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
Vvi18g0516 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0517 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0518 . . . . . Adu07g01945 Aed3g1702 . Aev08g1075 . Ahy17g2997 . Aip07g03256 . . . Amo17g3075 . Apr9g0972 . . Arst7g02450 . . . . . Bva12g02256 . Car02g01161 Cca05g01094 . . . Dod08g1224 . . . . . . . . Gma02g02002 . . . . . Lal17g0392 . . Lal18g1166 . . . . . . . . . . Lasa2g00981 . . . . . . . . Lja1g4286 Lja1g6001 Mal8g2355 . . Mepo7g01585 . Mesa17g02804 . . Mtr5g2201 . . Phac8g02316 . Phco3g01250 . . . . . Pste8g01814 . . Pte16g01272 Pte8g01191 . Pumo9g01400 . Pvu8g1848 . . . Seca8g01909 . Spst8g01186 Ssu6g2469 . . Sto9g3058 . . . . . . . Vian7g00056 . . . Vimu1g01947 . Viun8g01567 . Vivi7g01233 Vra6g1290 .
Vvi18g0519 Acco10g2276 . Accr4g00500 . Adu08g00749 . . . . Aev07g1891 . Ahy17g1778 . Aip07g01813 Alju08g0527 . . Amo17g1312 . Apr5g0986 Arst8g00988 . . . Bisa09g1508 . . . . . . . Dere04g0861 . . Dod08g1224 Enph1g1595 . Glsi08g1294 . Gma04g00895 Gma06g00883 . . Gso4g0828 Gso4g0828 . . . . . . . . . . . . . . Lapu9g01617 . Lasa5g03588 . . Lele02g0417 . Lele04g0425 . . . . . . . . Mepo3g07027 . . . Mibi05g0467 . . . . . Phco7g01082 . Prci15g0641 . . . Pste2g02597 . Pte3g01684 . . . Pumo10g01101 . Pvu9g0356 . Rops10g01744 . Seca4g01668 . Spst9g01129 . . . . . . . Trre5g04613 . . . Vian4g01686 . Vifa2g03466 . Vimu10g02577 . Viun9g02622 . Vivi3g02102 . . .
Vvi18g0520 . . . . . . . Aed10g0167 . . . . . . . . . . . . . . . . . . . . . . . Cca03g01277 . . . . . . . . . . . . . . . . . Lal17g0390 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g1111 . . . . . . . . . . . . . . . . . Ssu1g3139 . . . . . . . . . . . . . . . . . . . Vra5g0883
Vvi18g0521 . . . . . Adu07g01946 Aed3g1703 . . Aev07g1890 . Ahy17g1777 . Aip07g01812 . . . Amo17g1311 Apr9g0973 Apr1g0040 . Arst7g02452 . . . . Bva06g02680 . . Car02g01162 Cca05g01095 . . . . Dod08g1223 . . . . . . Gma14g01784 Gma02g02003 . . . . . . . Lal6g0453 . . . . . . . . . . . Lasa2g00983 . . . . . . . . . Lja1g6002 Mal8g2354 . . Mepo7g01587 . Mesa17g02805 . . Mtr5g2205 . . Phac8g02321 . Phco3g01249 . . . . . Pste8g01813 . . Pte16g01273 . . Pumo9g01401 . Pvu8g1849 . Rops9g01452 . Seca8g01906 . Spst8g01185 Ssu6g2470 . . . Tpr2g4793 . . . . . . . . . . . . Viun8g01569 . Vivi7g01235 . .
