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
Vvi1g0281 . Acco12g1113 . Accr10g00928 Adu09g03307 Adu05g03190 Aed11g0636 . . . . . . . . Alju12g0995 . . Apr7g1281 . Arst9g04399 . . Bach10g01186 . Bisa01g2646 Bva01g01789 Bva11g00810 Car02g00964 . Cca06g00410 . . Dere13g1617 . . . Enph14g1393 . Glsi09g1458 Gma02g00914 Gma01g00864 . . Gso2g0839 Gso2g0839 . . Lal6g0713 . . . . . . . . . . . Lapu7g01785 Lapu2g01176 Lasa6g03667 . . . . . Lele53g0663 Lele54g0672 Lele55g0826 Lele56g0768 Lja2g1387 Lja5g0948 Mal1g2770 . Mepo4g03933 . Mesa1g04272 . . Mibi10g0936 Mtr1g3441 . . . Phco6g02125 Phco8g03153 . Prci5g1200 Psa2g1876 . Pste4g03062 Pste1g02861 . . . . Pumo3g01365 Pumo8g00729 Pvu7g1044 Pvu3g0276 Rops6g02379 Rops1g00505 Seca8g07011 Seca10g02018 Spst10g00616 Spst2g01852 Ssu2g1326 . Sto11g0749 Sto6g2834 Tpr1g1063 . Trre1g04918 . Tsu01g04058 . Vian3g00904 Vian10g01746 Vifa3g02466 . Vimu3g02694 Vimu7g00247 Viun7g02819 Viun2g00468 Vivi1g06214 Vivi1g04859 Vra11g1417 .
Vvi1g0282 . . . . Adu09g03309 . . . . . . . . . . . . . Apr7g1280 . Arst9g04401 . . . . . Bva01g01788 Bva11g00809 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g01784 . Lasa6g03666 . . . . . . . . . . Lja5g0949 Mal1g2769 . Mepo4g03932 . Mesa1g04271 . . . Mtr1g3440 . . . Phco6g02124 . . . . . Pste4g03065 . . . . . Pumo3g01366 . Pvu7g1045 . Rops6g02378 . Seca8g07009 . Spst10g00615 . . . . Sto6g2833 Tpr1g1067 . Trre1g04912 . Tsu01g04057 . Vian3g00906 . Vifa3g02463 . Vimu3g02693 . Viun7g02818 . Vivi1g04860 . . .
Vvi1g0283 . . . . . . Aed11g0638 . . . . . . . . . . . Apr7g1279 . . . . . . . Bva01g01787 Bva11g00808 . . Cca06g00405 . . . . . . . . . . . . . . . . . . Lal22g0635 . . . . . . . . . . Lapu7g01783 . Lasa6g03665 . . . . . . . . . Lja2g1388 Lja5g0950 Mal1g2768 . Mepo4g03931 . Mesa1g04270 . . . Mtr1g3439 . . . Phco6g02123 . . . . . . . . . . . . . Pvu7g1046 . . . . . Spst10g00614 . Ssu2g1324 . . Sto6g2832 Tpr1g1068 . Trre1g04911 . Tsu01g04055 . . . . . Vimu3g02692 . . . Vivi1g04861 . . .
Vvi1g0284 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01786 Bva11g00807 . . . . . . . . . . . . . . . . . . . . Lal6g0711 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2829 . . . . . . . . . . . . . . . . . .
Vvi1g0285 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal18g0989 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0286 . . . . . . Aed11g0643 . . . . . . . . . . . Apr7g1278 . . . . . . . Bva01g01785 . Car02g00965 . Cca06g00403 . . . . . . . . . Gma02g00910 Gma01g00863 . . Gso2g0835 Gso2g0835 . . Lal6g0710 . Lal18g0990 . . . . . . . . . . . . . . . . . . . . . Lja2g1389 . Mal1g2766 . . . . . . . Mtr1g3437 . . . . Phco8g03061 . . Psa6g4076 . . Pste1g02633 . . . . . . . Pvu3g0374 . . . . . Spst2g01921 Ssu2g1322 . Sto11g0748 Sto6g2828 . . . . Tsu01g04054 . . . . . . . . . . . Vra11g1415 .
