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
Vvi18g1246 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1247 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma16g01191 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1248 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma16g01187 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1249 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car04g01631 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1250 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1251 . Acco01g2140 . Accr1g01851 . Adu03g00633 . . Aev08g0194 Aev07g0682 Ahy17g2257 Ahy16g0054 Aip07g02411 Aip06g00046 . Alju02g1894 Amo17g2120 . Apr9g0638 Apr5g1661 . Arst3g00812 . . . Bisa01g4110 Bva06g01900 Bva10g00928 . . Cca05g00372 . . Dere06g0101 Dod08g2284 Dod08g2283 . Enph12g0640 . Glsi01g0095 Gma04g00224 Gma06g00206 Gma16g01186 Gma17g02467 Gso4g0208 Gso4g0208 Gso4g0208 Gso4g0208 . . . Lal8g0531 Lal10g0887 . . . . . . . . Lapu11g00858 . Lasa7g02273 . . . . . . . . . Lja5g3328 Mal1g6083 . . Mepo2g02472 . Mesa13g02551 . Mibi01g1773 Mtr1g0723 . . Phac11g00489 . Phco9g00397 . Prci14g0121 . Psa5g0300 . Pste1g01374 . . . . . . . Pvu11g0351 . Rops3g00434 . . . Spst2g02651 Ssu5g0056 . Sto5g0130 . Tpr1g3881 . . . Tsu01g00192 . . Vian5g01586 . Vifa6g01036 . Vimu5g02484 . Viun11g02571 . . . .
Vvi18g1252 Acco10g1302 Acco01g2139 Accr4g01458 Accr1g01850 Adu08g00163 Adu03g00634 . . . Aev07g0681 . Ahy16g0053 . Aip06g00045 Alju08g1509 Alju02g1895 . . Apr9g0639 . Arst8g00194 Arst3g00814 Bach12g00084 . Bisa09g2066 Bisa01g4109 . Bva10g00929 . Car05g03274 Cca05g00373 Cca07g00262 Dere04g0074 Dere06g0102 . Dod08g2284 Enph1g1045 Enph12g0639 Glsi08g2050 Glsi01g0096 . . Gma16g01184 Gma17g02468 . . . . . . . . . . . . . . . . Lapu9g02298 Lapu11g00859 Lasa5g04534 Lasa7g02275 . . . . . . . . Lja1g3495 . . Mal2g0475 Mepo3g07844 Mepo2g02473 Mesa9g05503 Mesa13g02550 Mibi05g1400 Mibi01g1775 . Mtr3g4274 Phac9g00070 . Phco7g00279 . Prci8g0746 Prci14g0122 . . . Pste1g01371 Pte3g01802 . . . . Pumo11g01936 Pvu9g0181 Pvu11g0350 Rops10g02473 Rops3g00433 . . Spst9g00277 Spst2g02652 Ssu5g0055 . Sto5g0129 Sto9g3707 . Tpr7g0225 . . . Tsu07g00256 Vian4g02397 Vian5g01587 Vifa2g04507 Vifa6g01033 Vimu10g03494 Vimu5g02485 Viun9g03683 Viun11g02572 . . . Vra5g1658
Vvi18g1253 . . . . . . Aed11g0043 . Aev08g0193 . Ahy17g2256 . Aip07g02410 . . . Amo17g2119 . Apr9g0640 . . . . . . . Bva06g01899 Bva10g00930 Car04g03592 . Cca05g00375 . . . . . . . . . . . Gma14g02141 Gma17g02469 . . . . Lal4g0063 Lal17g0059 . . . . Lan14g0955 Lan14g0955 . . . . . . . . . . . . . . . . . Lja5g3329 Mal1g5238 . . . . . . . Mtr1g0724 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0054 . Sto5g0128 Sto9g3711 Tpr1g3184 . . . Tsu01g00191 . . . . . . . . . . . . .