Vvi18g0522 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0523 . . . . Adu08g00834 . . Aed10g0166 . . . . . . . . . . . Apr5g0987 . . . . . . . Bva12g02257 . . . Cca03g01279 . . . . . . . . Gma04g00894 Gma06g00881 . . Gso4g0827 Gso4g0827 . . Lal4g0346 . . . . . Lan14g0677 . . . . . Lapu9g01618 . Lasa5g03590 . . . . . . . . . Lja1g4283 . . . . . . . . . . . . . Phco7g01081 . . . . Psa5g1109 Pste2g02593 . . . . . . . Pvu9g0357 . Rops10g01742 . Seca4g01665 . Spst9g01128 . . Ssu1g3140 Sto5g0537 . . . Trre5g04612 . . . Vian4g01687 . Vifa2g03468 . Vimu10g02578 . Viun9g02623 . Vivi3g02100 . . Vra5g0884
Vvi18g0524 . . . . Adu08g00750 . . . . . Ahy17g3001 . Aip07g03264 . . . Amo17g3070 . . Apr5g0988 Arst8g00989 . . . . . Bva06g02678 . . . . Cca03g01280 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4282 . . . . . . . . . . . . . Phco7g01080 . . . . . Pste2g02592 . . . . . Pumo10g01100 . Pvu9g0358 . . . . . Spst9g01127 . . Ssu1g3141 . . . . . . . . . . . . . . . . . . . .
Vvi18g0525 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0516 Chr18 5092206 5123595 +
Vvi Vvi18g0517 Chr18 5130432 5131472 +
Vvi Vvi18g0518 Chr18 5139274 5140427 +
Adu Adu07g01945 Chr07 61868018 61869771 +
Aed Aed3g1702 Chr3 21655514 21657623 +
Aev Aev08g1075 Chr08 6522721 6523946 +
Ahy Ahy17g2997 Chr17 130502731 130504818 +
Aip Aip07g03256 Chr07 121351153 121353147 +
Amo Amo17g3075 Chr17 134644359 134646510 -
Apr Apr9g0972 Chr9 18701213 18703309 +
Arst Arst7g02450 Chr7 60721507 60723489 +
Bva Bva12g02256 Chr12 17244251 17245825 +
Car Car02g01161 Chr02 34766711 34768184 +
Cca Cca05g01094 Chr05 28007814 28009991 +
Dod Dod08g1224 Chr08 16483198 16485063 -
Gma Gma02g02002 Chr02 45481877 45483887 +
Lal Lal17g0392 Chr17 2620361 2622064 -
Lal Lal18g1166 Chr18 14544431 14546392 +
Lasa Lasa2g00981 Chr2 396803681 396805073 +
Lja Lja1g4286 Chr1 55182959 55184799 -
Lja Lja1g6001 Chr1 110842491 110844479 +
Mal Mal8g2355 Chr8 51488385 51490184 -
Mepo Mepo7g01585 Chr7 24981345 24984057 +
Mesa Mesa17g02804 Chr17 49869403 49871434 +
Mtr Mtr5g2201 Chr5 28696130 28699204 +
Phac Phac8g02316 Chr8 32069357 32071202 +
Phco Phco3g01250 Chr3 11389024 11396436 -
Pste Pste8g01814 Chr8 12686572 12688937 -
Pte Pte16g01272 Chr16 32371278 32373389 +
Pte Pte8g01191 Chr8 35984429 35985844 -
Pumo Pumo9g01400 Chr9 41095676 41098016 +
Pvu Pvu8g1848 Chr8 47115909 47117729 +
Seca Seca8g01909 Chr8 39442611 39444356 -
Spst Spst8g01186 Chr8 10852233 10853509 -
Ssu Ssu6g2469 Chr6 58148543 58150597 +
Sto Sto9g3058 Chr9 31447580 31448460 +
Vian Vian7g00056 Chr7 2376803 2378407 +
Vimu Vimu1g01947 Chr1 25659902 25661417 +
Viun Viun8g01567 Chr8 26186506 26188382 +
Vivi Vivi7g01233 Chr7 63395591 63397282 +
Vra Vra6g1290 Chr6 24550730 24552489 -
