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
Vvi5g0064 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi5g0065 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi5g0066 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi5g0067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi5g0068 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g01266 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi5g0069 Acco04g0827 . Accr8g01753 . Adu01g02546 . Aed6g2301 . Aev01g2860 . Ahy11g2664 . Aip01g02917 . Alju06g0801 . . . Apr9g2322 . Arst1g03307 . Bach5g01056 . Bisa08g0985 . Bva05g01267 . Car07g00499 . Cca11g02682 . Dere03g2551 . Dod05g2578 . Enph6g1431 . Glsi02g2157 . Gma17g00325 Gma07g02302 . . Gso17g0287 Gso17g0287 . . . Lal7g0979 . . . . . . . . . . . . Lasa4g03894 . Lele21g0618 Lele22g0616 Lele23g1422 Lele24g0616 . . . . . . Mal5g4929 . Mepo1g00669 . . . Mibi09g1685 . Mtr4g4463 . . . Phco8g02127 . Prci4g0997 . . . . . Pte3g00563 Pte2g01683 . . Pumo4g00469 . Pvu3g1201 . Rops2g04977 . Seca12g00434 . Spst3g02938 . Ssu6g0427 . Sto3g0791 Sto12g1525 Tpr4g1915 . Trre15g04931 . Tsu04g04330 . Vian1g00358 . Vifa4g04062 . Vimu7g01703 . Viun3g05631 . Vivi1g01002 . Vra7g2761 .
Vvi5g0070 Acco04g0828 . Accr8g01751 . Adu01g02547 . Aed6g2302 . Aev01g2861 . Ahy11g2663 . Aip01g02916 . Alju06g0802 . . . Apr9g2321 . Arst1g03308 . . . Bisa08g0988 . . . Car07g00500 . Cca11g02683 . Dere03g2552 . Dod05g2579 . Enph6g1432 . Glsi02g2158 . Gma17g00324 Gma07g02303 . . Gso17g0286 Gso17g0286 . . Lal14g1582 . . . . . Lan12g0896 . . . . . Lapu3g00345 . Lasa4g03891 . Lele21g0620 Lele22g0617 Lele23g1421 Lele24g0617 . . . . Lja4g1372 . Mal5g4928 . Mepo1g00671 . . . Mibi09g1684 . Mtr4g4462 . Phac3g02095 . Phco8g02129 . Prci4g0998 . . Psa4g0534 Pste6g03976 . Pte3g00562 . . . Pumo4g00467 . Pvu3g1199 . Rops2g04976 . Seca12g00433 . Spst3g02939 . Ssu6g0426 . Sto3g0792 . Tpr4g1919 . Trre15g04930 . Tsu04g04329 . Vian1g00357 . Vifa4g04057 . Vimu7g01704 . Viun3g05632 . Vivi1g01010 . Vra7g2762 .
Vvi5g0071 . . . . Adu01g02548 Adu04g00829 Aed6g2303 . Aev01g2862 . Ahy11g2662 Ahy14g0907 Aip01g02915 Aip04g00993 . . . . Apr9g2320 Apr1g2053 Arst1g03309 Arst4g01240 Bach5g01058 . Bisa08g0989 . Bva05g01268 . . . Cca11g02684 Cca08g01773 Dere03g2553 . Dod05g2580 Dod03g1201 Enph6g1433 . Glsi02g2159 . Gma17g00321 Gma07g02304 Gma09g00312 Gma15g01299 Gso17g0283 Gso17g0283 Gso17g0283 Gso17g0283 . Lal7g0978 Lal19g1132 . . . . . . . . . Lapu3g00344 Lapu6g01882 . Lasa1g01445 Lele21g0622 . Lele23g1419 . . . . . Lja4g1371 Lja6g2777 . . . Mepo6g01351 . Mesa5g03281 . . . Mtr2g1197 . Phac6g01696 Phco8g02130 Phco11g01166 Prci4g0999 . Psa1g3668 . Pste6g03977 Pste2g03012 . . . . Pumo4g00466 Pumo2g00090 Pvu3g1198 Pvu6g1241 Rops2g04975 Rops11g01445 Seca12g00432 Seca6g04110 Spst3g02940 Spst6g01532 Ssu6g0424 Ssu1g1214 Sto3g0793 Sto12g1527 . Tpr5g1156 . Trre3g01569 . . Vian1g00356 Vian6g01121 . Vifa1g09515 Vimu7g01705 Vimu2g01470 Viun3g05634 Viun6g01862 Vivi4g01121 Vivi4g02913 Vra7g2763 Vra10g0767