Vvi18g1254 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1255 . . . . . . Aed11g0042 . . . . . . . . . . . Apr9g0642 Apr5g1662 . . . . . . Bva06g01898 Bva10g00931 . Car05g03275 Cca05g00377 . . . . . . . . . . Gma06g00205 Gma14g02142 Gma17g02470 . . . . Lal4g0062 . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0474 . . . . . . . Mtr3g4275 . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0053 . Sto5g0126 . . . . . . . . . . . . . . . . . Vra6g2027 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Acco Acco01g2140 Chr01 37304831 37308285 +
Accr Accr1g01851 Chr1 48907385 48910290 +
Adu Adu03g00633 Chr03 5822754 5825892 -
Alju Alju02g1894 Chr02 18186655 18187120 -
Arst Arst3g00812 Chr3 5828295 5830897 -
Bisa Bisa01g4110 Chr01 98715570 98717849 +
Dere Dere06g0101 Chr06 1121325 1123646 -
Enph Enph12g0640 Chr12 12830195 12832526 +
Glsi Glsi01g0095 Chr01 811158 813073 -
Lapu Lapu11g00858 Chr11 11232601 11235551 -
Lasa Lasa7g02273 Chr7 510157244 510158757 -
Mepo Mepo2g02472 Chr2 34473524 34475757 -
Mesa Mesa13g02551 Chr13 30080038 30081832 +
Mibi Mibi01g1773 Chr01 26006779 26009643 -
Phac Phac11g00489 Chr11 3492170 3503271 +
Phco Phco9g00397 Chr9 2791698 2793581 +
Prci Prci14g0121 Chr14 1012214 1015540 -
Pste Pste1g01374 Chr1 4373732 4376016 +
Pvu Pvu11g0351 Chr11 2979669 2980781 +
Rops Rops3g00434 Chr3 5349476 5351607 +
Spst Spst2g02651 Chr2 26115604 26117660 -
Vian Vian5g01586 Chr5 38404073 38406190 -
Vifa Vifa6g01036 Chr6 341336618 341338037 +
Vimu Vimu5g02484 Chr5 35264175 35266231 -
Viun Viun11g02571 Chr11 38869841 38872323 -
Acco Acco01g2139 Chr01 37299419 37302564 +
Accr Accr1g01850 Chr1 48907385 48910341 +
Adu Adu03g00634 Chr03 5838444 5840995 -
Alju Alju02g1895 Chr02 18191233 18194072 -
Arst Arst3g00814 Chr3 5844424 5847002 -
Bisa Bisa01g4109 Chr01 98701555 98706800 +
Dere Dere06g0102 Chr06 1128304 1131310 -
Enph Enph12g0639 Chr12 12819796 12823060 +
Glsi Glsi01g0096 Chr01 817579 827111 -
Lapu Lapu11g00859 Chr11 11239631 11242151 -
Lasa Lasa7g02275 Chr7 510425882 510427441 -
Mepo Mepo2g02473 Chr2 34486255 34490400 -
Mesa Mesa13g02550 Chr13 30008660 30011706 +
Mibi Mibi01g1775 Chr01 26016309 26019512 -
Prci Prci14g0122 Chr14 1012214 1015540 -
Pste Pste1g01371 Chr1 4357557 4359960 +
Pumo Pumo11g01936 Chr11 51200096 51227336 -
Pvu Pvu11g0350 Chr11 2973199 2975463 +
Rops Rops3g00433 Chr3 5321917 5324518 +
Spst Spst2g02652 Chr2 26124981 26126879 -
Vian Vian5g01587 Chr5 38412496 38414097 -
Vifa Vifa6g01033 Chr6 340404738 340406354 +
Vimu Vimu5g02485 Chr5 35273660 35275367 -
Viun Viun11g02572 Chr11 38877651 38880041 -
Gma Gma16g01191 Chr16 29529837 29530834 -
