chr10 11610401 11612933 +
Pvu Pvu9g1059 Chr9 15625506 15627997 +
Rops Rops10g01515 Chr10 28483957 28486192 +
Seca Seca4g00801 Chr4 13348485 13349704 -
Ssu Ssu1g3346 Chr1 86489901 86491912 -
Sto Sto5g0727 Chr5 4934371 4935899 -
Sto Sto9g3229 Chr9 32570672 32572293 -
Tpr Tpr1g3039 Chr1 34829533 34833379 +
Tsu Tsu01g01046 Chr01 9627367 9629320 -
Vian Vian4g01875 Chr4 35248963 35250581 -
Vimu Vimu10g02816 Chr10 39505034 39506644 -
Viun Viun9g02919 Chr9 37368961 37371521 -
Vivi Vivi4g04943 Chr4 179573624 179575674 -
Vra Vra5g1096 Chr5 17442486 17444975 -
Vvi Vvi4g0273 Chr4 2385966 2387587 +
Bva Bva10g00252 Chr10 3586516 3589013 +
Psa Psa6g0762 Chr6 26833744 26836287 +
Sto Sto5g0729 Chr5 4939134 4940911 +
Psa Psa6g0894 Chr6 33238546 33241824 +
Mal Mal1g5049 Chr1 121498123 121504022 +
Mtr Mtr1g0927 Chr1 10660129 10666076 -
Tpr Tpr1g3039 Chr1 34829533 34833379 +
Tsu Tsu01g01046 Chr01 9627367 9629320 -