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
Vvi18g0966 . . . . . . . . Aev08g0312 . Ahy17g2449 . Aip07g02616 . . . . . . . . . . . . . . . . . . Cca07g00399 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0280 . . . . . . . . . . . . . . . . . . Vra5g1548
Vvi18g0967 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca07g00398 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra5g1549
Vvi18g0968 . . . . . . Aed11g0167 . . Aev07g0804 . Ahy16g3597 . Aip06g03868 . . . Amo16g3917 Apr9g0464 . . . . . . . Bva06g02043 Bva10g00772 Car04g03473 . Cca05g00225 . . . . Dod08g2130 . . . . . . . Gma17g02358 . . . . . . . Lal8g0610 . . . . . . . . . . . . . . . . . . . . . Lja5g3192 Mal1g5847 . . . . . . . Mtr1g0562 . . . . . . . . Psa5g0451 . . . . . . . . . . . . . . . . Ssu5g0194 . . Sto9g3599 Tpr1g3725 . . . Tsu01g00350 . . . . . . . . . . . Vra6g1905 .
Vvi18g0969 . . . . . . . . . Aev07g0803 . Ahy16g3598 . Aip06g03869 . . . Amo16g3918 Apr9g0466 . . Arst3g05356 . . . . Bva06g02042 Bva10g00773 Car04g03474 . Cca05g00226 . . . . Dod08g2131 . . . . . . Gma14g00682 Gma17g02359 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g3194 Mal1g5848 . . Mepo1g03221 . Mesa29g03659 . . Mtr1g0563 . . . . . . . . . . Pste1g01020 . . . . . Pumo10g02522 . Pvu11g1890 . Rops3g02322 . Seca4g09635 . Spst11g00417 Ssu5g0193 . . . Tpr1g3726 . . Trre15g01660 Tsu01g00349 . . Vian5g00456 . Vifa4g00420 . Vimu5g00832 . . . Vivi7g00053 Vra6g1906 .
Vvi18g0970 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0971 . . . . . . . . Aev08g0310 . Ahy17g2446 . Aip07g02612 . . . Amo17g2309 . . Apr5g1557 . . . . . . Bva06g02041 Bva10g00776 . Car05g03171 . Cca07g00395 . . . . . . . . Gma04g00332 Gma06g00317 Gma16g01319 . Gso4g0309 Gso4g0309 Gso4g0309 . . . Lal21g0164 . . . . . . . . . . . . . . . . . . . . . Lja1g3629 . . Mal2g0594 . . . . . . . Mtr3g4161 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0279 . . Tpr7g0332 . . . Tsu07g00365 . . . . . . . . . . . Vra5g1552
Vvi18g0972 . . . . . Adu03g00425 Aed11g0160 . Aev08g0309 Aev07g0801 Ahy17g2443 Ahy16g3599 Aip07g02611 Aip06g03870 . . . Amo16g3919 Apr9g0467 Apr5g1558 . Arst3g00558 . . . . Bva06g02040 Bva10g00777 Car04g03476 Car05g03172 Cca05g00228 Cca07g00394 . . Dod08g2132 Dod08g2133 . . . . Gma04g00331 . Gma14g00678 Gma17g02360 Gso4g0308 . Gso4g0308 Gso4g0308 . Lal17g0089 Lal21g0163 Lal8g0609 . . . . . . . . . Lapu11g00711 . Lasa7g01300 . . . . . . . . Lja1g3628 Lja5g3196 Mal1g5857 Mal2g0593 . Mepo2g02254 . . . . Mtr1g0570 Mtr3g4162 . Phac11g00748 . Phco9g00563 . . . . . Pste1g01989 . . . . . . . Pvu11g0508 . Rops3g00611 . Seca4g03619 . Spst2g02468 Ssu5g0192 . Sto5g0278 Sto9g3600 Tpr1g3730 Tpr7g0331 . Trre7g02966 Tsu01g00347 Tsu07g00364 . Vian5g01448 . Vifa6g00853 . Vimu5g02289 . Viun11g02364 . . Vra6g1907 Vra5g1553
