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
Vvi18g0566 . . . . . . . . . Aev07g1973 . Ahy17g1722 . Aip07g01753 . . . Amo17g1222 Apr9g1001 Apr5g1013 . . . . . . Bva06g02641 Bva12g02292 . Car05g02695 . . . . . Dod08g1196 . . . . . . . . . . . . . . . Lal6g0441 . Lal22g0411 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr5g2234 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0572 . Tpr4g2518 . . . Tsu05g02573 . . . . . . . . . . . . .
Vvi18g0567 . . . . . . . . . . . . . . . . . . . Apr5g1012 . . . . . . Bva06g02640 Bva12g02293 . . . . . . . . . . . . . . . Gma02g02030 . . . . Lal4g0333 Lal17g0373 . . . . Lan14g0693 Lan14g0693 . . . . . . . . . . . . . . . . . . Mal8g2258 Mal2g1253 . . . . . . Mtr5g2235 Mtr3g3575 . . . . . . . Psa5g1098 . . . . . . . . . . . . . . . . . . Sto5g0573 Sto9g3087 . Tpr3g3392 . . Tsu05g02574 Tsu07g01041 . . . . . . . . . . . .
Vvi18g0568 . . . . Adu08g00785 . . . Aev08g1103 . Ahy17g3034 . Aip07g03302 . . . Amo17g3037 . . . . . . . . . . Bva12g02294 . . . . . . . . . . . . . . . . . . . . . Lal17g0372 . . . . . . . . . . Lapu9g01645 . Lasa5g03623 . . . . . . . . . Lja1g4241 . . . . . . . . . . . . . Phco7g01055 . . . . Psa5g1126 . . . . . . . . Pvu9g0384 . . . . . Spst9g01086 . . . . Sto9g3088 . . . . . . . . . . . . . . Vivi3g02051 . . .
Vvi18g0569 . . . . Adu08g00786 . . . . . . . . . . . . . . Apr5g1011 Arst8g01031 . . . . . . . . Car05g02693 . . . . . . . . . . . . . . . . . . Lal4g0331 Lal17g0371 . . . . . . . . . . Lapu9g01643 . Lasa5g03621 . . . . . . . . . Lja1g4242 . . Mal2g1257 Mepo3g07061 . Mesa9g04583 . . . . Mtr3g3572 Phac9g02349 . Phco7g01056 . . . . Psa5g1127 Pste2g02504 . . . . . . . Pvu9g0383 . . . Seca4g01614 . Spst9g01087 . . . Sto5g0574 . . Tpr3g3389 Trre5g04573 . . Tsu07g01044 Vian4g01710 . Vifa2g03508 . Vimu10g02608 . Viun9g02668 . Vivi3g02052 . . .
Vvi18g0570 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0571 . . . . . . . . Aev08g1104 . Ahy17g3035 . Aip07g03303 . . . Amo17g3036 . . Apr5g1010 Arst8g01032 . . . . . Bva06g02639 Bva12g02295 . Car05g02691 . . . . . . . . . . . . . . . . . . Lal4g0330 . . . . . Lan14g0695 . . . . . . . Lasa5g03620 . . . . . . . . . Lja1g4239 . . Mal2g1262 . . . . . . . Mtr3g3569 . . Phco7g01058 . . . . . . . . . . . Pumo10g01062 . Pvu9g0382 . Rops10g01714 . Seca4g01616 . Spst9g01089 . . . . . . Tpr3g3387 . . . Tsu07g01047 Vian4g01709 . Vifa2g03505 . Vimu10g02606 . Viun9g02666 . . . . .
Vvi18g0572 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0573 . . . . . . Aed3g1731 . . . . . . . . . . . Apr9g1003 Apr5g1009 . . . . . . . Bva12g02296 . Car05g02690 Cca05g01132 . . . . . . . . . . . . . . . . . Lal4g0329 Lal17g0370 . . Lal18g1184 . Lan14g0696 Lan14g0696 . . Lan14g0696 . . . . . . . . . . . . . Lja1g4243 . Mal8g2254 . . . . . . . Mtr5g2238 Mtr3g3568 . . . . . . . Psa5g1141 . . . . . . . . . . . . . . . . Ssu6g2503 . . . Tpr4g2521 Tpr3g3386 . . Tsu05g02576 . . . . . . . . . . . . .