Vvi Vvi18g0519 Chr18 5163282 5164450 +
Acco Acco10g2276 Chr10 34671484 34672652 -
Accr Accr4g00500 Chr4 4812254 4813423 +
Adu Adu08g00749 Chr08 13527845 13529298 +
Aev Aev07g1891 Chr07 20026156 20028295 -
Ahy Ahy17g1778 Chr17 45263571 45265634 -
Aip Aip07g01813 Chr07 41740398 41742154 -
Alju Alju08g0527 Chr08 3799089 3800271 +
Amo Amo17g1312 Chr17 40422948 40424855 -
Apr Apr5g0986 Chr5 14436070 14437553 +
Arst Arst8g00988 Chr8 13496780 13498416 +
Bisa Bisa09g1508 Chr09 22209541 22210697 -
Dere Dere04g0861 Chr04 8836509 8837625 -
Dod Dod08g1224 Chr08 16483198 16485063 -
Enph Enph1g1595 Chr1 41230241 41232418 -
Glsi Glsi08g1294 Chr08 9393997 9395200 +
Gma Gma04g00895 Chr04 8963378 8965114 -
Gma Gma06g00883 Chr06 8166584 8168173 -
Gso Gso4g0828 Chr4 8763887 8765641 -
Gso Gso4g0828 Chr4 8763887 8765641 -
Lapu Lapu9g01617 Chr9 30874408 30876217 +
Lasa Lasa5g03588 Chr5 577441615 577442944 +
Lele Lele02g0417 Chr02 2416280 2417444 +
Lele Lele04g0425 Chr04 2518355 2519519 +
Mepo Mepo3g07027 Chr3 83851343 83857387 +
Mibi Mibi05g0467 Chr05 4443226 4444423 +
Phco Phco7g01082 Chr7 9087438 9088608 -
Prci Prci15g0641 Chr15 4193770 4195289 +
Pste Pste2g02597 Chr2 26119885 26121534 -
Pte Pte3g01684 Chr3 16259591 16268620 -
Pumo Pumo10g01101 Chr10 14129591 14131235 -
Pvu Pvu9g0356 Chr9 7386248 7387735 +
Rops Rops10g01744 Chr10 32582831 32584104 -
Seca Seca4g01668 Chr4 27134545 27136276 -
Spst Spst9g01129 Chr9 10346746 10347903 -
Trre Trre5g04613 Chr5 48143751 48145506 -
Vian Vian4g01686 Chr4 32867214 32868373 +
Vifa Vifa2g03466 Chr2 1002640241 1002641524 +
Vimu Vimu10g02577 Chr10 37126812 37128054 +
Viun Viun9g02622 Chr9 35252220 35253745 +
Vivi Vivi3g02102 Chr3 34637868 34639539 -
Vvi Vvi18g0520 Chr18 5169811 5170958 +
Aed Aed10g0167 Chr10 1326435 1328089 -
Cca Cca03g01277 Chr03 30293583 30295291 +
Lal Lal17g0390 Chr17 2608352 2616871 -
Psa Psa5g1111 Chr5 86363125 86364537 +
Ssu Ssu1g3139 Chr1 82204566 82229064 +
Vra Vra5g0883 Chr5 14844808 14846214 +
Vvi Vvi18g0521 Chr18 5184425 5218160 -
Adu Adu07g01946 Chr07 61869960 61878655 -
Aed Aed3g1703 Chr3 21669124 21677065 -
Aev Aev07g1890 Chr07 20014878 20024348 +
Ahy Ahy17g1777 Chr17 45248342 45254350 +
Aip Aip07g01812 Chr07 41724744 41739879 +
Amo Amo17g1311 Chr17 40407896 40422096 +
Apr Apr9g0973 Chr9 18705259 18720740 -
Apr Apr1g0040 Chr1 509953 538812 +
Arst Arst7g02452 Chr7 60723644 60732378 -
Bva Bva06g02680 Chr06 16937742 16945235 +
Car Car02g01162 Chr02 34792788 34804423 -
Cca Cca05g01095 Chr05 28014234 28025464 -
Dod Dod08g1223 Chr08 16468469 16482353 +
Gma Gma14g01784 Chr14 48023849 48044413 -
Gma Gma02g02003 Chr02 45484692 45499218 -
Lal Lal6g0453 Chr6 2869485 2878549 +
Lasa Lasa2g00983 Chr2 397240126 397254784 -