Vvi18g0973 Acco10g1591 . Accr4g01159 . . . . . Aev08g0308 . Ahy17g2440 . Aip07g02608 . Alju08g1197 . . . . Apr5g1559 . . . . Bisa09g2000 . . . . Car05g03173 . Cca07g00392 Dere04g0137 . . . Enph1g1074 . Glsi08g1990 . Gma04g00330 Gma06g00316 . . Gso4g0307 Gso4g0307 . . . . Lal21g0162 . . . . . . . . . Lapu9g02195 . Lasa5g04402 . . . . . . . . . Lja1g3627 . . Mal2g0592 Mepo3g07962 . Mesa9g05393 . Mibi05g1111 . . Mtr3g4163 . . Phco7g00406 . Prci8g0402 . . . Pste2g00899 . . . . . . . Pvu9g0572 . Rops10g02342 . Seca4g00595 . Spst9g00413 . . . . Sto9g3601 . Tpr7g0330 Trre5g05554 . . Tsu07g00363 Vian4g02291 . Vifa2g04349 . . . . . Vivi3g00359 . . Vra5g1555
Vvi18g0974 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0975 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu03g00425 Chr03 3881652 3883716 +
Arst Arst3g00558 Chr3 3887643 3889485 +
Lapu Lapu11g00711 Chr11 10161725 10163594 +
Lasa Lasa7g01300 Chr7 312030887 312032332 +
Mepo Mepo2g02254 Chr2 32256990 32258818 +
Phac Phac11g00748 Chr11 4838834 4840768 -
Phco Phco9g00563 Chr9 4069602 4071712 -
Pste Pste1g01989 Chr1 6204681 6206577 -
Pvu Pvu11g0508 Chr11 4247841 4249702 -
Rops Rops3g00611 Chr3 7632336 7634047 -
Seca Seca4g03619 Chr4 62626870 62628927 -
Spst Spst2g02468 Chr2 24340595 24342120 +
Trre Trre7g02966 Chr7 26530504 26531955 -
Vian Vian5g01448 Chr5 37111197 37112729 +
Vifa Vifa6g00853 Chr6 296037401 296038846 +
Vimu Vimu5g02289 Chr5 33907052 33908581 +
Viun Viun11g02364 Chr11 37658043 37659874 +
Psa Psa5g0451 Chr5 36772748 36776819 -
Vvi Vvi18g0966 Chr18 9846710 9857922 +
Aev Aev08g0312 Chr08 1690800 1692512 -
Ahy Ahy17g2449 Chr17 116861724 116870682 -
Aip Aip07g02616 Chr07 108459421 108467752 -
Cca Cca07g00399 Chr07 5249931 5252999 -
Sto Sto5g0280 Chr5 1660220 1661883 -
Vra Vra5g1548 Chr5 22065565 22068244 +
Vvi Vvi18g0967 Chr18 9865523 9867293 +
Cca Cca07g00398 Chr07 5229525 5231999 -
Vra Vra5g1549 Chr5 22087397 22090045 +
Vvi Vvi18g0968 Chr18 9884716 9889786 +
Aed Aed11g0167 Chr11 1335186 1341315 -
Aev Aev07g0804 Chr07 5402282 5408971 -
Ahy Ahy16g3597 Chr16 153607345 153613305 +
Aip Aip06g03868 Chr06 136318019 136322875 +
Amo Amo16g3917 Chr16 150944521 150951435 +
Apr Apr9g0464 Chr9 6467834 6473762 +
Bva Bva06g02043 Chr06 13615998 13620595 -