Vvi5g0072 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi5g0073 . . . . Adu01g02552 . Aed6g2305 . Aev01g2863 . Ahy11g2659 . Aip01g02911 . . . . . Apr9g2318 . Arst1g03310 . . . . . Bva05g01271 . . . Cca11g02687 . . . Dod05g2581 . . . . . Gma17g00319 Gma07g02305 . . Gso17g0281 Gso17g0281 . . . Lal7g0977 . . . . . . . . . . Lapu3g00342 . . . . . . . . . . . Lja4g1369 . . . . . . . . . . . . . Phco8g02133 . . . . . Pste6g03979 . . . . . Pumo4g00462 . Pvu3g1196 . Rops2g04974 . Seca12g00430 . Spst3g02942 . Ssu6g0422 . . Sto12g1529 . . . . . . Vian1g00354 . . . Vimu7g01707 . Viun3g05637 . . . Vra7g2765 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi5g0064 Chr5 572860 573024 +
Vvi Vvi5g0065 Chr5 580087 580377 +
Vvi Vvi5g0066 Chr5 584354 584650 +
Vvi Vvi5g0067 Chr5 588015 591410 +
Vvi Vvi5g0068 Chr5 602877 610049 +
Bva Bva05g01266 Chr05 6656356 6659110 +
Vvi Vvi5g0069 Chr5 610552 611133 -
Acco Acco04g0827 Chr04 7279558 7280079 -
Accr Accr8g01753 Chr8 39816704 39817213 +
Adu Adu01g02546 Chr01 94778520 94785790 -
Aed Aed6g2301 Chr6 25039120 25039617 -
Aev Aev01g2860 Chr01 30900919 30901413 -
Ahy Ahy11g2664 Chr11 142898978 142899678 +
Aip Aip01g02917 Chr01 131135746 131136356 +
Alju Alju06g0801 Chr06 7349728 7350246 -
Apr Apr9g2322 Chr9 30857254 30858165 +
Arst Arst1g03307 Chr1 94269902 94270491 -
Bach Bach5g01056 Chr5 7477864 7478355 -
Bisa Bisa08g0985 Chr08 17862775 17863302 -
Bva Bva05g01267 Chr05 6659451 6660083 -
Car Car07g00499 Chr07 4407251 4408225 -
Cca Cca11g02682 Chr11 54248481 54249110 -
Dere Dere03g2551 Chr03 39903317 39903829 -
Dod Dod05g2578 Chr05 52078643 52079146 -
Enph Enph6g1431 Chr6 16822469 16822990 -
Glsi Glsi02g2157 Chr02 72022913 72023407 -
Gma Gma17g00325 Chr17 2590082 2591069 +
Gma Gma07g02302 Chr07 45871624 45872067 -
Gso Gso17g0287 Chr17 2551254 2552003 +
Gso Gso17g0287 Chr17 2551254 2552003 +
Lal Lal7g0979 Chr7 16071171 16071662 +
Lasa Lasa4g03894 Chr4 631557915 631558397 +
Lele Lele21g0618 Chr21 4148217 4148744 -
Lele Lele22g0616 Chr22 4082688 4083209 -
Lele Lele23g1422 Chr23 18942876 18943397 +
Lele Lele24g0616 Chr24 4119383 4119913 -
Mal Mal5g4929 Chr5 122773958 122774449 +
Mepo Mepo1g00669 Chr1 6447061 6447800 -
Mibi Mibi09g1685 Chr09 35187506 35189363 +
Mtr Mtr4g4463 Chr4 58607669 58608424 +
Phco Phco8g02127 Chr8 22768301 22768786 +
Prci Prci4g0997 Chr4 7580207 7580971 -
Pte Pte3g00563 Chr3 4401082 4402145 +
Pte Pte2g01683 Chr2 35921036 35922275 -
Pumo Pumo4g00469 Chr4 6229675 6230528 +
Pvu Pvu3g1201 Chr3 28902866 28903347 +
Rops Rops2g04977 Chr2 89521399 89522065 +
Seca Seca12g00434 Chr12 3755672 3756178 +
Spst Spst3g02938 Chr3 79041577 79042065 +
Ssu Ssu6g0427 Chr6 6641799 6642281 +
Sto Sto3g0791 Chr3 5507113 5507607 -
Sto Sto12g1525 Chr12 10570117 10573341 -
Tpr Tpr4g1915 Chr4 20043600 20044366 -
Trre Trre15g04931 Chr15 59349350 59350402 +
Tsu Tsu04g04330 Chr04 51262408 51262890 +
Vian Vian1g00358 Chr1 3181644 3182129 +
Vifa Vifa4g04062 Chr4 1295438297 1295439740 +
Vimu Vimu7g01703 Chr7 15745397 15745882 -