Gma Gma16g01187 Chr16 29462496 29466067 -
Gma Gma16g01186 Chr16 29435981 29439288 -
Aev Aev08g0194 Chr08 1082427 1084367 -
Ahy Ahy17g2257 Chr17 109421305 109424399 -
Aip Aip07g02411 Chr07 101584730 101588056 -
Amo Amo17g2120 Chr17 110064018 110067394 -
Bisa Bisa01g4110 Chr01 98715570 98717849 +
Dere Dere04g0074 Chr04 814554 816230 -
Dod Dod08g2284 Chr08 50883126 50887270 +
Glsi Glsi08g2050 Chr08 14379747 14381018 +
Gma Gma16g01184 Chr16 29370996 29373411 -
Prci Prci8g0746 Chr8 4763669 4765790 -
Pte Pte3g01802 Chr3 27434244 27437095 -
Vvi Vvi18g1246 Chr18 12431386 12431715 +
Vvi Vvi18g1247 Chr18 12432955 12439195 +
Gma Gma16g01191 Chr16 29529837 29530834 -
Vvi Vvi18g1248 Chr18 12453799 12456501 +
Gma Gma16g01187 Chr16 29462496 29466067 -
Vvi Vvi18g1249 Chr18 12457245 12462836 +
Car Car04g01631 Chr04 16860253 16862302 -
Vvi Vvi18g1250 Chr18 12466196 12466480 +
Vvi Vvi18g1251 Chr18 12468485 12470015 +
Acco Acco01g2140 Chr01 37304831 37308285 +
Accr Accr1g01851 Chr1 48907385 48910290 +
Adu Adu03g00633 Chr03 5822754 5825892 -
Aev Aev08g0194 Chr08 1082427 1084367 -
Aev Aev07g0682 Chr07 4336626 4338818 -
Ahy Ahy17g2257 Chr17 109421305 109424399 -
Ahy Ahy16g0054 Chr16 490051 492561 -
Aip Aip07g02411 Chr07 101584730 101588056 -
Aip Aip06g00046 Chr06 386238 388835 -
Alju Alju02g1894 Chr02 18186655 18187120 -
Amo Amo17g2120 Chr17 110064018 110067394 -
Apr Apr9g0638 Chr9 10393686 10396513 +
Apr Apr5g1661 Chr5 20218485 20221790 +
Arst Arst3g00812 Chr3 5828295 5830897 -
Bisa Bisa01g4110 Chr01 98715570 98717849 +
Bva Bva06g01900 Chr06 12957885 12960467 -
Bva Bva10g00928 Chr10 6972555 6974931 +
Cca Cca05g00372 Chr05 8180855 8183166 +
Dere Dere06g0101 Chr06 1121325 1123646 -
Dod Dod08g2284 Chr08 50883126 50887270 +
Dod Dod08g2283 Chr08 50858579 50862538 +
Enph Enph12g0640 Chr12 12830195 12832526 +
Glsi Glsi01g0095 Chr01 811158 813073 -
Gma Gma04g00224 Chr04 1914820 1918644 -
Gma Gma06g00206 Chr06 1818481 1822799 -
Gma Gma16g01186 Chr16 29435981 29439288 -
Gma Gma17g02467 Chr17 42703887 42706181 +
Gso Gso4g0208 Chr4 1883215 1886573 -
Gso Gso4g0208 Chr4 1883215 1886573 -
Gso Gso4g0208 Chr4 1883215 1886573 -
Gso Gso4g0208 Chr4 1883215 1886573 -
Lal Lal8g0531 Chr8 3628132 3630171 -
Lal Lal10g0887 Chr10 16373019 16375674 +
Lapu Lapu11g00858 Chr11 11232601 11235551 -
Lasa Lasa7g02273 Chr7 510157244 510158757 -
Lja Lja5g3328 Chr5 64719580 64721679 +
Mal Mal1g6083 Chr1 139482854 139484785 +
Mepo Mepo2g02472 Chr2 34473524 34475757 -
Mesa Mesa13g02551 Chr13 30080038 30081832 +
Mibi Mibi01g1773 Chr01 26006779 26009643 -
Mtr Mtr1g0723 Chr1 8185282 8187469 +
Phac Phac11g00489 Chr11 3492170 3503271 +
