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
Vvi4g0334 . . . . Adu10g02011 . Aed10g0036 . . . . . . . . . . . Apr5g1106 . Arst10g02562 . . . . . . . Car05g03099 . Cca03g01410 . . . . . . . . . . . Gma04g00761 Gma06g00752 . . . . . . . . . . . . . . . . Lapu9g01740 . . . . . . . . . . . Lja1g3710 . Mal2g0685 . Mepo3g07617 . Mesa9g05305 . . . Mtr3g4081 . Phac9g02320 . Phco7g00927 . . . Psa5g0515 . . . . . . . Pumo10g00944 . Pvu9g1120 . Rops10g01578 . Seca4g00721 . Spst9g00961 . Ssu1g3283 . . Sto9g3184 Tpr7g0422 . Trre5g05435 . Tsu07g00455 . Vian4g01815 . Vifa2g04223 . Vimu10g02734 . Viun9g02814 . . . Vra5g1032 .
Vvi4g0335 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0336 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0337 . . Accr4g00631 . Adu10g02013 . Aed10g0035 . . Aev08g1201 . Ahy20g2215 . Aip10g02619 Alju08g0658 . . Amo20g2898 Apr5g1107 . Arst10g02563 . . . Bisa09g1362 . Bva10g00187 . . . Cca03g01411 . Dere04g0727 . . Dod09g1107 Enph1g1499 . Glsi08g1428 . . . Gma04g00760 Gma06g00751 . . . . . . . . . . . . . . . . Lapu9g01741 . Lasa5g04299 . Lele01g0522 Lele02g0508 Lele03g0531 Lele04g0530 . . . . Lja1g3711 . . . . . . . Mibi05g0576 . . . Phac9g02321 . . . Prci15g0822 . Psa5g0516 . . . . . . . Pumo10g00943 . Pvu9g1118 . . . Seca4g00722 . . . Ssu1g3284 . . . . . . . . . Vian4g01816 . Vifa2g04221 . Vimu10g02736 . Viun9g02816 . Vivi3g00168 . Vra5g1034 .
Vvi4g0338 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0339 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0340 . . . . Adu10g02019 . . . . Aev08g1204 . Ahy20g2221 . Aip10g02627 . . . Amo20g2905 Apr5g1109 . Arst10g02568 . . . . . . . Car05g03097 . Cca03g01412 . . . . Dod09g1101 . . . . . . Gma04g00758 Gma06g00748 . . . . . . Lal17g0315 . . . . . . . . . Lapu9g01742 . Lasa5g04296 . . . . . . . . . Lja1g3715 . Mal2g0688 . Mepo3g07615 . Mesa9g05303 . . . Mtr3g4079 . . . Phco7g00924 . . . Psa5g0520 . . . . Pte1g01671 . . Pumo10g00941 . Pvu9g1116 . Rops10g01576 . Seca4g00724 . Spst9g00957 . Ssu1g3287 . . . Tpr7g0424 . Trre5g05430 . Tsu07g00458 . Vian4g01818 . Vifa2g04218 . Vimu10g02738 . Viun9g02820 . Vivi3g00161 . Vra5g1036 .
Vvi4g0341 . . . . Adu10g02025 . Aed10g0033 . . Aev08g1205 . Ahy20g2230 . Aip10g02633 . . . Amo20g2914 Apr5g1110 . Arst10g02580 . Bach12g00622 . . . . Bva06g02547 . Car04g03007 Cca03g01413 . . . . Dod09g1100 . . . . . . Gma04g00757 Gma06g00747 . . . . . Lal4g0281 Lal17g0314 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g00923 . . . . Psa6g0870 Pste2g02206 . . Pte1g01670 . . Pumo10g00940 . Pvu9g1115 . . . Seca8g02776 . Spst9g00956 . Ssu1g3288 . Sto5g0681 . . . . . . . Vian4g01819 . . . Vimu10g02739 . Viun9g02821 . Vivi4g04756 . Vra5g1037 .
