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
Vvi4g0244 . . . . . Adu06g02746 . . Aev07g1551 . Ahy16g3044 . Aip06g03274 . . . . . . Apr9g0113 . Arst6g03566 . . . . . . Car05g03030 Car04g03117 . Cca05g00602 . . Dod08g1602 . . . . . Gma14g01201 Gma17g01907 . . . . . . . . . . Lal8g1530 . . . . . . . . Lapu8g00548 . Lasa5g04166 . . . . . . . . . Lja5g2792 Mal2g0780 . . . . Mesa1g00759 . . Mtr3g3997 . . Phac1g00791 . Phco2g00677 . . Psa5g0595 . . Pste8g00646 . . . Pte2g02183 . Pumo9g00732 . Pvu1g0599 . Rops9g01817 . Seca4g00834 . Spst8g01654 . . . . Tpr7g0518 . . Trre1g00803 Tsu07g00553 . . Vian7g00356 . Vifa3g04460 . Vimu1g02503 . Viun8g00887 . Vivi4g04975 . Vra6g1502
Vvi4g0245 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0246 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0247 . Acco05g2345 . Accr3g00667 . Adu06g02748 . Aed6g1071 . . Ahy16g3046 Ahy18g2553 Aip06g03276 Aip08g02942 . Alju07g2311 . . . Apr9g0115 . Arst6g03570 . . . Bisa05g1363 . . Car05g03029 Car04g03119 . Cca05g00600 . Dere05g2073 Dod08g1604 Dod09g1001 . Enph7g1020 . Glsi10g0790 Gma14g01196 Gma17g01904 . . Gso14g1079 Gso14g1079 . . . . . Lal25g1087 Lal8g1531 . . . . . . . . Lapu8g00550 . Lasa6g00674 . . . . Lele25g0558 Lele26g0572 Lele27g1521 . . Lja5g2794 Mal2g0783 . . Mepo4g00714 . Mesa1g00753 . Mibi08g2030 Mtr3g3996 . . Phac1g00787 . Phco2g00675 . Prci2g0905 . . . Pste8g00662 . . . Pte2g02181 . Pumo9g00730 . Pvu1g0597 . Rops9g01819 . Seca4g00839 . Spst8g01646 . Ssu5g0652 . . Tpr7g0520 . . Trre1g00787 Tsu07g00555 . . Vian7g00358 . Vifa3g00344 . Vimu1g02508 . Viun8g00885 . Vivi4g04997 . Vra6g1504
Vvi4g0248 . Acco05g2343 . Accr3g00669 . Adu06g02750 . Aed6g1072 Aev07g1372 . Ahy16g3049 . Aip06g03278 . . Alju07g2309 . . . Apr9g0116 . Arst6g03572 . . . Bisa05g1364 . . . Car04g03120 . Cca05g00598 . Dere05g2074 Dod08g1606 . . Enph7g1018 . Glsi10g0789 . Gma17g01903 . . . . . . . . . . Lal8g1534 . . . . . . . . Lapu8g00551 . Lasa6g00673 . . . . Lele25g0559 Lele26g0573 Lele27g1519 Lele28g0561 . Lja5g2795 . . . Mepo4g00713 . Mesa1g00752 . Mibi08g2028 . . . Phac1g01116 . Phco2g00674 . Prci2g0908 . . . Pste8g00680 . . . Pte2g02180 . Pumo9g00729 . Pvu1g0596 . Rops9g01821 . Seca8g02979 . Spst8g01645 . Ssu5g0649 . . . . . Trre1g00786 . . . Vian7g00359 . Vifa3g04469 . Vimu1g02509 . Viun8g00882 . Vivi4g05001 . Vra6g1505
Vvi4g0249 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0250 . . . . . Adu06g02751 . Aed6g1075 . . Ahy16g3050 . Aip06g03279 . . . . . . Apr9g0117 . Arst6g03573 . . . . . . . Car04g03121 . Cca05g00596 . . Dod08g1607 . . . . . Gma14g01194 Gma17g01902 . . Gso14g1078 Gso14g1078 . . . . . Lal25g1086 . . . . . . . . . Lapu8g00552 . Lasa6g00672 . . . . . . . . . Lja5g2796 . . . . . Mesa1g00751 . . . . . Phac1g00783 . Phco2g00673 . . . . . Pste8g00686 . . . Pte2g02179 . Pumo9g00728 . Pvu1g0595 . Rops9g01822 . Seca8g02981 . Spst8g01644 . Ssu5g0647 . . . . . Trre1g00785 . . . Vian7g00361 . . . Vimu1g02512 . Viun8g00880 . Vivi4g05003 . Vra6g1507
Vvi4g0251 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0252 . . . . . . . . . . . Ahy18g2554 . Aip08g02943 . . . . . . . . . . . . . . Car05g03027 . . . . . . Dod09g0999 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0785 . . . . . . . Mtr3g3994 . . . . . . . Psa5g0587 . . . . . . . . . . . . . . . . . . . . . Tpr7g0523 . . . Tsu07g00558 . . . . . . . . . . . . .
