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
Vvi4g0224 . Acco05g2354 . Accr3g00659 . . . Aed6g1055 . . . Ahy18g2546 . Aip08g02933 . Alju07g2321 . . . Apr9g0102 . . . Bach3g01875 . Bisa05g1349 . . Car05g03035 Car04g03100 . Cca05g00617 . Dere05g2059 . Dod09g1011 . . . Glsi10g0802 Gma14g01220 . . . . . . . . . . . . . . . . . . . . Lapu8g00537 . Lasa5g04175 . . . . Lele25g0549 Lele26g0565 Lele27g1528 Lele28g0555 . Lja5g2779 Mal2g0770 . . Mepo4g00740 . Mesa1g00779 . Mibi08g2040 Mtr3g4003 . . . . Phco2g00689 . Prci2g0885 . Psa6g0757 . Pste8g00557 . . Pte3g01063 Pte2g02196 . Pumo9g00745 . Pvu1g0609 . Rops9g01805 . . . Spst8g01668 . Ssu5g0665 . . Tpr7g0510 . . Trre1g00818 Tsu07g00544 . . Vian7g00344 . Vifa3g04449 . Vimu1g02488 . . . Vivi3g01133 . .
Vvi4g0225 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0226 . Acco05g2352 . Accr3g00660 . Adu06g02735 . . . . Ahy16g3034 . Aip06g03255 . . Alju07g2318 . . . Apr9g0103 . Arst6g03553 . Bach3g01876 . Bisa05g1351 . . . Car04g03101 . Cca05g00613 . Dere05g2061 Dod08g1586 . . Enph7g1028 . Glsi10g0801 Gma14g01219 . . . . . . . . Lal4g0254 . . . . . . . . . . . Lapu8g00538 . Lasa6g00947 . . . . Lele25g0551 Lele26g0567 Lele27g1527 Lele28g0556 . Lja5g2780 . . . Mepo4g00737 . Mesa1g00776 . Mibi08g2039 . . . . . Phco2g00688 . Prci2g0889 . Psa6g0759 . Pste8g00560 . . Pte3g01064 Pte2g02195 . Pumo9g00744 . Pvu1g0608 . . . Seca4g00826 . Spst8g01666 . Ssu5g0663 . . . . . Trre1g00815 . . . . . Vifa3g04452 . Vimu1g02489 . Viun8g00900 . . . .
Vvi4g0227 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0228 . . . . . . . . . . . Ahy18g2548 . Aip08g02935 . . . . . . . . . . . . . . Car05g03034 . . . . . . Dod09g1009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0772 . . . . . . . Mtr3g4002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0511 . . . Tsu07g00547 . . . . . . . . . . . . .
Vvi4g0229 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2919 . Mal1g4998 . . . . . . . Mtr1g0982 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g2990 . . . . . . . . . . . . . . . .
Vvi4g0230 . Acco05g2349 . Accr3g00662 . Adu06g02737 . . . . Ahy16g3036 Ahy18g2549 Aip06g03258 Aip08g02936 . Alju07g2316 . . . Apr9g0261 . Arst6g03555 . Bach3g01879 . Bisa05g1354 . . Car05g03033 Car04g03105 . . . Dere05g2064 . . . Enph7g1025 . Glsi10g0799 Gma14g01214 . . . . . . . . . . . . . . . . . . . . . . Lasa5g04172 . . . . . . . . . . Mal2g0773 . . Mepo4g00733 . Mesa1g00769 . Mibi08g2037 Mtr3g4001 . . . . Phco2g00685 . Prci2g0900 . . . Pste8g00598 . . Pte3g01066 Pte2g02193 . Pumo9g00740 . Pvu1g0605 . . . . . Spst8g01661 . . . . Tpr7g0514 . . . . . . . . Vifa3g04453 . Vimu1g02493 . . . . . .
Vvi4g0231 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0232 . . . . . . . . . . . Ahy18g2550 . Aip08g02938 . . . . . . . . . . . . . . Car05g03031 . . . . . . Dod09g1006 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0778 . . . . . . . Mtr3g3999 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0516 . . . Tsu07g00551 . . . . . . . . . . . . .