Vvi1g0287 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0288 . . . . . Adu05g03184 Aed11g0644 . . . . . . . . . . . Apr7g1276 . . . . Bach10g01189 . . . Bva11g00805 Car02g00966 . Cca06g00401 . . . . . . . . . Gma02g00909 Gma01g00861 . . Gso2g0833 Gso2g0833 . . . . Lal18g0992 . . . . . . . . . . . . Lasa2g00800 . . . . . . . . Lja2g1390 . Mal8g2811 . . Mepo7g01285 . Mesa17g02483 . . Mtr5g1952 . . . . Phco8g03148 . . . . . Pste1g02847 . . . . . Pumo8g00716 . Pvu3g0281 . Rops1g00502 . Seca10g02031 . Spst2g01858 Ssu2g1320 . . Sto6g2826 Tpr2g2223 . . Trre9g03320 Tsu05g02283 . . Vian10g01751 . Vifa1g09227 . Vimu7g00252 . . . . Vra11g1413 .
Vvi1g0289 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0290 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0281 Chr1 2606645 2608392 +
Acco Acco12g1113 Chr12 12283629 12285743 +
Accr Accr10g00928 Chr10 29160432 29162499 -
Adu Adu09g03307 Chr09 121393318 121395319 +
Adu Adu05g03190 Chr05 103444497 103448474 -
Aed Aed11g0636 Chr11 6601461 6602106 +
Alju Alju12g0995 Chr12 29959146 29961250 -
Apr Apr7g1281 Chr7 19885299 19888668 -
Arst Arst9g04399 Chr9 119275656 119278337 +
Bach Bach10g01186 Chr10 8993570 8995680 +
Bisa Bisa01g2646 Chr01 51602916 51606198 -
Bva Bva01g01789 Chr01 18625289 18628047 -
Bva Bva11g00810 Chr11 10751658 10754240 -
Car Car02g00964 Chr02 16668256 16672285 +
Cca Cca06g00410 Chr06 12808296 12812863 -
Dere Dere13g1617 Chr13 21981511 21983718 +
Enph Enph14g1393 Chr14 16308961 16312934 +
Glsi Glsi09g1458 Chr09 11013679 11015837 +
Gma Gma02g00914 Chr02 9658704 9662364 +
Gma Gma01g00864 Chr01 27828528 27831816 -
Gso Gso2g0839 Chr2 9465889 9470213 +
Gso Gso2g0839 Chr2 9465889 9470213 +
Lal Lal6g0713 Chr6 4693373 4697338 -
Lapu Lapu7g01785 Chr7 33524328 33527814 -
Lapu Lapu2g01176 Chr2 20706276 20710161 -
Lasa Lasa6g03667 Chr6 582113879 582115614 -
Lele Lele53g0663 Chr53 16803872 16807979 -
Lele Lele54g0672 Chr54 13668141 13670616 -
Lele Lele55g0826 Chr55 5631423 5633142 +
Lele Lele56g0768 Chr56 5822756 5825532 +
Lja Lja2g1387 Chr2 13260125 13263291 +
Lja Lja5g0948 Chr5 9216663 9219575 +
Mal Mal1g2770 Chr1 39208732 39210960 -
Mepo Mepo4g03933 Chr4 48743897 48747232 -
Mesa Mesa1g04272 Chr1 67726546 67728647 -
Mibi Mibi10g0936 Chr10 27349188 27351829 -
Mtr Mtr1g3441 Chr1 45717182 45720129 -
Phco Phco6g02125 Chr6 41857241 41862154 -
Phco Phco8g03153 Chr8 46146398 46149221 -
Prci Prci5g1200 Chr5 30993095 30995667 -
Psa Psa2g1876 Chr2 165503585 165512803 -
Pste Pste4g03062 Chr4 22109698 22111911 +
Pste Pste1g02861 Chr1 12196519 12199922 -
Pumo Pumo3g01365 Chr3 21632713 21635332 +
Pumo Pumo8g00729 Chr8 28193820 28198346 -
Pvu Pvu7g1044 Chr7 11395193 11398017 +
Pvu Pvu3g0276 Chr3 2422006 2426225 +
Rops Rops6g02379 Chr6 43349614 43352654 -
Rops Rops1g00505 Chr1 13339942 13342986 -
Seca Seca8g07011 Chr8 165742285 165745467 -
Seca Seca10g02018 Chr10 23031525 23034775 +
Spst Spst10g00616 Chr10 6218995 6223146 -
Spst Spst2g01852 Chr2 17607013 17609864 +