Phco Phco9g00397 Chr9 2791698 2793581 +
Prci Prci14g0121 Chr14 1012214 1015540 -
Psa Psa5g0300 Chr5 21800593 21811509 -
Pste Pste1g01374 Chr1 4373732 4376016 +
Pvu Pvu11g0351 Chr11 2979669 2980781 +
Rops Rops3g00434 Chr3 5349476 5351607 +
Spst Spst2g02651 Chr2 26115604 26117660 -
Ssu Ssu5g0056 Chr5 1047330 1050412 -
Sto Sto5g0130 Chr5 764024 765267 -
Tpr Tpr1g3881 Chr1 42933879 42936495 +
Tsu Tsu01g00192 Chr01 1491577 1493736 -
Vian Vian5g01586 Chr5 38404073 38406190 -
Vifa Vifa6g01036 Chr6 341336618 341338037 +
Vimu Vimu5g02484 Chr5 35264175 35266231 -
Viun Viun11g02571 Chr11 38869841 38872323 -
Vvi Vvi18g1252 Chr18 12488788 12490747 +
Acco Acco10g1302 Chr10 26881122 26882697 +
Acco Acco01g2139 Chr01 37299419 37302564 +
Accr Accr4g01458 Chr4 14731737 14733926 -
Accr Accr1g01850 Chr1 48907385 48910341 +
Adu Adu08g00163 Chr08 2508463 2511753 +
Adu Adu03g00634 Chr03 5838444 5840995 -
Aev Aev07g0681 Chr07 4323280 4325316 -
Ahy Ahy16g0053 Chr16 482349 485680 -
Aip Aip06g00045 Chr06 379097 380588 -
Alju Alju08g1509 Chr08 11806976 11808564 -
Alju Alju02g1895 Chr02 18191233 18194072 -
Apr Apr9g0639 Chr9 10405950 10406810 +
Arst Arst8g00194 Chr8 2520800 2523838 +
Arst Arst3g00814 Chr3 5844424 5847002 -
Bach Bach12g00084 Chr12 618997 620679 -
Bisa Bisa09g2066 Chr09 33058540 33060904 +
Bisa Bisa01g4109 Chr01 98701555 98706800 +
Bva Bva10g00929 Chr10 6985308 6986906 +
Car Car05g03274 Chr05 77472373 77475472 +
Cca Cca05g00373 Chr05 8189698 8191992 +
Cca Cca07g00262 Chr07 3330045 3333737 -
Dere Dere04g0074 Chr04 814554 816230 -
Dere Dere06g0102 Chr06 1128304 1131310 -
Dod Dod08g2284 Chr08 50883126 50887270 +
Enph Enph1g1045 Chr1 36652214 36654722 -
Enph Enph12g0639 Chr12 12819796 12823060 +
Glsi Glsi08g2050 Chr08 14379747 14381018 +
Glsi Glsi01g0096 Chr01 817579 827111 -
Gma Gma16g01184 Chr16 29370996 29373411 -
Gma Gma17g02468 Chr17 42718696 42722641 +
Lapu Lapu9g02298 Chr9 37601688 37604917 +
Lapu Lapu11g00859 Chr11 11239631 11242151 -
Lasa Lasa5g04534 Chr5 670795244 670796543 +
Lasa Lasa7g02275 Chr7 510425882 510427441 -
Lja Lja1g3495 Chr1 43551382 43555542 -
Mal Mal2g0475 Chr2 5440489 5443035 -
Mepo Mepo3g07844 Chr3 91522909 91526441 -
Mepo Mepo2g02473 Chr2 34486255 34490400 -
Mesa Mesa9g05503 Chr9 90352969 90355959 +
Mesa Mesa13g02550 Chr13 30008660 30011706 +
Mibi Mibi05g1400 Chr05 16648116 16652072 -
Mibi Mibi01g1775 Chr01 26016309 26019512 -
Mtr Mtr3g4274 Chr3 56597108 56601575 +
Phac Phac9g00070 Chr9 550039 554066 -
Phco Phco7g00279 Chr7 1952775 1955605 -
Prci Prci8g0746 Chr8 4763669 4765790 -
Prci Prci14g0122 Chr14 1012214 1015540 -
Pste Pste1g01371 Chr1 4357557 4359960 +
