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
Vvi17g0473 Acco04g2848 . . . Adu01g03177 . Aed10g1155 Aed6g1653 Aev01g2208 . Ahy11g2055 Ahy20g2403 Aip01g02261 Aip10g02820 Alju06g2801 . . . Apr1g1014 Apr9g2932 Arst1g04098 . Bach5g00493 . Bisa08g1710 . Bva06g01120 Bva05g00582 Car07g00870 . Cca03g00688 Cca11g02047 Dere03g1032 . Dod05g1819 Dod09g0508 . . Glsi02g0956 . Gma06g01855 . Gma05g00174 . . . . . . Lal7g1337 . . . . . . . . . . Lapu3g00949 . Lasa4g03365 . Lele21g1979 Lele22g1942 Lele23g0035 Lele24g1890 . . . . . Lja4g2061 . . Mepo1g01183 . Mesa29g01214 . Mibi09g0036 . Mtr4g3998 . Phac3g02773 . Phco8g01433 . Prci4g3169 . Psa4g1078 . Pste6g02727 . . . . . Pumo4g01199 . Pvu3g1885 . Rops2g03790 . Seca12g01291 . Spst3g04787 . . Ssu6g1166 Sto3g1644 . Tpr5g3111 . Trre15g04317 . Tsu04g03778 . Vian1g00856 . Vifa4g03458 . Vimu7g00886 . Viun3g04690 . Vivi1g01817 . . Vra7g1965
Vvi17g0474 . . . . Adu01g00684 . . . . . . . . . . . . . . . Arst1g00916 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo1g02569 . Mesa29g02756 . . . . . . . Phco8g00206 . . . . . . . . . . . . . Pvu3g2889 . . . . . Spst3g03582 . . . . . . . Trre15g02014 . . . . . . . Vimu11g01025 . . . . . . .
Vvi17g0475 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0476 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0477 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0478 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0479 Acco04g2847 . . . Adu01g03178 . . . Aev01g2207 . Ahy11g2054 Ahy20g2404 Aip01g02260 Aip10g02821 Alju06g2800 . Amo11g2425 . . . Arst1g04099 . Bach5g00492 . Bisa08g1713 . . Bva05g00581 Car07g00871 . . . Dere03g1030 . Dod05g1818 Dod09g0507 Enph6g0783 . Glsi02g0949 . . Gma04g01534 . Gma17g00768 . . . . . . . . . . . . . . . . Lapu3g00950 . Lasa4g03364 . . . . . . . . . Lja1g5448 Lja4g2062 . . Mepo1g01185 . Mesa29g01216 . Mibi09g0037 . . . Phac3g02774 . Phco8g01432 . Prci4g3168 . Psa4g1079 . Pste6g02725 . Pte3g00382 . . . Pumo4g01200 . Pvu3g1886 . Rops2g03791 . . . Spst3g04786 . . . . . . . . . . . Vian1g00855 . Vifa4g03457 . Vimu7g00885 . Viun3g04689 . Vivi1g01818 . . .
Vvi17g0480 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0481 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0482 . . . . . Adu10g02176 Aed10g1152 Aed6g1652 . . . . . . . . . . . Apr9g2933 . Arst10g02790 . . . . Bva06g01121 . . . Cca03g00687 Cca11g02046 . . . . . . . . Gma06g01854 . Gma05g00176 . Gso6g1746 . Gso6g1746 . Lal19g1436 Lal7g1338 . . . . Lan1g1072 Lan1g1072 . . . . . . . Lasa1g02117 . . . . . . . . . . Mal5g4359 . . Mepo6g02398 . . . . Mtr4g3997 . . . . Phco7g02430 . . . . . . . . . . . Pumo10g02279 . Pvu9g2099 . Rops10g00416 . . . Spst9g02479 Ssu1g2006 Ssu6g1168 Sto3g1643 Sto12g0993 Tpr5g3110 . . Trre11g02311 Tsu04g03777 . . Vian4g00588 . . . Vimu10g00796 . Viun9g00814 . Vivi4g01747 . Vra7g1964
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0473 Chr17 5315093 5317941 +
Acco Acco04g2848 Chr04 45108137 45112509 -
Adu Adu01g03177 Chr01 103650479 103652429 +
Aed Aed10g1155 Chr10 10801291 10803939 -
Aed Aed6g1653 Chr6 20377993 20379918 -
Aev Aev01g2208 Chr01 26389559 26391464 -