Viun Viun3g05631 Chr3 61987825 61988655 -
Vivi Vivi1g01002 Chr1 21329260 21330090 -
Vra Vra7g2761 Chr7 47885788 47886448 -
Vvi Vvi5g0070 Chr5 615450 645269 -
Acco Acco04g0828 Chr04 7295281 7307486 -
Accr Accr8g01751 Chr8 39789234 39798988 +
Adu Adu01g02547 Chr01 94797501 94803313 -
Aed Aed6g2302 Chr6 25052169 25058743 -
Aev Aev01g2861 Chr01 30907742 30913491 -
Ahy Ahy11g2663 Chr11 142884667 142890574 +
Aip Aip01g02916 Chr01 131122194 131128068 +
Alju Alju06g0802 Chr06 7362026 7368775 -
Apr Apr9g2321 Chr9 30844990 30853097 +
Arst Arst1g03308 Chr1 94282114 94287935 -
Bisa Bisa08g0988 Chr08 17889214 17900706 -
Car Car07g00500 Chr07 4414319 4421527 -
Cca Cca11g02683 Chr11 54257191 54265071 -
Dere Dere03g2552 Chr03 39907607 39914254 -
Dod Dod05g2579 Chr05 52083665 52090970 -
Enph Enph6g1432 Chr6 16825347 16832222 -
Glsi Glsi02g2158 Chr02 72029734 72038125 -
Gma Gma17g00324 Chr17 2578184 2585284 +
Gma Gma07g02303 Chr07 45875927 45883965 -
Gso Gso17g0286 Chr17 2539377 2546871 +
Gso Gso17g0286 Chr17 2539377 2546871 +
Lal Lal14g1582 Chr14 16361556 16369642 +
Lan Lan12g0896 Chr12 15969117 15977517 +
Lapu Lapu3g00345 Chr3 3443821 3453654 +
Lasa Lasa4g03891 Chr4 631364975 631371764 +
Lele Lele21g0620 Chr21 4150616 4157216 -
Lele Lele22g0617 Chr22 4084494 4090929 -
Lele Lele23g1421 Chr23 18927992 18934531 +
Lele Lele24g0617 Chr24 4121233 4127590 -
Lja Lja4g1372 Chr4 12277570 12285274 +
Mal Mal5g4928 Chr5 122758706 122765875 +
Mepo Mepo1g00671 Chr1 6454284 6462227 -
Mibi Mibi09g1684 Chr09 35172284 35181003 +
Mtr Mtr4g4462 Chr4 58593968 58602147 +
Phac Phac3g02095 Chr3 23831361 23840664 -
Phco Phco8g02129 Chr8 22808662 22816221 -
Prci Prci4g0998 Chr4 7582982 7590237 -
Psa Psa4g0534 Chr4 33175296 33182602 +
Pste Pste6g03976 Chr6 29055826 29058548 -
Pte Pte3g00562 Chr3 4391533 4398101 +
Pumo Pumo4g00467 Chr4 6121129 6127091 +
Pvu Pvu3g1199 Chr3 28870908 28878972 +
Rops Rops2g04976 Chr2 89497319 89510502 +
Seca Seca12g00433 Chr12 3743349 3751552 +
Spst Spst3g02939 Chr3 79049837 79056548 -
Ssu Ssu6g0426 Chr6 6626195 6632906 +
Sto Sto3g0792 Chr3 5509617 5516187 -
Tpr Tpr4g1919 Chr4 20063363 20071403 -
Trre Trre15g04930 Chr15 59335442 59344035 +
Tsu Tsu04g04329 Chr04 51244978 51253549 +
Vian Vian1g00357 Chr1 3166709 3174163 +
Vifa Vifa4g04057 Chr4 1294920076 1294927464 +
Vimu Vimu7g01704 Chr7 15749536 15761123 -
Viun Viun3g05632 Chr3 61994695 62002280 -
Vivi Vivi1g01010 Chr1 21564755 21573073 -
Vra Vra7g2762 Chr7 47896277 47904416 -
Vvi Vvi5g0071 Chr5 648362 652864 -
Adu Adu01g02548 Chr01 94811149 94814329 -
Adu Adu04g00829 Chr04 12280448 12284450 -
Aed Aed6g2303 Chr6 25060135 25063871 -
Aev Aev01g2862 Chr01 30918385 30921336 -
Ahy Ahy11g2662 Chr11 142875452 142879730 +
Ahy Ahy14g0907 Chr14 14628589 14632661 -
Aip Aip01g02915 Chr01 131113607 131116917 +
Aip Aip04g00993 Chr04 14008567 14011721 -
Apr Apr9g2320 Chr9 30841027 30845103 +
Apr Apr1g2053 Chr1 30054728 30060483 -
Arst Arst1g03309 Chr1 94295270 94299327 -
Arst Arst4g01240 Chr4 12244132 12248110 -
Bach Bach5g01058 Chr5 7490241 7493462 -