Vvi18g0574 . . . . Adu08g00788 . . . Aev08g1105 . Ahy17g3036 . Aip07g03305 . . . Amo17g3035 . . Apr5g1008 Arst8g01035 . . . . . Bva06g02638 Bva12g02297 . Car05g02689 . . . . . . . . . . . . Gma14g01812 Gma02g02033 . . . . . Lal17g0369 . . . Lal22g0407 . . . . . . Lapu9g01639 . Lasa5g03617 . . . . . . . . . . . . Mal2g1263 Mepo3g07058 . Mesa9g04582 . . . . Mtr3g3567 Phac9g02347 . Phco7g01060 . . . . . Pste2g02511 . . . . . Pumo10g01067 . Pvu9g0380 . Rops10g01716 . . . Spst9g01092 . . . . Sto9g3089 . . . . . Tsu07g01048 Vian4g01706 . Vifa2g03501 . Vimu10g02605 . Viun9g02663 . Vivi3g02056 . . .
Vvi18g0575 . . . . . . . . Aev08g1106 Aev07g1975 Ahy17g3038 Ahy17g1718 Aip07g03307 Aip07g01750 . . Amo17g3032 Amo17g1215 . . . . . . . . . . . . . . . . Dod08g1194 Dod08g1194 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4248 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0566 Chr18 5694915 5711044 +
Aev Aev07g1973 Chr07 20890726 20897775 -
Ahy Ahy17g1722 Chr17 40705605 40716865 -
Aip Aip07g01753 Chr07 37554870 37563959 -
Amo Amo17g1222 Chr17 35312416 35323757 +
Apr Apr9g1001 Chr9 19125127 19133165 +
Apr Apr5g1013 Chr5 14733372 14740402 -
Bva Bva06g02641 Chr06 16742373 16746495 -
Bva Bva12g02292 Chr12 17443265 17448169 +
Car Car05g02695 Chr05 72052612 72059989 +
Dod Dod08g1196 Chr08 15817895 15834978 -
Lal Lal6g0441 Chr6 2776394 2781865 -
Lal Lal22g0411 Chr22 2672210 2676367 -
Mtr Mtr5g2234 Chr5 29241684 29261421 +
Sto Sto5g0572 Chr5 3682420 3684268 +
Tpr Tpr4g2518 Chr4 27307806 27319411 +
Tsu Tsu05g02573 Chr05 35059213 35068597 +
Vvi Vvi18g0567 Chr18 5715724 5741978 +
Apr Apr5g1012 Chr5 14719989 14729260 -
Bva Bva06g02640 Chr06 16733394 16740920 -
Bva Bva12g02293 Chr12 17448016 17453391 +
Gma Gma02g02030 Chr02 45879256 45888315 +
Lal Lal4g0333 Chr4 2215844 2224585 +
Lal Lal17g0373 Chr17 2491392 2504530 +
Lan Lan14g0693 Chr14 13871786 13881200 -
Lan Lan14g0693 Chr14 13871786 13881200 -
Mal Mal8g2258 Chr8 48743960 48749066 -
Mal Mal2g1253 Chr2 14996623 15008452 -
Mtr Mtr5g2235 Chr5 29275893 29281123 +
Mtr Mtr3g3575 Chr3 49606116 49619031 +
Psa Psa5g1098 Chr5 85709786 85719166 -
Sto Sto5g0573 Chr5 3689083 3696916 +
Sto Sto9g3087 Chr9 31617544 31627203 +
Tpr Tpr3g3392 Chr3 37417991 37428218 +
Tsu Tsu05g02574 Chr05 35070329 35074647 +
Tsu Tsu07g01041 Chr07 8699054 8708996 -
Vvi Vvi18g0568 Chr18 5743454 5750670 +
Adu Adu08g00785 Chr08 14359868 14364255 +
Aev Aev08g1103 Chr08 6722609 6725722 +
Ahy Ahy17g3034 Chr17 131315802 131320314 +
Aip Aip07g03302 Chr07 122116208 122120667 +
Amo Amo17g3037 Chr17 133488963 133493128 -
Bva Bva12g02294 Chr12 17454068 17458387 +
Lal Lal17g0372 Chr17 2479597 2486624 -
Lapu Lapu9g01645 Chr9 31177240 31181776 -
Lasa Lasa5g03623 Chr5 580558447 580562295 -
Lja Lja1g4241 Chr1 54330304 54335459 +