Vvi4g0233 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0224 Chr4 1972606 1975604 +
Acco Acco05g2354 Chr05 39370333 39374170 -
Accr Accr3g00659 Chr3 7405930 7408259 +
Aed Aed6g1055 Chr6 15031420 15037398 +
Ahy Ahy18g2546 Chr18 127178961 127183886 +
Aip Aip08g02933 Chr08 117684592 117689321 +
Alju Alju07g2321 Chr07 49036592 49041865 -
Apr Apr9g0102 Chr9 1244979 1250269 +
Bach Bach3g01875 Chr3 26894881 26897357 +
Bisa Bisa05g1349 Chr05 23850462 23853918 +
Car Car05g03035 Chr05 75210707 75216569 -
Car Car04g03100 Chr04 59138098 59140201 +
Cca Cca05g00617 Chr05 14407288 14411266 -
Dere Dere05g2059 Chr05 30685494 30691361 +
Dod Dod09g1011 Chr09 30494961 30497976 -
Glsi Glsi10g0802 Chr10 5152881 5155003 -
Gma Gma14g01220 Chr14 19795388 19798796 -
Lapu Lapu8g00537 Chr8 22640795 22643511 +
Lasa Lasa5g04175 Chr5 637654958 637657053 -
Lele Lele25g0549 Chr25 3486098 3490839 +
Lele Lele26g0565 Chr26 3591178 3593374 +
Lele Lele27g1528 Chr27 21206669 21209995 -
Lele Lele28g0555 Chr28 3525372 3528405 +
Lja Lja5g2779 Chr5 55025785 55030444 +
Mal Mal2g0770 Chr2 8958443 8960661 +
Mepo Mepo4g00740 Chr4 9864530 9869370 -
Mesa Mesa1g00779 Chr1 10166174 10168233 -
Mibi Mibi08g2040 Chr08 37661334 37666210 -
Mtr Mtr3g4003 Chr3 53765498 53769848 -
Phco Phco2g00689 Chr2 7016962 7022181 -
Prci Prci2g0885 Chr2 6618897 6623119 +
Psa Psa6g0757 Chr6 26755355 26759445 +
Pste Pste8g00557 Chr8 2886526 2890297 +
Pte Pte3g01063 Chr3 9052637 9056393 +
Pte Pte2g02196 Chr2 41824104 41828699 -
Pumo Pumo9g00745 Chr9 14486064 14492740 -
Pvu Pvu1g0609 Chr1 7069836 7072476 -
Rops Rops9g01805 Chr9 32385946 32398616 +
Spst Spst8g01668 Chr8 19443577 19446101 -
Ssu Ssu5g0665 Chr5 15631453 15634714 -
Tpr Tpr7g0510 Chr7 4316084 4320076 +
Trre Trre1g00818 Chr1 6206746 6208873 -
Tsu Tsu07g00544 Chr07 4242892 4246724 +
Vian Vian7g00344 Chr7 9681242 9684042 +
Vifa Vifa3g04449 Chr3 1272970788 1272973103 +
Vimu Vimu1g02488 Chr1 36121345 36128654 +
Vivi Vivi3g01133 Chr3 18974949 18978616 +
Vvi Vvi4g0225 Chr4 1977099 1977423 -
Vvi Vvi4g0226 Chr4 1981157 1982404 -
Acco Acco05g2352 Chr05 39362481 39363743 +
Accr Accr3g00660 Chr3 7414247 7415503 -
Adu Adu06g02735 Chr06 104229903 104232319 +
Ahy Ahy16g3034 Chr16 145674544 145677182 +
Aip Aip06g03255 Chr06 128883697 128885964 +
Alju Alju07g2318 Chr07 49030507 49031769 +
Apr Apr9g0103 Chr9 1255308 1258098 -
Arst Arst6g03553 Chr6 103424349 103426968 +
Bach Bach3g01876 Chr3 26899956 26901218 -
Bisa Bisa05g1351 Chr05 23859427 23860689 -
Car Car04g03101 Chr04 59143297 59144547 -
Cca Cca05g00613 Chr05 14251300 14252556 +
Dere Dere05g2061 Chr05 30700382 30701638 -
Dod Dod08g1586 Chr08 36748500 36751277 +
Enph Enph7g1028 Chr7 15969852 15971114 +
Glsi Glsi10g0801 Chr10 5146834 5148096 +
Gma Gma14g01219 Chr14 19789066 19791698 +
Lal Lal4g0254 Chr4 1642851 1644113 +
Lapu Lapu8g00538 Chr8 22651050 22654583 -
Lasa Lasa6g00947 Chr6 39732268 39744607 -
Lele Lele25g0551 Chr25 3495472 3496734 -
Lele Lele26g0567 Chr26 3598440 3599702 -
Lele Lele27g1527 Chr27 21200717 21201979 +
Lele Lele28g0556 Chr28 3533321 3539062 -
Lja Lja5g2780 Chr5 55035611 55038046 -
Mepo Mepo4g00737 Chr4 9851601 9854437 -
Mesa Mesa1g00776 Chr1 10127188 10128450 -