Ahy Ahy11g2055 Chr11 130323968 130325877 -
Ahy Ahy20g2403 Chr20 128854797 128856460 +
Aip Aip01g02261 Chr01 119355703 119357614 -
Aip Aip10g02820 Chr10 120876341 120878139 +
Alju Alju06g2801 Chr06 54965911 54968531 -
Apr Apr1g1014 Chr1 16641363 16644765 -
Apr Apr9g2932 Chr9 36179862 36181702 +
Arst Arst1g04098 Chr1 102917996 102919851 +
Bach Bach5g00493 Chr5 3362206 3364071 -
Bisa Bisa08g1710 Chr08 39998698 40001142 +
Bva Bva06g01120 Chr06 8922987 8925119 +
Bva Bva05g00582 Chr05 2894554 2896553 -
Car Car07g00870 Chr07 7729555 7731882 +
Cca Cca03g00688 Chr03 12626834 12631081 -
Cca Cca11g02047 Chr11 46028861 46031187 -
Dere Dere03g1032 Chr03 16277409 16281579 -
Dod Dod05g1819 Chr05 43705316 43708395 -
Dod Dod09g0508 Chr09 7802060 7804092 -
Glsi Glsi02g0956 Chr02 6364040 6366984 -
Gma Gma06g01855 Chr06 19963307 19963567 -
Gma Gma05g00174 Chr05 1652173 1659131 +
Lal Lal7g1337 Chr7 18579551 18583328 +
Lapu Lapu3g00949 Chr3 10249862 10251751 +
Lasa Lasa4g03365 Chr4 588278023 588279394 -
Lele Lele21g1979 Chr21 26759102 26761612 -
Lele Lele22g1942 Chr22 24111629 24113595 -
Lele Lele23g0035 Chr23 209217 211277 +
Lele Lele24g1890 Chr24 23673864 23675611 -
Lja Lja4g2061 Chr4 22121072 22123544 +
Mepo Mepo1g01183 Chr1 11583049 11585270 +
Mesa Mesa29g01214 Chr29 15786305 15788345 +
Mibi Mibi09g0036 Chr09 707058 708688 +
Mtr Mtr4g3998 Chr4 53760416 53762673 -
Phac Phac3g02773 Chr3 29972872 29974957 +
Phco Phco8g01433 Chr8 14837692 14839190 -
Prci Prci4g3169 Chr4 42888648 42891957 -
Psa Psa4g1078 Chr4 79039606 79041808 +
Pste Pste6g02727 Chr6 14835237 14836969 -
Pumo Pumo4g01199 Chr4 15268681 15270970 +
Pvu Pvu3g1885 Chr3 39406101 39407926 +
Rops Rops2g03790 Chr2 69900993 69903013 +
Seca Seca12g01291 Chr12 12604770 12606692 +
Spst Spst3g04787 Chr3 99596320 99598031 -
Ssu Ssu6g1166 Chr6 19021892 19023663 +
Sto Sto3g1644 Chr3 12456826 12459838 -
Tpr Tpr5g3111 Chr5 53896914 53899671 -
Trre Trre15g04317 Chr15 53759343 53761287 -
Tsu Tsu04g03778 Chr04 46692879 46694764 -
Vian Vian1g00856 Chr1 8920745 8922249 -
Vifa Vifa4g03458 Chr4 1083528964 1083530648 -
Vimu Vimu7g00886 Chr7 8670632 8672513 -
Viun Viun3g04690 Chr3 54296400 54298048 -
Vivi Vivi1g01817 Chr1 38859075 38860673 +
Vra Vra7g1965 Chr7 39122915 39124690 -
Vvi Vvi17g0474 Chr17 5320630 5325215 -
Adu Adu01g00684 Chr01 9297321 9298337 -
Arst Arst1g00916 Chr1 9294545 9295561 -
Mepo Mepo1g02569 Chr1 27101035 27102585 +
Mesa Mesa29g02756 Chr29 38181771 38182772 -
Phco Phco8g00206 Chr8 1920136 1921134 +
Pvu Pvu3g2889 Chr3 50636774 50638096 -
Spst Spst3g03582 Chr3 85844619 85845617 +
Trre Trre15g02014 Chr15 16317788 16318786 +
Vimu Vimu11g01025 Chr11 10846398 10847399 -
Vvi Vvi17g0475 Chr17 5334850 5341030 -
Vvi Vvi17g0476 Chr17 5354564 5357443 -
Vvi Vvi17g0477 Chr17 5376310 5377368 -
Vvi Vvi17g0478 Chr17 5380262 5381293 +
Vvi Vvi17g0479 Chr17 5381828 5383506 -
Acco Acco04g2847 Chr04 45101968 45106453 +
Adu Adu01g03178 Chr01 103654299 103658337 -
Aev Aev01g2207 Chr01 26385103 26388190 +
Ahy Ahy11g2054 Chr11 130317857 130322044 +
Ahy Ahy20g2404 Chr20 128857416 128861616 -
Aip Aip01g02260 Chr01 119349782 119353909 +
Aip Aip10g02821 Chr10 120879378 120883100 -
