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
Vvi18g0116 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0117 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0118 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0119 . . . . . . . . Aev08g0143 . Ahy17g2177 . Aip07g02324 . . . Amo17g2026 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal21g0081 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0050 . . . . . . . . . . . . . . . . . . .
Vvi18g0120 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0121 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0122 . . . . . . Aed11g0008 . . . . . . . . . . . . . . . . . . . Bva06g01842 . . . Cca05g00428 . . . . . . . . . . . Gma14g02182 . . . . . . . . . . . . . . . . . . Lapu8g01066 . Lasa6g00342 . . . . . . . . . Lja5g3361 . . . Mepo4g01948 . Mesa1g00010 . . Mtr1g0767 . . . . Phco2g00015 . . . . . . . . . . . Pumo9g00014 . Pvu1g0014 . Rops9g02543 . Seca8g04153 . Spst8g02082 Ssu5g0013 . . Sto9g3740 . . . . . . . Vian7g00951 . . . . . Viun8g00032 . Vivi4g05991 Vra6g1990 .
Vvi18g0123 . . . . . . . Aed9g0166 Aev08g0145 . Ahy17g2181 . Aip07g02328 . . . Amo17g2030 . . . . . . . . . Bva06g01843 Bva10g00998 . Car05g03317 . Cca07g00208 . . . . . . . . Gma04g00169 Gma06g00160 . . Gso4g0160 Gso4g0160 . . . Lal17g0042 . . . . . . . . . . . . . . . . . . . . . . Lja1g3442 . . Mal2g0403 . . . . . . . Mtr3g4337 . . . . . . . Psa5g0267 . . . . . . . . Pvu9g0107 . Rops10g02530 . . . . . . . . Sto9g3739 . Tpr7g0170 . . . Tsu07g00193 Vian4g02452 . . . . . Viun9g03748 . . . . Vra5g1709
Vvi18g0124 . . . . . . . Aed9g0167 Aev08g0146 Aev07g2388 Ahy17g2183 Ahy16g0012 Aip07g02332 Aip06g00012 . . Amo17g2033 . . . . . . . . . Bva06g01844 Bva10g00997 Car04g03046 Car05g03316 . Cca07g00209 . . . . . . . . Gma04g00170 Gma06g00161 . . Gso4g0161 Gso4g0161 . . . . Lal21g0084 . . . . . . . . . . . . . . . . . . . . . Lja1g3443 . . Mal2g0404 Mepo3g07787 . . . . . . Mtr3g4336 . . . . . . . Psa5g0268 . . . . . . . . Pvu9g0105 . . . . . . . . . Sto5g0054 . . Tpr7g0171 . . . Tsu07g00194 Vian4g02451 . . . . . Viun9g03747 . . . . Vra5g1708
Vvi18g0125 . . . . . . . Aed9g0168 Aev08g0147 . Ahy17g2184 . Aip07g02333 . . . Amo17g2036 . . . . . . . . . Bva06g01845 Bva10g00996 . Car05g03315 . Cca07g00210 . . . . . . . . Gma04g00171 Gma06g00162 . . Gso4g0162 Gso4g0162 . . Lal4g0048 . . . . . Lan14g0968 . . . . . . . . . . . . . . . . . Lja1g3444 . . Mal2g0405 . . . . . . . Mtr3g4335 . . . . . . . Psa5g0269 . . . . . . . . Pvu9g0104 . Rops10g02529 . . . . . . . Sto5g0056 . . Tpr7g0172 . . . Tsu07g00198 Vian4g02450 . . . . . Viun9g03745 . . . . Vra5g1707
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0116 Chr18 1054808 1057574 -
Vvi Vvi18g0117 Chr18 1080115 1080420 +
Vvi Vvi18g0118 Chr18 1086146 1087799 -
Vvi Vvi18g0119 Chr18 1093178 1093890 +
Aev Aev08g0143 Chr08 820247 820992 -
Ahy Ahy17g2177 Chr17 104131632 104132569 -
Aip Aip07g02324 Chr07 96769554 96770445 -
Amo Amo17g2026 Chr17 103545799 103546564 -
Lal Lal21g0081 Chr21 570553 571463 -
Sto Sto5g0050 Chr5 314675 321638 -
Vvi Vvi18g0120 Chr18 1095853 1099309 -
Vvi Vvi18g0121 Chr18 1102012 1108830 -
Vvi Vvi18g0122 Chr18 1112216 1129335 +
Aed Aed11g0008 Chr11 53286 63757 +
Bva Bva06g01842 Chr06 12672847 12679252 +
Cca Cca05g00428 Chr05 9392832 9406885 -
Gma Gma14g02182 Chr14 52952048 52970778 -
Lapu Lapu8g01066 Chr8 28634295 28645424 -
Lasa Lasa6g00342 Chr6 9831316 9838957 +
Lja Lja5g3361 Chr5 65721325 65725038 -
Mepo Mepo4g01948 Chr4 24696553 24701164 +
Mesa Mesa1g00010 Chr1 133781 134203 -
Mtr Mtr1g0767 Chr1 8625399 8632692 +
Phco Phco2g00015 Chr2 169533 180067 +
Pumo Pumo9g00014 Chr9 276494 286424 +
Pvu Pvu1g0014 Chr1 194851 202568 +
Rops Rops9g02543 Chr9 47718093 47727090 +