Vvi4g0253 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0244 Chr4 2140548 2143683 -
Adu Adu06g02746 Chr06 104398197 104399985 -
Aev Aev07g1551 Chr07 15625630 15627057 -
Ahy Ahy16g3044 Chr16 145885648 145887021 -
Aip Aip06g03274 Chr06 129083513 129085318 -
Apr Apr9g0113 Chr9 1396292 1397236 -
Arst Arst6g03566 Chr6 103593020 103594393 -
Car Car05g03030 Chr05 75154584 75155506 -
Car Car04g03117 Chr04 59288529 59289813 -
Cca Cca05g00602 Chr05 13803049 13804650 +
Dod Dod08g1602 Chr08 37237316 37238620 -
Gma Gma14g01201 Chr14 19260524 19261444 +
Gma Gma17g01907 Chr17 33303377 33304333 +
Lal Lal8g1530 Chr8 19631094 19631915 -
Lapu Lapu8g00548 Chr8 22830671 22832337 -
Lasa Lasa5g04166 Chr5 636839292 636839975 +
Lja Lja5g2792 Chr5 55195764 55196621 -
Mal Mal2g0780 Chr2 9029183 9030397 -
Mesa Mesa1g00759 Chr1 9902731 9903594 +
Mtr Mtr3g3997 Chr3 53711529 53712517 +
Phac Phac1g00791 Chr1 6549049 6550232 +
Phco Phco2g00677 Chr2 6814927 6815805 +
Psa Psa5g0595 Chr5 47646949 47648334 +
Pste Pste8g00646 Chr8 3354767 3355651 -
Pte Pte2g02183 Chr2 41711233 41712386 -
Pumo Pumo9g00732 Chr9 14237288 14238277 +
Pvu Pvu1g0599 Chr1 6834964 6836129 +
Rops Rops9g01817 Chr9 32629172 32630420 -
Seca Seca4g00834 Chr4 13847996 13848664 -
Spst Spst8g01654 Chr8 19292692 19293870 +
Tpr Tpr7g0518 Chr7 4392215 4393227 -
Trre Trre1g00803 Chr1 6055471 6056322 +
Tsu Tsu07g00553 Chr07 4336168 4337075 -
Vian Vian7g00356 Chr7 9888031 9889130 -
Vifa Vifa3g04460 Chr3 1276296856 1276297770 -
Vimu Vimu1g02503 Chr1 36372250 36373448 -
Viun Viun8g00887 Chr8 8693733 8695064 -
Vivi Vivi4g04975 Chr4 180075912 180077092 -
Vra Vra6g1502 Chr6 29847306 29848644 -
Vvi Vvi4g0245 Chr4 2148061 2148387 +
Vvi Vvi4g0246 Chr4 2152949 2153203 +
Vvi Vvi4g0247 Chr4 2154848 2162695 -
Acco Acco05g2345 Chr05 39292698 39293633 +
Accr Accr3g00667 Chr3 7515947 7520635 -
Adu Adu06g02748 Chr06 104436932 104443603 -
Aed Aed6g1071 Chr6 15193623 15201004 -
Ahy Ahy16g3046 Chr16 145924559 145933062 -
Ahy Ahy18g2553 Chr18 127309882 127316783 +
Aip Aip06g03276 Chr06 129100917 129107801 -
Aip Aip08g02942 Chr08 117817498 117824398 +
Alju Alju07g2311 Chr07 48956452 48957288 +
Apr Apr9g0115 Chr9 1411380 1418077 -
Arst Arst6g03570 Chr6 103630968 103638540 -
Bisa Bisa05g1363 Chr05 24103626 24108735 -
Car Car05g03029 Chr05 75143331 75148457 +
Car Car04g03119 Chr04 59305784 59312195 -
Cca Cca05g00600 Chr05 13756322 13764804 +
Dere Dere05g2073 Chr05 30842463 30847837 -
Dod Dod08g1604 Chr08 37351716 37362347 -
Dod Dod09g1001 Chr09 30345280 30348879 +
Enph Enph7g1020 Chr7 15907145 15907969 +
Glsi Glsi10g0790 Chr10 5065929 5071327 +
Gma Gma14g01196 Chr14 19123387 19132283 +
Gma Gma17g01904 Chr17 33204617 33217413 +