Vvi4g0342 . . . . Adu10g02026 . Aed10g0032 . . Aev08g1206 . Ahy20g2232 . Aip10g02635 . . . . Apr5g1111 . Arst10g02582 . Bach12g00621 . . . . Bva06g02546 Car05g03096 . Cca03g01414 . . . . Dod09g1099 . . . . . . Gma04g00756 Gma06g00746 . . . . . . Lal17g0313 . . . . . . . . . Lapu9g01744 . Lasa5g04294 . . . . . . . . . Lja1g3716 . . . . . . . . . . . Phac9g00638 . Phco7g00922 . . . Psa5g0521 . Pste2g02202 . . . . . Pumo10g00939 . Pvu9g1114 . . . Seca4g00725 . Spst9g00955 . Ssu1g3289 . . . . . . . . . Vian4g01820 . Vifa2g04217 . Vimu10g02740 . Viun9g02822 . Vivi3g00159 . Vra5g1038 .
Vvi4g0343 . . . . Adu10g02027 . . . . Aev08g1207 . Ahy20g2233 . Aip10g02636 . . . . Apr5g1112 . Arst10g02584 . . . . . Bva10g00190 . Car05g03095 . Cca03g01415 . . . . Dod09g1098 . . . . . . Gma04g00755 Gma06g00745 . . . . . . . . . . . . . . . . Lapu9g01745 . Lasa5g04293 . . . . . . . . . Lja1g3717 . Mal2g0689 . Mepo3g07613 . Mesa9g05301 . . . Mtr3g4078 . Phac9g00637 . Phco7g00921 . . . Psa5g0522 . Pste2g02201 . . Pte1g01669 . . Pumo10g00938 . Pvu9g1113 . Rops10g01573 . Seca4g00726 . Spst9g00954 . Ssu1g3290 . Sto5g0682 . Tpr7g0425 . Trre5g05428 . Tsu07g00459 . Vian4g01821 . Vifa2g04215 . Vimu10g02741 . Viun9g02823 . Vivi3g00158 . Vra5g1039 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0334 Chr4 2873739 2878007 +
Adu Adu10g02011 Chr10 90299381 90305668 +
Aed Aed10g0036 Chr10 249708 253116 -
Apr Apr5g1106 Chr5 15689615 15693496 +
Arst Arst10g02562 Chr10 89304362 89310818 +
Car Car05g03099 Chr05 75756695 75761094 -
Cca Cca03g01410 Chr03 32456120 32460236 +
Gma Gma04g00761 Chr04 7151123 7155710 -
Gma Gma06g00752 Chr06 6796665 6804635 -
Lapu Lapu9g01740 Chr9 32262206 32278952 +
Lja Lja1g3710 Chr1 46448525 46452470 +
Mal Mal2g0685 Chr2 8041152 8045438 +
Mepo Mepo3g07617 Chr3 89460455 89464830 -
Mesa Mesa9g05305 Chr9 87916131 87920011 -
Mtr Mtr3g4081 Chr3 54578147 54582959 -
Phac Phac9g02320 Chr9 22062896 22068926 +
Phco Phco7g00927 Chr7 7465787 7470437 -
Psa Psa5g0515 Chr5 41157465 41159780 +
Pumo Pumo10g00944 Chr10 12280709 12284094 -
Pvu Pvu9g1120 Chr9 16380601 16385842 -
Rops Rops10g01578 Chr10 29229520 29234097 -
Seca Seca4g00721 Chr4 12167948 12176282 +
Spst Spst9g00961 Chr9 8480938 8484595 -
Ssu Ssu1g3283 Chr1 85348381 85362034 +
Sto Sto9g3184 Chr9 32283600 32284544 +
Tpr Tpr7g0422 Chr7 3495898 3502059 +
Trre Trre5g05435 Chr5 54984596 54994831 -
Tsu Tsu07g00455 Chr07 3510761 3523191 +
Vian Vian4g01815 Chr4 34457990 34461253 +
Vifa Vifa2g04223 Chr2 1238993736 1238996533 -
Vimu Vimu10g02734 Chr10 38738747 38742138 +
Viun Viun9g02814 Chr9 36777274 36780999 +
Vra Vra5g1032 Chr5 16739890 16743520 +