Seca Seca8g04153 Chr8 118444311 118455124 -
Spst Spst8g02082 Chr8 28857908 28863879 -
Ssu Ssu5g0013 Chr5 192864 202557 +
Sto Sto9g3740 Chr9 35576553 35587225 -
Vian Vian7g00951 Chr7 17692149 17701021 -
Viun Viun8g00032 Chr8 183035 191175 +
Vivi Vivi4g05991 Chr4 197163894 197172099 +
Vra Vra6g1990 Chr6 36595903 36606402 +
Vvi Vvi18g0123 Chr18 1130099 1133306 -
Aed Aed9g0166 Chr9 1192854 1202252 -
Aev Aev08g0145 Chr08 826053 833737 -
Ahy Ahy17g2181 Chr17 104192999 104196260 -
Aip Aip07g02328 Chr07 96829716 96832886 -
Amo Amo17g2030 Chr17 103606700 103610052 -
Bva Bva06g01843 Chr06 12679391 12682975 -
Bva Bva10g00998 Chr10 7336132 7340744 +
Car Car05g03317 Chr05 77877746 77882824 +
Cca Cca07g00208 Chr07 2661336 2669890 -
Gma Gma04g00169 Chr04 1449174 1453230 -
Gma Gma06g00160 Chr06 1416667 1420814 -
Gso Gso4g0160 Chr4 1424178 1428213 -
Gso Gso4g0160 Chr4 1424178 1428213 -
Lal Lal17g0042 Chr17 252342 259758 -
Lja Lja1g3442 Chr1 42945426 42949074 -
Mal Mal2g0403 Chr2 4508909 4512629 -
Mtr Mtr3g4337 Chr3 57300242 57304575 +
Psa Psa5g0267 Chr5 19730235 19735658 +
Pvu Pvu9g0107 Chr9 1748707 1753388 +
Rops Rops10g02530 Chr10 44142471 44146628 +
Sto Sto9g3739 Chr9 35569856 35575207 +
Tpr Tpr7g0170 Chr7 1405927 1410533 -
Tsu Tsu07g00193 Chr07 1450535 1454814 -
Vian Vian4g02452 Chr4 41144038 41148294 +
Viun Viun9g03748 Chr9 42481055 42485944 +
Vra Vra5g1709 Chr5 23371299 23375638 +
Vvi Vvi18g0124 Chr18 1137027 1143920 +
Aed Aed9g0167 Chr9 1206066 1211744 +
Aev Aev08g0146 Chr08 834766 838541 +
Aev Aev07g2388 Chr07 24574763 24579172 -
Ahy Ahy17g2183 Chr17 104530890 104536427 +
Ahy Ahy16g0012 Chr16 127087 132804 +
Aip Aip07g02332 Chr07 97138289 97143392 +
Aip Aip06g00012 Chr06 111332 117053 +
Amo Amo17g2033 Chr17 103847788 103853052 +
Bva Bva06g01844 Chr06 12683248 12688057 +
Bva Bva10g00997 Chr10 7328304 7335075 -
Car Car04g03046 Chr04 58381900 58383674 +
Car Car05g03316 Chr05 77867199 77874527 -
Cca Cca07g00209 Chr07 2669740 2677423 +
Gma Gma04g00170 Chr04 1456635 1463171 +
Gma Gma06g00161 Chr06 1425728 1433194 +
Gso Gso4g0161 Chr4 1431494 1438200 +
Gso Gso4g0161 Chr4 1431494 1438200 +
Lal Lal21g0084 Chr21 580210 591194 +
Lja Lja1g3443 Chr1 42951636 42957694 +
Mal Mal2g0404 Chr2 4530362 4535269 +
Mepo Mepo3g07787 Chr3 91037875 91045754 +
Mtr Mtr3g4336 Chr3 57284061 57291869 -
Psa Psa5g0268 Chr5 19767533 19785007 +
Pvu Pvu9g0105 Chr9 1716659 1725085 -
Sto Sto5g0054 Chr5 351817 357331 +
Tpr Tpr7g0171 Chr7 1412385 1419063 +
Tsu Tsu07g00194 Chr07 1459441 1467467 +
Vian Vian4g02451 Chr4 41125001 41130026 -
Viun Viun9g03747 Chr9 42472177 42478169 -
Vra Vra5g1708 Chr5 23362443 23368551 -
Vvi Vvi18g0125 Chr18 1145484 1156471 -
Aed Aed9g0168 Chr9 1212017 1218683 -
Aev Aev08g0147 Chr08 839527 843770 -
Ahy Ahy17g2184 Chr17 104543347 104550661 -
Aip Aip07g02333 Chr07 97149750 97156819 -
Amo Amo17g2036 Chr17 103972709 103979461 -
Bva Bva06g01845 Chr06 12688512 12693743 -
Bva Bva10g00996 Chr10 7321877 7328299 +
Car Car05g03315 Chr05 77860361 77867020 +
Cca Cca07g00210 Chr07 2678011 2696306 -
Gma Gma04g00171 Chr04 1463243 1470659 -
Gma Gma06g00162 Chr06 1433272 1441140 -
Gso Gso4g0162 Chr4 1438392 1445690 -
Gso Gso4g0162 Chr4 1438392 1445690 -
Lal Lal4g0048 Chr4 287768 296100 -
Lan Lan14g0968 Chr14 16002596 16009066 +
Lja Lja1g3444 Chr1 42957923 42964294 -
Mal Mal2g0405 Chr2 4536462 4542308 -
Mtr Mtr3g4335 Chr3 57277055 57283690 +
Psa Psa5g0269 Chr5 19784729 19790752 -
Pvu Pvu9g0104 Chr9 1705549 1716498 +
Rops Rops10g02529 Chr10 44116348 44124882 +
Sto Sto5g0056 Chr5 361354 370145 -
Tpr Tpr7g0172 Chr7 1421633 1427784 -
Tsu Tsu07g00198 Chr07 1480161 1486465 -
Vian Vian4g02450 Chr4 41114286 41124028 +
Viun Viun9g03745 Chr9 42461393 42471972 +
Vra Vra5g1707 Chr5 23352277 23362252 +