Lja Lja1g6002 Chr1 110844847 110860518 -
Mal Mal8g2354 Chr8 51469455 51483028 +
Mepo Mepo7g01587 Chr7 25001021 25015230 -
Mesa Mesa17g02805 Chr17 49879329 49892699 -
Mtr Mtr5g2205 Chr5 28721775 28733689 -
Phac Phac8g02321 Chr8 32094048 32111274 -
Phco Phco3g01249 Chr3 11360259 11376832 +
Pste Pste8g01813 Chr8 12681560 12685164 +
Pte Pte16g01273 Chr16 32376057 32381885 -
Pumo Pumo9g01401 Chr9 41101510 41119149 -
Pvu Pvu8g1849 Chr8 47120901 47138415 -
Rops Rops9g01452 Chr9 24024158 24034205 +
Seca Seca8g01906 Chr8 39421854 39428176 +
Spst Spst8g01185 Chr8 10837902 10848734 +
Ssu Ssu6g2470 Chr6 58163661 58175719 -
Tpr Tpr2g4793 Chr2 53384621 53390532 -
Viun Viun8g01569 Chr8 26215741 26236828 -
Vivi Vivi7g01235 Chr7 63411272 63425114 -
Vvi Vvi18g0522 Chr18 5220072 5220911 +
Vvi Vvi18g0523 Chr18 5240767 5244202 +
Adu Adu08g00834 Chr08 15427160 15433216 -
Aed Aed10g0166 Chr10 1318589 1320880 -
Apr Apr5g0987 Chr5 14445135 14451226 +
Bva Bva12g02257 Chr12 17248612 17250943 +
Cca Cca03g01279 Chr03 30330693 30337062 +
Gma Gma04g00894 Chr04 8953878 8957001 -
Gma Gma06g00881 Chr06 8155038 8157268 -
Gso Gso4g0827 Chr4 8754060 8757658 -
Gso Gso4g0827 Chr4 8754060 8757658 -
Lal Lal4g0346 Chr4 2320977 2329877 -
Lan Lan14g0677 Chr14 13716775 13721452 +
Lapu Lapu9g01618 Chr9 30880380 30886587 +
Lasa Lasa5g03590 Chr5 577619412 577621293 +
Lja Lja1g4283 Chr1 55134704 55143706 -
Phco Phco7g01081 Chr7 9072657 9078069 -
Psa Psa5g1109 Chr5 86265144 86269793 -
Pste Pste2g02593 Chr2 26078756 26084149 -
Pvu Pvu9g0357 Chr9 7394860 7399621 +
Rops Rops10g01742 Chr10 32556868 32560750 -
Seca Seca4g01665 Chr4 27073390 27077471 -
Spst Spst9g01128 Chr9 10340832 10343974 -
Ssu Ssu1g3140 Chr1 82271394 82276177 +
Sto Sto5g0537 Chr5 3423742 3425733 +
Trre Trre5g04612 Chr5 48130653 48132536 -
Vian Vian4g01687 Chr4 32872209 32874902 +
Vifa Vifa2g03468 Chr2 1003780734 1003782577 +
Vimu Vimu10g02578 Chr10 37132499 37140753 +
Viun Viun9g02623 Chr9 35258009 35263160 +
Vivi Vivi3g02100 Chr3 34572974 34577165 -
Vra Vra5g0884 Chr5 14854569 14860704 +
Vvi Vvi18g0524 Chr18 5244641 5245588 -
Adu Adu08g00750 Chr08 13554502 13555381 -
Ahy Ahy17g3001 Chr17 130570871 130572061 -
Aip Aip07g03264 Chr07 121413792 121414671 -
Amo Amo17g3070 Chr17 134533356 134534382 +
Apr Apr5g0988 Chr5 14453286 14454264 -
Arst Arst8g00989 Chr8 13523391 13524670 -
Bva Bva06g02678 Chr06 16933899 16936289 +
Cca Cca03g01280 Chr03 30335636 30337285 -
Lja Lja1g4282 Chr1 55133201 55134560 +
Phco Phco7g01080 Chr7 9064119 9064828 +
Pste Pste2g02592 Chr2 26077817 26078568 +
Pumo Pumo10g01100 Chr10 14100248 14101011 +
Pvu Pvu9g0358 Chr9 7400013 7400725 -
Spst Spst9g01127 Chr9 10336136 10336755 +
Ssu Ssu1g3141 Chr1 82280405 82281319 -
Vvi Vvi18g0525 Chr18 5247792 5250783 -