Vvi Vvi4g0335 Chr4 2880130 2880892 +
Vvi Vvi4g0336 Chr4 2881184 2881879 -
Vvi Vvi4g0337 Chr4 2883265 2886368 +
Accr Accr4g00631 Chr4 6155950 6159180 +
Adu Adu10g02013 Chr10 90365309 90366163 +
Aed Aed10g0035 Chr10 243805 247247 -
Aev Aev08g1201 Chr08 7531901 7536096 +
Ahy Ahy20g2215 Chr20 123155811 123175715 +
Aip Aip10g02619 Chr10 115391913 115468205 +
Alju Alju08g0658 Chr08 4865859 4869097 +
Amo Amo20g2898 Chr20 130215834 130225808 +
Apr Apr5g1107 Chr5 15695806 15696903 +
Arst Arst10g02563 Chr10 89304362 89310818 +
Bisa Bisa09g1362 Chr09 19635119 19639765 -
Bva Bva10g00187 Chr10 3247304 3251202 +
Cca Cca03g01411 Chr03 32467732 32471565 +
Dere Dere04g0727 Chr04 7340474 7343905 -
Dod Dod09g1107 Chr09 31723341 31727162 -
Enph Enph1g1499 Chr1 40335128 40338892 -
Glsi Glsi08g1428 Chr08 10389970 10393434 +
Gma Gma04g00760 Chr04 7141238 7147900 -
Gma Gma06g00751 Chr06 6789611 6794263 -
Lapu Lapu9g01741 Chr9 32262206 32278952 +
Lasa Lasa5g04299 Chr5 648639425 648642298 -
Lele Lele01g0522 Chr01 3107211 3109806 +
Lele Lele02g0508 Chr02 3070440 3074623 +
Lele Lele03g0531 Chr03 3134410 3137405 +
Lele Lele04g0530 Chr04 3203464 3207171 +
Lja Lja1g3711 Chr1 46459729 46464026 +
Mibi Mibi05g0576 Chr05 5553071 5556354 +
Phac Phac9g02321 Chr9 22062896 22068926 +
Prci Prci15g0822 Chr15 5271313 5275132 +
Psa Psa5g0516 Chr5 41184109 41187684 +
Pumo Pumo10g00943 Chr10 12268480 12275244 -
Pvu Pvu9g1118 Chr9 16363997 16366320 -
Seca Seca4g00722 Chr4 12176995 12178019 +
Ssu Ssu1g3284 Chr1 85384438 85389188 +
Vian Vian4g01816 Chr4 34467220 34473270 +
Vifa Vifa2g04221 Chr2 1237572574 1237574666 +
Vimu Vimu10g02736 Chr10 38750965 38753498 +
Viun Viun9g02816 Chr9 36777313 36780999 +
Vivi Vivi3g00168 Chr3 3136837 3139561 -
Vra Vra5g1034 Chr5 16753384 16755613 +
Vvi Vvi4g0338 Chr4 2887667 2888048 -
Vvi Vvi4g0339 Chr4 2889551 2892122 -
Vvi Vvi4g0340 Chr4 2897025 2898371 +
Adu Adu10g02019 Chr10 90556117 90559523 +
Aev Aev08g1204 Chr08 7548237 7549601 +
Ahy Ahy20g2221 Chr20 123427318 123431049 +
Aip Aip10g02627 Chr10 115720186 115723037 +
Amo Amo20g2905 Chr20 130525117 130528719 +
Apr Apr5g1109 Chr5 15711022 15712697 +
Arst Arst10g02568 Chr10 89561172 89564578 +
Car Car05g03097 Chr05 75747467 75748914 -
Cca Cca03g01412 Chr03 32478913 32480642 +
Dod Dod09g1101 Chr09 31690665 31692134 -
Gma Gma04g00758 Chr04 7133115 7134482 -
Gma Gma06g00748 Chr06 6776234 6777607 -
Lal Lal17g0315 Chr17 1975097 1975591 -
Lapu Lapu9g01742 Chr9 32290170 32291519 +
Lasa Lasa5g04296 Chr5 648335766 648337139 -
Lja Lja1g3715 Chr1 46491656 46493318 +
Mal Mal2g0688 Chr2 8062076 8067017 +
Mepo Mepo3g07615 Chr3 89451812 89453194 -