Phco Phco7g01055 Chr7 8719725 8725109 +
Psa Psa5g1126 Chr5 87652809 87657718 -
Pvu Pvu9g0384 Chr9 7746465 7746787 -
Spst Spst9g01086 Chr9 9658403 9664359 +
Sto Sto9g3088 Chr9 31629620 31635024 +
Vivi Vivi3g02051 Chr3 33843441 33848006 +
Vvi Vvi18g0569 Chr18 5751316 5760947 -
Adu Adu08g00786 Chr08 14365276 14370007 -
Apr Apr5g1011 Chr5 14710131 14716475 +
Arst Arst8g01031 Chr8 14306475 14312602 -
Car Car05g02693 Chr05 72013652 72027602 +
Lal Lal4g0331 Chr4 2204792 2210988 +
Lal Lal17g0371 Chr17 2474793 2482216 +
Lapu Lapu9g01643 Chr9 31150296 31174893 +
Lasa Lasa5g03621 Chr5 580486213 580492820 +
Lja Lja1g4242 Chr1 54335810 54346148 -
Mal Mal2g1257 Chr2 15136516 15137879 -
Mepo Mepo3g07061 Chr3 84272685 84280146 +
Mesa Mesa9g04583 Chr9 79735254 79742300 +
Mtr Mtr3g3572 Chr3 49579538 49585561 +
Phac Phac9g02349 Chr9 22437599 22443361 +
Phco Phco7g01056 Chr7 8727316 8740641 -
Psa Psa5g1127 Chr5 87705115 87710976 +
Pste Pste2g02504 Chr2 25322196 25339077 -
Pvu Pvu9g0383 Chr9 7733109 7745313 +
Seca Seca4g01614 Chr4 26208880 26218340 -
Spst Spst9g01087 Chr9 9665533 9672283 -
Sto Sto5g0574 Chr5 3699069 3704546 -
Tpr Tpr3g3389 Chr3 37390734 37395819 +
Trre Trre5g04573 Chr5 47602881 47611094 -
Tsu Tsu07g01044 Chr07 8724809 8728684 -
Vian Vian4g01710 Chr4 33174750 33185676 +
Vifa Vifa2g03508 Chr2 1017503348 1017508758 +
Vimu Vimu10g02608 Chr10 37489769 37495426 +
Viun Viun9g02668 Chr9 35581929 35587903 +
Vivi Vivi3g02052 Chr3 33851789 33858734 -
Vvi Vvi18g0570 Chr18 5765997 5766212 -
Vvi Vvi18g0571 Chr18 5766283 5775714 -
Aev Aev08g1104 Chr08 6726293 6730807 -
Ahy Ahy17g3035 Chr17 131322480 131328852 -
Aip Aip07g03303 Chr07 122122621 122128734 -
Amo Amo17g3036 Chr17 133481949 133488024 +
Apr Apr5g1010 Chr5 14701824 14708341 +
Arst Arst8g01032 Chr8 14306475 14312602 -
Bva Bva06g02639 Chr06 16726447 16732467 +
Bva Bva12g02295 Chr12 17458672 17464629 -
Car Car05g02691 Chr05 71999634 72007434 +
Lal Lal4g0330 Chr4 2197876 2203511 +
Lan Lan14g0695 Chr14 13891765 13898187 -
Lasa Lasa5g03620 Chr5 580486213 580492820 +
Lja Lja1g4239 Chr1 54322069 54328859 -
Mal Mal2g1262 Chr2 15187569 15194380 -
Mtr Mtr3g3569 Chr3 49547586 49554737 +
Phco Phco7g01058 Chr7 8748388 8753665 -
Pumo Pumo10g01062 Chr10 13749427 13753331 -
Pvu Pvu9g0382 Chr9 7724932 7730595 +
Rops Rops10g01714 Chr10 32073403 32083162 -
Seca Seca4g01616 Chr4 26229105 26237377 -
Spst Spst9g01089 Chr9 9674343 9680185 -
Tpr Tpr3g3387 Chr3 37371438 37378795 +
Tsu Tsu07g01047 Chr07 8753347 8761794 -
Vian Vian4g01709 Chr4 33166823 33172246 +
Vifa Vifa2g03505 Chr2 1016608721 1016614741 +
Vimu Vimu10g02606 Chr10 37466613 37472955 +
Viun Viun9g02666 Chr9 35581348 35587903 +
Vvi Vvi18g0572 Chr18 5793964 5794394 -
Vvi Vvi18g0573 Chr18 5807852 5820694 +
Aed Aed3g1731 Chr3 21919994 21928693 +