Mibi Mibi08g2039 Chr08 37655652 37656905 +
Phco Phco2g00688 Chr2 7012157 7013407 +
Prci Prci2g0889 Chr2 6626475 6633176 -
Psa Psa6g0759 Chr6 26766295 26769035 -
Pste Pste8g00560 Chr8 2893521 2895835 -
Pte Pte3g01064 Chr3 9055551 9060511 -
Pte Pte2g02195 Chr2 41819961 41822199 +
Pumo Pumo9g00744 Chr9 14480847 14484376 +
Pvu Pvu1g0608 Chr1 7064506 7067223 +
Seca Seca4g00826 Chr4 13722810 13724072 -
Spst Spst8g01666 Chr8 19438330 19439592 +
Ssu Ssu5g0663 Chr5 15617283 15618542 +
Trre Trre1g00815 Chr1 6172031 6173275 +
Vifa Vifa3g04452 Chr3 1273416732 1273417990 -
Vimu Vimu1g02489 Chr1 36126600 36127850 -
Viun Viun8g00900 Chr8 8964275 8966925 +
Vvi Vvi4g0227 Chr4 1989118 1989606 +
Vvi Vvi4g0228 Chr4 1997028 2007942 +
Ahy Ahy18g2548 Chr18 127203488 127211612 +
Aip Aip08g02935 Chr08 117708372 117716483 +
Car Car05g03034 Chr05 75197799 75206420 -
Dod Dod09g1009 Chr09 30430915 30444755 -
Mal Mal2g0772 Chr2 8967175 8974916 +
Mtr Mtr3g4002 Chr3 53757470 53763708 -
Tpr Tpr7g0511 Chr7 4321107 4329370 +
Tsu Tsu07g00547 Chr07 4264815 4273098 +
Vvi Vvi4g0229 Chr4 2008749 2010011 -
Lja Lja5g2919 Chr5 57464234 57465490 -
Mal Mal1g4998 Chr1 120567208 120568461 -
Mtr Mtr1g0982 Chr1 11258618 11261244 +
Tpr Tpr1g2990 Chr1 34345596 34346849 -
Vvi Vvi4g0230 Chr4 2012505 2019564 -
Acco Acco05g2349 Chr05 39340530 39347257 +
Accr Accr3g00662 Chr3 7436712 7443606 -
Adu Adu06g02737 Chr06 104237756 104245713 -
Ahy Ahy16g3036 Chr16 145682481 145691232 -
Ahy Ahy18g2549 Chr18 127215016 127221865 -
Aip Aip06g03258 Chr06 128891489 128899312 -
Aip Aip08g02936 Chr08 117722271 117728654 -
Alju Alju07g2316 Chr07 49011754 49018586 +
Apr Apr9g0261 Chr9 3428179 3433657 +
Arst Arst6g03555 Chr6 103431903 103440656 -
Bach Bach3g01879 Chr3 26914570 26920697 -
Bisa Bisa05g1354 Chr05 23916916 23923341 -
Car Car05g03033 Chr05 75187747 75195666 +
Car Car04g03105 Chr04 59183006 59193861 +
Dere Dere05g2064 Chr05 30740303 30746610 -
Enph Enph7g1025 Chr7 15945403 15954193 +
Glsi Glsi10g0799 Chr10 5117929 5124233 +
Gma Gma14g01214 Chr14 19625424 19635032 +
Lasa Lasa5g04172 Chr5 637262171 637267748 +
Mal Mal2g0773 Chr2 8976968 8982961 -
Mepo Mepo4g00733 Chr4 9803583 9811076 +
Mesa Mesa1g00769 Chr1 10054858 10060990 +
Mibi Mibi08g2037 Chr08 37620931 37628012 +
Mtr Mtr3g4001 Chr3 53749259 53755718 +
Phco Phco2g00685 Chr2 6979323 6987945 +
Prci Prci2g0900 Chr2 6657572 6664978 -
Pste Pste8g00598 Chr8 3095697 3106129 -
Pte Pte3g01066 Chr3 9066560 9073694 -
Pte Pte2g02193 Chr2 41792058 41797359 +
Pumo Pumo9g00740 Chr9 14412578 14422767 +
Pvu Pvu1g0605 Chr1 7030760 7039630 +
Spst Spst8g01661 Chr8 19377250 19382586 +
Tpr Tpr7g0514 Chr7 4349582 4356633 -
Vifa Vifa3g04453 Chr3 1274352024 1274357014 +
Vimu Vimu1g02493 Chr1 36166415 36174441 -
Vvi Vvi4g0231 Chr4 2031917 2032612 +
Vvi Vvi4g0232 Chr4 2034650 2054619 -
Ahy Ahy18g2550 Chr18 127242350 127250127 -
Aip Aip08g02938 Chr08 117748238 117757356 -
Car Car05g03031 Chr05 75161977 75171199 +
Dod Dod09g1006 Chr09 30399875 30408517 +
Mal Mal2g0778 Chr2 9012550 9020973 -
Mtr Mtr3g3999 Chr3 53725148 53733324 +
Tpr Tpr7g0516 Chr7 4370826 4378220 -
Tsu Tsu07g00551 Chr07 4316827 4323740 -
Vvi Vvi4g0233 Chr4 2060328 2064473 +