Gso Gso14g1079 Chr14 18831573 18840542 +
Gso Gso14g1079 Chr14 18831573 18840542 +
Lal Lal25g1087 Chr25 14192795 14200370 +
Lal Lal8g1531 Chr8 19634724 19642431 -
Lapu Lapu8g00550 Chr8 22854962 22863697 -
Lasa Lasa6g00674 Chr6 23480549 23482714 +
Lele Lele25g0558 Chr25 3547435 3555297 -
Lele Lele26g0572 Chr26 3646096 3646902 -
Lele Lele27g1521 Chr27 21143941 21144921 +
Lja Lja5g2794 Chr5 55203893 55210962 -
Mal Mal2g0783 Chr2 9050617 9055740 -
Mepo Mepo4g00714 Chr4 9605537 9612798 +
Mesa Mesa1g00753 Chr1 9833197 9837950 +
Mibi Mibi08g2030 Chr08 37564572 37565396 +
Mtr Mtr3g3996 Chr3 53697995 53703314 +
Phac Phac1g00787 Chr1 6510323 6520734 +
Phco Phco2g00675 Chr2 6786202 6794441 +
Prci Prci2g0905 Chr2 6718877 6725148 -
Pste Pste8g00662 Chr8 3467191 3475651 -
Pte Pte2g02181 Chr2 41702040 41704763 +
Pumo Pumo9g00730 Chr9 14202373 14211400 +
Pvu Pvu1g0597 Chr1 6803375 6813176 +
Rops Rops9g01819 Chr9 32665482 32683742 -
Seca Seca4g00839 Chr4 13889623 13896370 -
Spst Spst8g01646 Chr8 19189065 19195473 +
Ssu Ssu5g0652 Chr5 15267468 15280369 +
Tpr Tpr7g0520 Chr7 4400663 4405479 -
Trre Trre1g00787 Chr1 5937818 5941711 +
Tsu Tsu07g00555 Chr07 4356544 4360834 -
Vian Vian7g00358 Chr7 9902881 9910116 -
Vifa Vifa3g00344 Chr3 43774212 43775270 -
Vimu Vimu1g02508 Chr1 36414981 36422248 -
Viun Viun8g00885 Chr8 8648199 8656682 +
Vivi Vivi4g04997 Chr4 180347699 180351032 -
Vra Vra6g1504 Chr6 29878164 29886895 -
Vvi Vvi4g0248 Chr4 2169095 2171883 +
Acco Acco05g2343 Chr05 39260006 39263189 -
Accr Accr3g00669 Chr3 7527359 7530079 +
Adu Adu06g02750 Chr06 104464407 104467435 +
Aed Aed6g1072 Chr6 15205101 15210035 -
Aev Aev07g1372 Chr07 12599544 12602360 -
Ahy Ahy16g3049 Chr16 145953125 145956188 +
Aip Aip06g03278 Chr06 129121764 129124809 +
Alju Alju07g2309 Chr07 48942422 48945209 -
Apr Apr9g0116 Chr9 1424071 1427374 -
Arst Arst6g03572 Chr6 103658864 103661829 +
Bisa Bisa05g1364 Chr05 24163529 24167818 +
Car Car04g03120 Chr04 59315627 59318525 +
Cca Cca05g00598 Chr05 13690471 13693632 +
Dere Dere05g2074 Chr05 30849903 30854512 +
Dod Dod08g1606 Chr08 37435058 37448771 +
Enph Enph7g1018 Chr7 15889822 15892973 -
Glsi Glsi10g0789 Chr10 5062148 5065597 -
Gma Gma17g01903 Chr17 33192743 33197093 +
Lal Lal8g1534 Chr8 19658524 19661814 +
Lapu Lapu8g00551 Chr8 22879277 22882478 -
Lasa Lasa6g00673 Chr6 23406506 23409299 -
Lele Lele25g0559 Chr25 3555617 3556871 +
Lele Lele26g0573 Chr26 3648974 3651431 +
Lele Lele27g1519 Chr27 21131953 21134637 -
Lele Lele28g0561 Chr28 3579738 3584770 +
Lja Lja5g2795 Chr5 55223260 55230861 +
Mepo Mepo4g00713 Chr4 9592519 9602561 -
Mesa Mesa1g00752 Chr1 9824195 9828484 -
Mibi Mibi08g2028 Chr08 37545330 37549256 -
Phac Phac1g01116 Chr1 10870593 10871992 -