Bva Bva10g00772 Chr10 6213744 6218623 +
Car Car04g03473 Chr04 63784172 63790637 +
Cca Cca05g00225 Chr05 4792301 4799596 +
Dod Dod08g2130 Chr08 49005524 49014101 +
Gma Gma17g02358 Chr17 41611843 41619364 +
Lal Lal8g0610 Chr8 4238436 4243942 -
Lja Lja5g3192 Chr5 61939938 61945769 +
Mal Mal1g5847 Chr1 136072319 136078179 +
Mtr Mtr1g0562 Chr1 6533182 6539542 +
Psa Psa5g0451 Chr5 36772748 36776819 -
Ssu Ssu5g0194 Chr5 4123034 4129313 -
Sto Sto9g3599 Chr9 34723028 34728649 +
Tpr Tpr1g3725 Chr1 41375884 41381649 +
Tsu Tsu01g00350 Chr01 2922282 2927290 -
Vra Vra6g1905 Chr6 35655391 35662001 +
Vvi Vvi18g0969 Chr18 9890823 9892193 -
Aev Aev07g0803 Chr07 5398261 5401150 +
Ahy Ahy16g3598 Chr16 153613458 153615674 -
Aip Aip06g03869 Chr06 136323239 136325439 -
Amo Amo16g3918 Chr16 150950693 150952587 -
Apr Apr9g0466 Chr9 6492146 6493525 -
Arst Arst3g05356 Chr3 128515210 128522957 +
Bva Bva06g02042 Chr06 13613771 13615612 +
Bva Bva10g00773 Chr10 6219089 6220837 -
Car Car04g03474 Chr04 63790917 63793617 -
Cca Cca05g00226 Chr05 4804657 4806691 -
Dod Dod08g2131 Chr08 49015474 49019071 -
Gma Gma14g00682 Chr14 6718145 6720308 -
Gma Gma17g02359 Chr17 41629007 41631097 -
Lja Lja5g3194 Chr5 61953114 61955666 -
Mal Mal1g5848 Chr1 136080526 136082217 -
Mepo Mepo1g03221 Chr1 37002717 37009659 +
Mesa Mesa29g03659 Chr29 59305552 59311413 +
Mtr Mtr1g0563 Chr1 6542184 6544428 -
Pste Pste1g01020 Chr1 3254793 3273793 -
Pumo Pumo10g02522 Chr10 43213744 43220495 -
Pvu Pvu11g1890 Chr11 45815385 45817791 +
Rops Rops3g02322 Chr3 46792881 46799805 +
Seca Seca4g09635 Chr4 226861693 226866541 +
Spst Spst11g00417 Chr11 24807055 24812054 -
Ssu Ssu5g0193 Chr5 4115689 4117627 +
Tpr Tpr1g3726 Chr1 41382778 41385116 -
Trre Trre15g01660 Chr15 13334887 13341798 -
Tsu Tsu01g00349 Chr01 2919118 2921838 +
Vian Vian5g00456 Chr5 12117219 12122593 -
Vifa Vifa4g00420 Chr4 113882703 113886007 +
Vimu Vimu5g00832 Chr5 10685994 10691543 -
Vivi Vivi7g00053 Chr7 2839971 2843653 +
Vra Vra6g1906 Chr6 35664779 35667137 -
Vvi Vvi18g0970 Chr18 9897082 9897381 +
Vvi Vvi18g0971 Chr18 9901513 9904896 +
Aev Aev08g0310 Chr08 1682739 1686997 -
Ahy Ahy17g2446 Chr17 116770711 116776930 -
Aip Aip07g02612 Chr07 108382166 108390198 -
Amo Amo17g2309 Chr17 117250135 117256590 +
Apr Apr5g1557 Chr5 19402726 19408340 +
Bva Bva06g02041 Chr06 13608130 13611191 -
Bva Bva10g00776 Chr10 6229323 6232959 +
Car Car05g03171 Chr05 76606720 76612554 +
Cca Cca07g00395 Chr07 5163612 5171709 -
Gma Gma04g00332 Chr04 2841844 2847791 -
Gma Gma06g00317 Chr06 2756032 2761896 -