Pte Pte3g01802 Chr3 27434244 27437095 -
Pumo Pumo11g01936 Chr11 51200096 51227336 -
Pvu Pvu9g0181 Chr9 3027281 3030753 +
Pvu Pvu11g0350 Chr11 2973199 2975463 +
Rops Rops10g02473 Chr10 43220506 43222583 +
Rops Rops3g00433 Chr3 5321917 5324518 +
Spst Spst9g00277 Chr9 2633758 2636208 -
Spst Spst2g02652 Chr2 26124981 26126879 -
Ssu Ssu5g0055 Chr5 1017690 1019325 -
Sto Sto5g0129 Chr5 756751 757598 -
Sto Sto9g3707 Chr9 35382876 35394827 +
Tpr Tpr7g0225 Chr7 1859940 1862920 -
Tsu Tsu07g00256 Chr07 1978519 1980727 -
Vian Vian4g02397 Chr4 40652891 40655438 +
Vian Vian5g01587 Chr5 38412496 38414097 -
Vifa Vifa2g04507 Chr2 1326595452 1326596696 +
Vifa Vifa6g01033 Chr6 340404738 340406354 +
Vimu Vimu10g03494 Chr10 44607414 44610951 +
Vimu Vimu5g02485 Chr5 35273660 35275367 -
Viun Viun9g03683 Chr9 42074483 42077029 +
Viun Viun11g02572 Chr11 38877651 38880041 -
Vra Vra5g1658 Chr5 22973038 22976084 +
Vvi Vvi18g1253 Chr18 12502093 12507768 -
Aed Aed11g0043 Chr11 302803 307429 +
Aev Aev08g0193 Chr08 1073372 1077948 +
Ahy Ahy17g2256 Chr17 109413842 109419166 +
Aip Aip07g02410 Chr07 101577585 101583286 +
Amo Amo17g2119 Chr17 110057197 110061931 +
Apr Apr9g0640 Chr9 10410247 10415224 -
Bva Bva06g01899 Chr06 12949538 12954556 +
Bva Bva10g00930 Chr10 6987875 6993014 -
Car Car04g03592 Chr04 65149274 65154278 -
Cca Cca05g00375 Chr05 8206739 8212185 -
Gma Gma14g02141 Chr14 52567060 52571991 -
Gma Gma17g02469 Chr17 42723015 42728019 -
Lal Lal4g0063 Chr4 370534 375121 +
Lal Lal17g0059 Chr17 344333 349545 +
Lan Lan14g0955 Chr14 15923743 15928243 -
Lan Lan14g0955 Chr14 15923743 15928243 -
Lja Lja5g3329 Chr5 64733753 64739128 -
Mal Mal1g5238 Chr1 125369721 125370295 -
Mtr Mtr1g0724 Chr1 8193315 8198727 -
Ssu Ssu5g0054 Chr5 997719 1002335 +
Sto Sto5g0128 Chr5 750266 751006 +
Sto Sto9g3711 Chr9 35415157 35423929 -
Tpr Tpr1g3184 Chr1 36298568 36304039 +
Tsu Tsu01g00191 Chr01 1480537 1485438 +
Vvi Vvi18g1254 Chr18 12509403 12513133 -
Vvi Vvi18g1255 Chr18 12526403 12526723 +
Aed Aed11g0042 Chr11 287192 289189 -
Apr Apr9g0642 Chr9 10438403 10439317 +
Apr Apr5g1662 Chr5 20227106 20227497 +
Bva Bva06g01898 Chr06 12946562 12947533 -
Bva Bva10g00931 Chr10 6996345 6997234 +
Car Car05g03275 Chr05 77481171 77481805 +
Cca Cca05g00377 Chr05 8266707 8267622 +
Gma Gma06g00205 Chr06 1809884 1810403 -
Gma Gma14g02142 Chr14 52577847 52578328 +
Gma Gma17g02470 Chr17 42737001 42737563 +
Lal Lal4g0062 Chr4 366508 366861 -
Mal Mal2g0474 Chr2 5431705 5432037 -
Mtr Mtr3g4275 Chr3 56621914 56622828 +
Ssu Ssu5g0053 Chr5 982981 983903 -
Sto Sto5g0126 Chr5 745064 745408 -
Vra Vra6g2027 Chr6 36860343 36860904 +