Apr Apr9g1003 Chr9 19161778 19171233 +
Apr Apr5g1009 Chr5 14688556 14699281 -
Bva Bva12g02296 Chr12 17466614 17475867 +
Car Car05g02690 Chr05 71986422 71996140 -
Cca Cca05g01132 Chr05 28559665 28588833 +
Lal Lal4g0329 Chr4 2190547 2196957 -
Lal Lal17g0370 Chr17 2462086 2470791 -
Lal Lal18g1184 Chr18 14721110 14729916 +
Lan Lan14g0696 Chr14 13918792 13923194 +
Lan Lan14g0696 Chr14 13918792 13923194 +
Lan Lan14g0696 Chr14 13918792 13923194 +
Lja Lja1g4243 Chr1 54356202 54375670 +
Mal Mal8g2254 Chr8 48677145 48686600 -
Mtr Mtr5g2238 Chr5 29298511 29308265 +
Mtr Mtr3g3568 Chr3 49524950 49540223 -
Psa Psa5g1141 Chr5 89290164 89314404 +
Ssu Ssu6g2503 Chr6 59024646 59032139 +
Tpr Tpr4g2521 Chr4 27395346 27404131 +
Tpr Tpr3g3386 Chr3 37354455 37364031 -
Tsu Tsu05g02576 Chr05 35081588 35090478 +
Vvi Vvi18g0574 Chr18 5822137 5822966 +
Adu Adu08g00788 Chr08 14404851 14409067 +
Aev Aev08g1105 Chr08 6734473 6742466 +
Ahy Ahy17g3036 Chr17 131360235 131369747 +
Aip Aip07g03305 Chr07 122165129 122174461 +
Amo Amo17g3035 Chr17 133461974 133470836 -
Apr Apr5g1008 Chr5 14682302 14686539 -
Arst Arst8g01035 Chr8 14373437 14377638 +
Bva Bva06g02638 Chr06 16715866 16716294 -
Bva Bva12g02297 Chr12 17475756 17481421 +
Car Car05g02689 Chr05 71979023 71983857 -
Gma Gma14g01812 Chr14 48532346 48540204 +
Gma Gma02g02033 Chr02 45906590 45914686 +
Lal Lal17g0369 Chr17 2456147 2461330 -
Lal Lal22g0407 Chr22 2652628 2661371 -
Lapu Lapu9g01639 Chr9 31119586 31124100 -
Lasa Lasa5g03617 Chr5 580099671 580102556 -
Mal Mal2g1263 Chr2 15205785 15216387 +
Mepo Mepo3g07058 Chr3 84236524 84247073 -
Mesa Mesa9g04582 Chr9 79701836 79711438 -
Mtr Mtr3g3567 Chr3 49514677 49519392 -
Phac Phac9g02347 Chr9 22377571 22382401 -
Phco Phco7g01060 Chr7 8765274 8769910 +
Pste Pste2g02511 Chr2 25385785 25389457 +
Pumo Pumo10g01067 Chr10 13799434 13803963 +
Pvu Pvu9g0380 Chr9 7695504 7700299 -
Rops Rops10g01716 Chr10 32143374 32147981 +
Spst Spst9g01092 Chr9 9771971 9781836 +
Sto Sto9g3089 Chr9 31641776 31650016 +
Tsu Tsu07g01048 Chr07 8769112 8778782 +
Vian Vian4g01706 Chr4 33141527 33145778 -
Vifa Vifa2g03501 Chr2 1015349951 1015353309 -
Vimu Vimu10g02605 Chr10 37449060 37453383 -
Viun Viun9g02663 Chr9 35557745 35563497 -
Vivi Vivi3g02056 Chr3 33915709 33919367 +
Vvi Vvi18g0575 Chr18 5831367 5832854 +
Aev Aev08g1106 Chr08 6743768 6747213 +
Aev Aev07g1975 Chr07 20913803 20921195 +
Ahy Ahy17g3038 Chr17 131394556 131398859 +
Ahy Ahy17g1718 Chr17 40580798 40589350 -
Aip Aip07g03307 Chr07 122200563 122204788 +
Aip Aip07g01750 Chr07 37447643 37456144 -
Amo Amo17g3032 Chr17 133401362 133410606 -
Amo Amo17g1215 Chr17 35173215 35181722 -
Dod Dod08g1194 Chr08 15778078 15787295 -
Dod Dod08g1194 Chr08 15778078 15787295 -
Lja Lja1g4248 Chr1 54473169 54478244 +