Gma Gma16g01319 Chr16 32010613 32015347 -
Gso Gso4g0309 Chr4 2789114 2795135 -
Gso Gso4g0309 Chr4 2789114 2795135 -
Gso Gso4g0309 Chr4 2789114 2795135 -
Lal Lal21g0164 Chr21 1105081 1110527 -
Lja Lja1g3629 Chr1 45071659 45079039 -
Mal Mal2g0594 Chr2 6852617 6857174 -
Mtr Mtr3g4161 Chr3 55508246 55518303 +
Sto Sto5g0279 Chr5 1647619 1658955 -
Tpr Tpr7g0332 Chr7 2683633 2690771 -
Tsu Tsu07g00365 Chr07 2741613 2746642 -
Vra Vra5g1552 Chr5 22103568 22108185 +
Vvi Vvi18g0972 Chr18 9911314 9912876 -
Adu Adu03g00425 Chr03 3881652 3883716 +
Aed Aed11g0160 Chr11 1255548 1257110 +
Aev Aev08g0309 Chr08 1679377 1681374 +
Aev Aev07g0801 Chr07 5375275 5378287 -
Ahy Ahy17g2443 Chr17 116620449 116622332 +
Ahy Ahy16g3599 Chr16 153636999 153640224 -
Aip Aip07g02611 Chr07 108241798 108243552 +
Aip Aip06g03870 Chr06 136333793 136336454 -
Amo Amo16g3919 Chr16 150974137 150977439 -
Apr Apr9g0467 Chr9 6510911 6513122 -
Apr Apr5g1558 Chr5 19415243 19417193 -
Arst Arst3g00558 Chr3 3887643 3889485 +
Bva Bva06g02040 Chr06 13605683 13607614 +
Bva Bva10g00777 Chr10 6233744 6236003 -
Car Car04g03476 Chr04 63822064 63823775 -
Car Car05g03172 Chr05 76614177 76616134 -
Cca Cca05g00228 Chr05 4862925 4865744 -
Cca Cca07g00394 Chr07 5160220 5162573 +
Dod Dod08g2132 Chr08 49045398 49046758 +
Dod Dod08g2133 Chr08 49046890 49047848 +
Gma Gma04g00331 Chr04 2831685 2833616 +
Gma Gma14g00678 Chr14 6662834 6665340 -
Gma Gma17g02360 Chr17 41642952 41644511 -
Gso Gso4g0308 Chr4 2778886 2780950 +
Gso Gso4g0308 Chr4 2778886 2780950 +
Gso Gso4g0308 Chr4 2778886 2780950 +
Lal Lal17g0089 Chr17 571877 573436 +
Lal Lal21g0163 Chr21 1102116 1103789 +
Lal Lal8g0609 Chr8 4229658 4231235 +
Lapu Lapu11g00711 Chr11 10161725 10163594 +
Lasa Lasa7g01300 Chr7 312030887 312032332 +
Lja Lja1g3628 Chr1 45067158 45069559 +
Lja Lja5g3196 Chr5 61984303 61986520 -
Mal Mal1g5857 Chr1 136192526 136194100 -
Mal Mal2g0593 Chr2 6849503 6851161 +
Mepo Mepo2g02254 Chr2 32256990 32258818 +
Mtr Mtr1g0570 Chr1 6589662 6591692 -
Mtr Mtr3g4162 Chr3 55519559 55521568 -
Phac Phac11g00748 Chr11 4838834 4840768 -
Phco Phco9g00563 Chr9 4069602 4071712 -
Pste Pste1g01989 Chr1 6204681 6206577 -
Pvu Pvu11g0508 Chr11 4247841 4249702 -
Rops Rops3g00611 Chr3 7632336 7634047 -
Seca Seca4g03619 Chr4 62626870 62628927 -
Spst Spst2g02468 Chr2 24340595 24342120 +
Ssu Ssu5g0192 Chr5 4098644 4100425 +
Sto Sto5g0278 Chr5 1644400 1645974 +
Sto Sto9g3600 Chr9 34733791 34735368 -
Tpr Tpr1g3730 Chr1 41413943 41416026 -
Tpr Tpr7g0331 Chr7 2680409 2682568 +