Mesa Mesa9g05303 Chr9 87907866 87909245 -
Mtr Mtr3g4079 Chr3 54564861 54569287 -
Phco Phco7g00924 Chr7 7438010 7439359 -
Psa Psa5g0520 Chr5 41259106 41260894 +
Pte Pte1g01671 Chr1 38262657 38264030 -
Pumo Pumo10g00941 Chr10 12249541 12251294 -
Pvu Pvu9g1116 Chr9 16348353 16349702 -
Rops Rops10g01576 Chr10 29203500 29204801 -
Seca Seca4g00724 Chr4 12190192 12190404 +
Spst Spst9g00957 Chr9 8464500 8465846 -
Ssu Ssu1g3287 Chr1 85423443 85424795 +
Tpr Tpr7g0424 Chr7 3516128 3521414 +
Trre Trre5g05430 Chr5 54958688 54960800 -
Tsu Tsu07g00458 Chr07 3531152 3534256 +
Vian Vian4g01818 Chr4 34488860 34490209 +
Vifa Vifa2g04218 Chr2 1237405644 1237407011 -
Vimu Vimu10g02738 Chr10 38765840 38767189 +
Viun Viun9g02820 Chr9 36814586 36816052 +
Vivi Vivi3g00161 Chr3 3085988 3087364 -
Vra Vra5g1036 Chr5 16765477 16767130 +
Vvi Vvi4g0341 Chr4 2904161 2905753 -
Adu Adu10g02025 Chr10 90789403 90791987 -
Aed Aed10g0033 Chr10 230688 231847 +
Aev Aev08g1205 Chr08 7552163 7553174 -
Ahy Ahy20g2230 Chr20 123677014 123679435 -
Aip Aip10g02633 Chr10 115955440 115958945 -
Amo Amo20g2914 Chr20 130669837 130671841 -
Apr Apr5g1110 Chr5 15715379 15716791 -
Arst Arst10g02580 Chr10 89794371 89797123 -
Bach Bach12g00622 Chr12 4233953 4235047 +
Bva Bva06g02547 Chr06 16120170 16121542 +
Car Car04g03007 Chr04 57881066 57883036 +
Cca Cca03g01413 Chr03 32489374 32490759 -
Dod Dod09g1100 Chr09 31681127 31682832 +
Gma Gma04g00757 Chr04 7121533 7123287 +
Gma Gma06g00747 Chr06 6769283 6770606 +
Lal Lal4g0281 Chr4 1822386 1824180 +
Lal Lal17g0314 Chr17 1971067 1972874 +
Phco Phco7g00923 Chr7 7434103 7435303 +
Psa Psa6g0870 Chr6 30753624 30755312 +
Pste Pste2g02206 Chr2 22048928 22049866 +
Pte Pte1g01670 Chr1 38260831 38262361 +
Pumo Pumo10g00940 Chr10 12242908 12244504 +
Pvu Pvu9g1115 Chr9 16344672 16345940 +
Seca Seca8g02776 Chr8 75368458 75371364 -
Spst Spst9g00956 Chr9 8458610 8459568 +
Ssu Ssu1g3288 Chr1 85436546 85437766 -
Sto Sto5g0681 Chr5 4609414 4614540 -
Vian Vian4g01819 Chr4 34494507 34495411 -
Vimu Vimu10g02739 Chr10 38771572 38772723 -
Viun Viun9g02821 Chr9 36822396 36823571 -
Vivi Vivi4g04756 Chr4 176779460 176781009 -
Vra Vra5g1037 Chr5 16771355 16772446 -
Vvi Vvi4g0342 Chr4 2911649 2917092 +
Adu Adu10g02026 Chr10 90837453 90840100 +
Aed Aed10g0032 Chr10 221400 224210 -
Aev Aev08g1206 Chr08 7558672 7560928 +
Ahy Ahy20g2232 Chr20 123838882 123841539 +
Aip Aip10g02635 Chr10 116079379 116082036 +
Apr Apr5g1111 Chr5 15719566 15722479 +
Arst Arst10g02582 Chr10 89842546 89845261 +
Bach Bach12g00621 Chr12 4229122 4232457 -
Bva Bva06g02546 Chr06 16115672 16119153 -
Car Car05g03096 Chr05 75740854 75744663 -