Ssu Ssu2g1326 Chr2 56415947 56419170 -
Sto Sto11g0749 Chr11 8437038 8439384 -
Sto Sto6g2834 Chr6 35572689 35576193 -
Tpr Tpr1g1063 Chr1 9509913 9513340 +
Trre Trre1g04918 Chr1 55267008 55270039 -
Tsu Tsu01g04058 Chr01 48452058 48454847 -
Vian Vian3g00904 Chr3 9816252 9818254 +
Vian Vian10g01746 Chr10 29159918 29162275 +
Vifa Vifa3g02466 Chr3 631642734 631644656 -
Vimu Vimu3g02694 Chr3 41116234 41121060 -
Vimu Vimu7g00247 Chr7 3059914 3062417 +
Viun Viun7g02819 Chr7 31533033 31535707 -
Viun Viun2g00468 Chr2 9886198 9890323 +
Vivi Vivi1g06214 Chr1 138645420 138648724 +
Vivi Vivi1g04859 Chr1 105139009 105141611 +
Vra Vra11g1417 Chr11 17200496 17204602 -
Vvi Vvi1g0282 Chr1 2618733 2632507 +
Adu Adu09g03309 Chr09 121452461 121458004 +
Apr Apr7g1280 Chr7 19867300 19881429 -
Arst Arst9g04401 Chr9 119334930 119340652 +
Bva Bva01g01788 Chr01 18613165 18619862 -
Bva Bva11g00809 Chr11 10739840 10745948 -
Lapu Lapu7g01784 Chr7 33506581 33516243 -
Lasa Lasa6g03666 Chr6 581972049 581978759 -
Lja Lja5g0949 Chr5 9245811 9253005 +
Mal Mal1g2769 Chr1 39173321 39180846 -
Mepo Mepo4g03932 Chr4 48719996 48727534 -
Mesa Mesa1g04271 Chr1 67698955 67704445 -
Mtr Mtr1g3440 Chr1 45697721 45704547 -
Phco Phco6g02124 Chr6 41836082 41844269 -
Pste Pste4g03065 Chr4 22156021 22169557 +
Pumo Pumo3g01366 Chr3 21661425 21670100 +
Pvu Pvu7g1045 Chr7 11407081 11415977 +
Rops Rops6g02378 Chr6 43329826 43338618 -
Seca Seca8g07009 Chr8 165719959 165727686 -
Spst Spst10g00615 Chr10 6207160 6214141 -
Sto Sto6g2833 Chr6 35550597 35559936 -
Tpr Tpr1g1067 Chr1 9559281 9565430 +
Trre Trre1g04912 Chr1 55209896 55215314 -
Tsu Tsu01g04057 Chr01 48438799 48444774 -
Vian Vian3g00906 Chr3 9831132 9838175 +
Vifa Vifa3g02463 Chr3 630040416 630047131 -
Vimu Vimu3g02693 Chr3 41088991 41096533 -
Viun Viun7g02818 Chr7 31514002 31521467 -
Vivi Vivi1g04860 Chr1 105194466 105201450 +
Vvi Vvi1g0283 Chr1 2632996 2635975 -
Aed Aed11g0638 Chr11 6623009 6626999 -
Apr Apr7g1279 Chr7 19862764 19864961 +
Bva Bva01g01787 Chr01 18607050 18609772 +
Bva Bva11g00808 Chr11 10734045 10736247 +
Cca Cca06g00405 Chr06 12684333 12689356 +
Lal Lal22g0635 Chr22 4494069 4497170 +
Lapu Lapu7g01783 Chr7 33502102 33504277 +
Lasa Lasa6g03665 Chr6 581912685 581915184 +
Lja Lja2g1388 Chr2 13266613 13271415 -
Lja Lja5g0950 Chr5 9254576 9256905 -
Mal Mal1g2768 Chr1 39164417 39171817 +
Mepo Mepo4g03931 Chr4 48711082 48714679 +
Mesa Mesa1g04270 Chr1 67693227 67696655 +
Mtr Mtr1g3439 Chr1 45692862 45696537 +
Phco Phco6g02123 Chr6 41831603 41833933 +
Pvu Pvu7g1046 Chr7 11417842 11420167 -
Spst Spst10g00614 Chr10 6200653 6202432 +
Ssu Ssu2g1324 Chr2 56323884 56328784 +
Sto Sto6g2832 Chr6 35546478 35549499 +
Tpr Tpr1g1068 Chr1 9566403 9569948 -
Trre Trre1g04911 Chr1 55204190 55208283 +
Tsu Tsu01g04055 Chr01 48424047 48428134 +
Vimu Vimu3g02692 Chr3 41082451 41084686 +
Vivi Vivi1g04861 Chr1 105207781 105210851 -
Vvi Vvi1g0284 Chr1 2652067 2665672 -
Bva Bva01g01786 Chr01 18594456 18601004 +