Phco Phco2g00674 Chr2 6764955 6768011 +
Prci Prci2g0908 Chr2 6731835 6735353 +
Pste Pste8g00680 Chr8 3547841 3551531 -
Pte Pte2g02180 Chr2 41697137 41700039 -
Pumo Pumo9g00729 Chr9 14177099 14180234 +
Pvu Pvu1g0596 Chr1 6780590 6783931 +
Rops Rops9g01821 Chr9 32696192 32699099 +
Seca Seca8g02979 Chr8 83102336 83105831 +
Spst Spst8g01645 Chr8 19177892 19181201 +
Ssu Ssu5g0649 Chr5 15173983 15177067 +
Trre Trre1g00786 Chr1 5930236 5932763 -
Vian Vian7g00359 Chr7 9928975 9932320 -
Vifa Vifa3g04469 Chr3 1278706718 1278707691 -
Vimu Vimu1g02509 Chr1 36435504 36440280 -
Viun Viun8g00882 Chr8 8577582 8581233 +
Vivi Vivi4g05001 Chr4 180371364 180374758 +
Vra Vra6g1505 Chr6 29902801 29906690 -
Vvi Vvi4g0249 Chr4 2175074 2177688 -
Vvi Vvi4g0250 Chr4 2187374 2190714 +
Adu Adu06g02751 Chr06 104468227 104472411 +
Aed Aed6g1075 Chr6 15243239 15248425 +
Ahy Ahy16g3050 Chr16 145957113 145961395 +
Aip Aip06g03279 Chr06 129137866 129142823 +
Apr Apr9g0117 Chr9 1428578 1432249 +
Arst Arst6g03573 Chr6 103662648 103666989 +
Car Car04g03121 Chr04 59322595 59328367 +
Cca Cca05g00596 Chr05 13674951 13679566 -
Dod Dod08g1607 Chr08 37452847 37465116 +
Gma Gma14g01194 Chr14 19098223 19102045 -
Gma Gma17g01902 Chr17 33150462 33155174 -
Gso Gso14g1078 Chr14 18806864 18811001 -
Gso Gso14g1078 Chr14 18806864 18811001 -
Lal Lal25g1086 Chr25 14186736 14190836 -
Lapu Lapu8g00552 Chr8 22886794 22889504 +
Lasa Lasa6g00672 Chr6 23397807 23403629 -
Lja Lja5g2796 Chr5 55231500 55236675 +
Mesa Mesa1g00751 Chr1 9809335 9812670 -
Phac Phac1g00783 Chr1 6479891 6483594 -
Phco Phco2g00673 Chr2 6758573 6762285 -
Pste Pste8g00686 Chr8 3585549 3591105 +
Pte Pte2g02179 Chr2 41693358 41697108 -
Pumo Pumo9g00728 Chr9 14164678 14168773 -
Pvu Pvu1g0595 Chr1 6771711 6775286 -
Rops Rops9g01822 Chr9 32706586 32711507 +
Seca Seca8g02981 Chr8 83224075 83228537 +
Spst Spst8g01644 Chr8 19152681 19160484 -
Ssu Ssu5g0647 Chr5 15150641 15154545 -
Trre Trre1g00785 Chr1 5920375 5925401 -
Vian Vian7g00361 Chr7 9941180 9946250 +
Vimu Vimu1g02512 Chr1 36450077 36453871 +
Viun Viun8g00880 Chr8 8531129 8538697 -
Vivi Vivi4g05003 Chr4 180377582 180383364 +
Vra Vra6g1507 Chr6 29924526 29928440 +
Vvi Vvi4g0251 Chr4 2193005 2196242 +
Vvi Vvi4g0252 Chr4 2199114 2208944 +
Ahy Ahy18g2554 Chr18 127323154 127329163 +
Aip Aip08g02943 Chr08 117831047 117836364 +
Car Car05g03027 Chr05 75128447 75139250 -
Dod Dod09g0999 Chr09 30314330 30317506 -
Mal Mal2g0785 Chr2 9061515 9066436 +
Mtr Mtr3g3994 Chr3 53684423 53690283 -
Psa Psa5g0587 Chr5 47058263 47063065 +
Tpr Tpr7g0523 Chr7 4410631 4415330 +
Tsu Tsu07g00558 Chr07 4367873 4372199 +
Vvi Vvi4g0253 Chr4 2209680 2212507 -
Lal Lal8g1531 Chr8 19634724 19642431 -