Trre Trre7g02966 Chr7 26530504 26531955 -
Tsu Tsu01g00347 Chr01 2893994 2895918 +
Tsu Tsu07g00364 Chr07 2739040 2740800 +
Vian Vian5g01448 Chr5 37111197 37112729 +
Vifa Vifa6g00853 Chr6 296037401 296038846 +
Vimu Vimu5g02289 Chr5 33907052 33908581 +
Viun Viun11g02364 Chr11 37658043 37659874 +
Vra Vra6g1907 Chr6 35679827 35681614 -
Vra Vra5g1553 Chr5 22114063 22115571 -
Vvi Vvi18g0973 Chr18 9925429 9928109 +
Acco Acco10g1591 Chr10 29460221 29464058 -
Accr Accr4g01159 Chr4 11013821 11017815 +
Aev Aev08g0308 Chr08 1674073 1676025 -
Ahy Ahy17g2440 Chr17 116448320 116450582 +
Aip Aip07g02608 Chr07 108079242 108081332 +
Alju Alju08g1197 Chr08 9011590 9015593 +
Apr Apr5g1559 Chr5 19420973 19424450 +
Bisa Bisa09g2000 Chr09 31713298 31719223 +
Car Car05g03173 Chr05 76623206 76626417 +
Cca Cca07g00392 Chr07 5142089 5144706 -
Dere Dere04g0137 Chr04 1429739 1434471 -
Enph Enph1g1074 Chr1 36985799 36990360 -
Glsi Glsi08g1990 Chr08 14016714 14020905 +
Gma Gma04g00330 Chr04 2825333 2827799 -
Gma Gma06g00316 Chr06 2750724 2753805 -
Gso Gso4g0307 Chr4 2773182 2775739 -
Gso Gso4g0307 Chr4 2773182 2775739 -
Lal Lal21g0162 Chr21 1092242 1094779 -
Lapu Lapu9g02195 Chr9 36654666 36657662 +
Lasa Lasa5g04402 Chr5 660035144 660037205 +
Lja Lja1g3627 Chr1 45058414 45061414 -
Mal Mal2g0592 Chr2 6842485 6844728 -
Mepo Mepo3g07962 Chr3 92510722 92513754 -
Mesa Mesa9g05393 Chr9 89141427 89144223 +
Mibi Mibi05g1111 Chr05 13483665 13489081 +
Mtr Mtr3g4163 Chr3 55528823 55532821 +
Phco Phco7g00406 Chr7 2882854 2885052 -
Prci Prci8g0402 Chr8 2529071 2533691 +
Pste Pste2g00899 Chr2 9645727 9648481 -
Pvu Pvu9g0572 Chr9 10250837 10252822 +
Rops Rops10g02342 Chr10 41280498 41283247 +
Seca Seca4g00595 Chr4 9771393 9774098 -
Spst Spst9g00413 Chr9 3690944 3698395 -
Sto Sto9g3601 Chr9 34738860 34740974 +
Tpr Tpr7g0330 Chr7 2675352 2677758 -
Trre Trre5g05554 Chr5 55954024 55956194 +
Tsu Tsu07g00363 Chr07 2733041 2735430 -
Vian Vian4g02291 Chr4 39745950 39748047 +
Vifa Vifa2g04349 Chr2 1279372825 1279374349 +
Vivi Vivi3g00359 Chr3 6348910 6351225 +
Vra Vra5g1555 Chr5 22138671 22140600 +
Vvi Vvi18g0974 Chr18 9928956 9931544 +
Vvi Vvi18g0975 Chr18 9932714 9934030 -
Acco Acco10g1591 Chr10 29460221 29464058 -
Accr Accr4g01159 Chr4 11013821 11017815 +
Alju Alju08g1197 Chr08 9011590 9015593 +
Bisa Bisa09g2000 Chr09 31713298 31719223 +
Dere Dere04g0137 Chr04 1429739 1434471 -
Enph Enph1g1074 Chr1 36985799 36990360 -
Glsi Glsi08g1990 Chr08 14016714 14020905 +
Mibi Mibi05g1111 Chr05 13483665 13489081 +
Prci Prci8g0402 Chr8 2529071 2533691 +