Bva Bva11g00807 Chr11 10722422 10729499 +
Lal Lal6g0711 Chr6 4673103 4678902 +
Sto Sto6g2829 Chr6 35521121 35529629 +
Vvi Vvi1g0285 Chr1 2666172 2676092 -
Lal Lal18g0989 Chr18 12876732 12883859 -
Vvi Vvi1g0286 Chr1 2678902 2684666 +
Aed Aed11g0643 Chr11 6655418 6663243 +
Apr Apr7g1278 Chr7 19855289 19859570 -
Bva Bva01g01785 Chr01 18588451 18592787 -
Car Car02g00965 Chr02 16741492 16746146 +
Cca Cca06g00403 Chr06 12577596 12582628 -
Gma Gma02g00910 Chr02 9624084 9630267 -
Gma Gma01g00863 Chr01 27727356 27732103 -
Gso Gso2g0835 Chr2 9432839 9438673 -
Gso Gso2g0835 Chr2 9432839 9438673 -
Lal Lal6g0710 Chr6 4667979 4672023 -
Lal Lal18g0990 Chr18 12886253 12894863 +
Lja Lja2g1389 Chr2 13280612 13287811 +
Mal Mal1g2766 Chr1 39131520 39134416 -
Mtr Mtr1g3437 Chr1 45669345 45674965 -
Phco Phco8g03061 Chr8 44929080 44929954 +
Psa Psa6g4076 Chr6 357555710 357560272 +
Pste Pste1g02633 Chr1 10144006 10145673 +
Pvu Pvu3g0374 Chr3 3658052 3659147 -
Spst Spst2g01921 Chr2 18309462 18310317 +
Ssu Ssu2g1322 Chr2 56219806 56224698 -
Sto Sto11g0748 Chr11 8418042 8429828 -
Sto Sto6g2828 Chr6 35514888 35518920 -
Tsu Tsu01g04054 Chr01 48409515 48413513 -
Vra Vra11g1415 Chr11 17169224 17173552 -
Vvi Vvi1g0287 Chr1 2688379 2688543 +
Vvi Vvi1g0288 Chr1 2692329 2698874 -
Adu Adu05g03184 Chr05 103326951 103332748 -
Aed Aed11g0644 Chr11 6681502 6686253 -
Apr Apr7g1276 Chr7 19834598 19840521 +
Bach Bach10g01189 Chr10 9045496 9049683 -
Bva Bva11g00805 Chr11 10711370 10715046 +
Car Car02g00966 Chr02 16796761 16802523 -
Cca Cca06g00401 Chr06 12512420 12518502 +
Gma Gma02g00909 Chr02 9600107 9605544 +
Gma Gma01g00861 Chr01 27678588 27684487 +
Gso Gso2g0833 Chr2 9410031 9415762 +
Gso Gso2g0833 Chr2 9410031 9415762 +
Lal Lal18g0992 Chr18 12905882 12912183 -
Lasa Lasa2g00800 Chr2 316339182 316342440 -
Lja Lja2g1390 Chr2 13304020 13308633 -
Mal Mal8g2811 Chr8 72436572 72441507 +
Mepo Mepo7g01285 Chr7 20518629 20524079 -
Mesa Mesa17g02483 Chr17 42292703 42297148 -
Mtr Mtr5g1952 Chr5 24064059 24068856 -
Phco Phco8g03148 Chr8 46078482 46085783 +
Pste Pste1g02847 Chr1 12049597 12056396 +
Pumo Pumo8g00716 Chr8 27236014 27241551 +
Pvu Pvu3g0281 Chr3 2472952 2478160 -
Rops Rops1g00502 Chr1 13190340 13194542 +
Seca Seca10g02031 Chr10 23210990 23213966 -
Spst Spst2g01858 Chr2 17661428 17666302 -
Ssu Ssu2g1320 Chr2 56181142 56194162 +
Sto Sto6g2826 Chr6 35489529 35494063 +
Tpr Tpr2g2223 Chr2 26593630 26598429 -
Trre Trre9g03320 Chr9 41906799 41911096 +
Tsu Tsu05g02283 Chr05 29841623 29847430 +
Vian Vian10g01751 Chr10 29198009 29206085 -
Vifa Vifa1g09227 Chr1 1460829728 1460833076 -
Vimu Vimu7g00252 Chr7 3129999 3136728 -
Vra Vra11g1413 Chr11 17148145 17154505 +
Vvi Vvi1g0289 Chr1 2699662 2703054 -
Vvi Vvi1g0290 Chr1 2708028 2711823 -
Phco Phco8g03061 Chr8 44929080 44929954 +
Pste Pste1g02633 Chr1 10144006 10145673 +
Pvu Pvu3g0374 Chr3 3658052 3659147 -
Spst Spst2g01921 Chr2 18309462 18310317 +
Vivi Vivi1g06214 Chr1 138645420 138648724 +