Alju Alju06g2800 Chr06 54960047 54964503 +
Amo Amo11g2425 Chr11 128890668 128894889 +
Arst Arst1g04099 Chr1 102921738 102925840 -
Bach Bach5g00492 Chr5 3358510 3361343 +
Bisa Bisa08g1713 Chr08 40110744 40114696 -
Bva Bva05g00581 Chr05 2891147 2894362 +
Car Car07g00871 Chr07 7732728 7737027 -
Dere Dere03g1030 Chr03 16251972 16256450 +
Dod Dod05g1818 Chr05 43699701 43704384 +
Dod Dod09g0507 Chr09 7796092 7799678 +
Enph Enph6g0783 Chr6 10799664 10804897 +
Glsi Glsi02g0949 Chr02 6334546 6339015 +
Gma Gma04g01534 Chr04 41399893 41403369 -
Gma Gma17g00768 Chr17 6465850 6469326 +
Lapu Lapu3g00950 Chr3 10254320 10258488 -
Lasa Lasa4g03364 Chr4 588273764 588276242 +
Lja Lja1g5448 Chr1 92524510 92528697 +
Lja Lja4g2062 Chr4 22126736 22130866 -
Mepo Mepo1g01185 Chr1 11590399 11593358 -
Mesa Mesa29g01216 Chr29 15793531 15795021 -
Mibi Mibi09g0037 Chr09 709482 711256 -
Phac Phac3g02774 Chr3 29977571 29981637 -
Phco Phco8g01432 Chr8 14830405 14833756 +
Prci Prci4g3168 Chr4 42882822 42888061 +
Psa Psa4g1079 Chr4 79042938 79045872 -
Pste Pste6g02725 Chr6 14813784 14827156 +
Pte Pte3g00382 Chr3 3156334 3161748 +
Pumo Pumo4g01200 Chr4 15273002 15276470 -
Pvu Pvu3g1886 Chr3 39411559 39415515 -
Rops Rops2g03791 Chr2 69905194 69908980 -
Spst Spst3g04786 Chr3 99584826 99587756 +
Vian Vian1g00855 Chr1 8912872 8916096 +
Vifa Vifa4g03457 Chr4 1083525047 1083527307 +
Vimu Vimu7g00885 Chr7 8663585 8666873 +
Viun Viun3g04689 Chr3 54289518 54293448 +
Vivi Vivi1g01818 Chr1 38861905 38864958 -
Vvi Vvi17g0480 Chr17 5393704 5394042 -
Vvi Vvi17g0481 Chr17 5396606 5397916 +
Vvi Vvi17g0482 Chr17 5400026 5414396 -
Adu Adu10g02176 Chr10 94682915 94686993 -
Aed Aed10g1152 Chr10 10777734 10781634 +
Aed Aed6g1652 Chr6 20373690 20376722 +
Apr Apr9g2933 Chr9 36184503 36188663 -
Arst Arst10g02790 Chr10 93968147 93971900 -
Bva Bva06g01121 Chr06 8926298 8930113 -
Cca Cca03g00687 Chr03 12621757 12625857 +
Cca Cca11g02046 Chr11 46022020 46024816 +
Gma Gma06g01854 Chr06 19953846 19957426 +
Gma Gma05g00176 Chr05 1660590 1663699 -
Gso Gso6g1746 Chr6 19592684 19597080 +
Gso Gso6g1746 Chr6 19592684 19597080 +
Lal Lal19g1436 Chr19 17010755 17014714 -
Lal Lal7g1338 Chr7 18583945 18587479 -
Lan Lan1g1072 Chr1 20874954 20878771 +
Lan Lan1g1072 Chr1 20874954 20878771 +
Lasa Lasa1g02117 Chr1 223299390 223300720 -
Mal Mal5g4359 Chr5 114910734 114913997 +
Mepo Mepo6g02398 Chr6 32836718 32840267 -
Mtr Mtr4g3997 Chr4 53755139 53758810 +
Phco Phco7g02430 Chr7 42436135 42439531 +
Pumo Pumo10g02279 Chr10 32112160 32115515 +
Pvu Pvu9g2099 Chr9 30100948 30105450 +
Rops Rops10g00416 Chr10 11480388 11484316 -
Spst Spst9g02479 Chr9 58545003 58548175 +
Ssu Ssu1g2006 Chr1 56812495 56816635 -
Ssu Ssu6g1168 Chr6 19029417 19032730 -
Sto Sto3g1643 Chr3 12445805 12450017 +
Sto Sto12g0993 Chr12 6189295 6192383 +
Tpr Tpr5g3110 Chr5 53891359 53894903 +
Trre Trre11g02311 Chr11 27541550 27544860 +
Tsu Tsu04g03777 Chr04 46688237 46690710 +
Vian Vian4g00588 Chr4 7041105 7044492 +
Vimu Vimu10g00796 Chr10 7010276 7013353 +
Viun Viun9g00814 Chr9 6068014 6072244 -
Vivi Vivi4g01747 Chr4 78165003 78168023 +
Vra Vra7g1964 Chr7 39115521 39119445 +