Cca Cca03g01414 Chr03 32498040 32506585 +
Dod Dod09g1099 Chr09 31669428 31676137 -
Gma Gma04g00756 Chr04 7112570 7116552 -
Gma Gma06g00746 Chr06 6764011 6766808 -
Lal Lal17g0313 Chr17 1963891 1969988 -
Lapu Lapu9g01744 Chr9 32295762 32298216 +
Lasa Lasa5g04294 Chr5 648319438 648321412 -
Lja Lja1g3716 Chr1 46495877 46498865 +
Phac Phac9g00638 Chr9 4270626 4273515 -
Phco Phco7g00922 Chr7 7428206 7431130 -
Psa Psa5g0521 Chr5 41285849 41287835 +
Pste Pste2g02202 Chr2 22008764 22013402 -
Pumo Pumo10g00939 Chr10 12232366 12235165 -
Pvu Pvu9g1114 Chr9 16336619 16340081 -
Seca Seca4g00725 Chr4 12193543 12198847 +
Spst Spst9g00955 Chr9 8453503 8456240 -
Ssu Ssu1g3289 Chr1 85474194 85477016 +
Vian Vian4g01820 Chr4 34497844 34500972 +
Vifa Vifa2g04217 Chr2 1237287631 1237289528 -
Vimu Vimu10g02740 Chr10 38774111 38776495 +
Viun Viun9g02822 Chr9 36824763 36828451 +
Vivi Vivi3g00159 Chr3 3042587 3044923 -
Vra Vra5g1038 Chr5 16780081 16783392 +
Vvi Vvi4g0343 Chr4 2917397 2919704 -
Adu Adu10g02027 Chr10 90840292 90842876 -
Aev Aev08g1207 Chr08 7561112 7564274 -
Ahy Ahy20g2233 Chr20 123841567 123844839 -
Aip Aip10g02636 Chr10 116082223 116084791 -
Apr Apr5g1112 Chr5 15722527 15727060 -
Arst Arst10g02584 Chr10 89845292 89847956 -
Bva Bva10g00190 Chr10 3260129 3260332 -
Car Car05g03095 Chr05 75732262 75741964 +
Cca Cca03g01415 Chr03 32506312 32509603 -
Dod Dod09g1098 Chr09 31668838 31672785 +
Gma Gma04g00755 Chr04 7107443 7113158 +
Gma Gma06g00745 Chr06 6760133 6764000 +
Lapu Lapu9g01745 Chr9 32298894 32302260 -
Lasa Lasa5g04293 Chr5 648317497 648319311 +
Lja Lja1g3717 Chr1 46498839 46502300 -
Mal Mal2g0689 Chr2 8067199 8069891 -
Mepo Mepo3g07613 Chr3 89445462 89448280 +
Mesa Mesa9g05301 Chr9 87894883 87897433 +
Mtr Mtr3g4078 Chr3 54561949 54565088 +
Phac Phac9g00637 Chr9 4266376 4271214 +
Phco Phco7g00921 Chr7 7424201 7428014 +
Psa Psa5g0522 Chr5 41287993 41289747 -
Pste Pste2g02201 Chr2 22007320 22009276 +
Pte Pte1g01669 Chr1 38252656 38257207 +
Pumo Pumo10g00938 Chr10 12228321 12232165 +
Pvu Pvu9g1113 Chr9 16333318 16337772 +
Rops Rops10g01573 Chr10 29181964 29185300 +
Seca Seca4g00726 Chr4 12196426 12197226 -
Spst Spst9g00954 Chr9 8449345 8453307 +
Ssu Ssu1g3290 Chr1 85477221 85480617 -
Sto Sto5g0682 Chr5 4618457 4620913 -
Tpr Tpr7g0425 Chr7 3521318 3538507 -
Trre Trre5g05428 Chr5 54956089 54958384 +
Tsu Tsu07g00459 Chr07 3533750 3536453 -
Vian Vian4g01821 Chr4 34501175 34504699 -
Vifa Vifa2g04215 Chr2 1237285693 1237287472 +
Vimu Vimu10g02741 Chr10 38774824 38780726 -
Viun Viun9g02823 Chr9 36827886 36831662 -
Vivi Vivi3g00158 Chr3 3040486 3042809 +
Vra Vra5g1039 Chr5 16783273 16787366 -