Bisa Bisa08g0989 Chr08 17904610 17909230 -
Bva Bva05g01268 Chr05 6662905 6673338 -
Cca Cca11g02684 Chr11 54268864 54273014 -
Cca Cca08g01773 Chr08 49896777 49902547 +
Dere Dere03g2553 Chr03 39917251 39922404 -
Dod Dod05g2580 Chr05 52092323 52097003 -
Dod Dod03g1201 Chr03 15050594 15055724 -
Enph Enph6g1433 Chr6 16832885 16835273 -
Glsi Glsi02g2159 Chr02 72049682 72054469 -
Gma Gma17g00321 Chr17 2561382 2566749 +
Gma Gma07g02304 Chr07 45886515 45891009 -
Gma Gma09g00312 Chr09 2948916 2954509 -
Gma Gma15g01299 Chr15 11513334 11519374 -
Gso Gso17g0283 Chr17 2522971 2527386 +
Gso Gso17g0283 Chr17 2522971 2527386 +
Gso Gso17g0283 Chr17 2522971 2527386 +
Gso Gso17g0283 Chr17 2522971 2527386 +
Lal Lal7g0978 Chr7 16063402 16067710 +
Lal Lal19g1132 Chr19 14872676 14876840 +
Lapu Lapu3g00344 Chr3 3437805 3442421 +
Lapu Lapu6g01882 Chr6 18678745 18687038 -
Lasa Lasa1g01445 Chr1 124549421 124555250 -
Lele Lele21g0622 Chr21 4158561 4159753 -
Lele Lele23g1419 Chr23 18925528 18926765 +
Lja Lja4g1371 Chr4 12272309 12276460 +
Lja Lja6g2777 Chr6 56879270 56884140 -
Mepo Mepo6g01351 Chr6 14745338 14750739 -
Mesa Mesa5g03281 Chr5 58648786 58653944 +
Mtr Mtr2g1197 Chr2 13001156 13006737 -
Phac Phac6g01696 Chr6 18231732 18239226 +
Phco Phco8g02130 Chr8 22827290 22831398 -
Phco Phco11g01166 Chr11 8727042 8734287 -
Prci Prci4g0999 Chr4 7591162 7594459 -
Psa Psa1g3668 Chr1 309471482 309478590 +
Pste Pste6g03977 Chr6 29062692 29068978 -
Pste Pste2g03012 Chr2 30132583 30139468 -
Pumo Pumo4g00466 Chr4 6107681 6112161 +
Pumo Pumo2g00090 Chr2 1864968 1870580 -
Pvu Pvu3g1198 Chr3 28862947 28867151 +
Pvu Pvu6g1241 Chr6 23371218 23379132 +
Rops Rops2g04975 Chr2 89486542 89490852 +
Rops Rops11g01445 Chr11 21553568 21559096 -
Seca Seca12g00432 Chr12 3736515 3741113 +
Seca Seca6g04110 Chr6 108741391 108748073 +
Spst Spst3g02940 Chr3 79064118 79067777 -
Spst Spst6g01532 Chr6 14394234 14399520 -
Ssu Ssu6g0424 Chr6 6614094 6616614 +
Ssu Ssu1g1214 Chr1 26936681 26941564 -
Sto Sto3g0793 Chr3 5517590 5521039 -
Sto Sto12g1527 Chr12 10581016 10584179 -
Tpr Tpr5g1156 Chr5 22925796 22934174 +
Trre Trre3g01569 Chr3 12454793 12461922 -
Vian Vian1g00356 Chr1 3160224 3163574 +
Vian Vian6g01121 Chr6 28714960 28722207 +
Vifa Vifa1g09515 Chr1 1515371535 1515377369 +
Vimu Vimu7g01705 Chr7 15763990 15766646 -
Vimu Vimu2g01470 Chr2 10104460 10112974 -
Viun Viun3g05634 Chr3 62003882 62007904 -
Viun Viun6g01862 Chr6 25666791 25674945 +
Vivi Vivi4g01121 Chr4 34717173 34721940 -
Vivi Vivi4g02913 Chr4 136144081 136149514 +
Vra Vra7g2763 Chr7 47906824 47910425 -
Vra Vra10g0767 Chr10 13718677 13726402 -
Vvi Vvi5g0072 Chr5 658120 661678 +
Vvi Vvi5g0073 Chr5 662379 663467 -
Adu Adu01g02552 Chr01 94840058 94841122 -
Aed Aed6g2305 Chr6 25078391 25078726 +
Aev Aev01g2863 Chr01 30924497 30925612 -
Ahy Ahy11g2659 Chr11 142815505 142816796 +
Aip Aip01g02911 Chr01 131054925 131056031 +
Apr Apr9g2318 Chr9 30827189 30828220 +
Arst Arst1g03310 Chr1 94319301 94321666 -
Bva Bva05g01271 Chr05 6677245 6677887 -
Cca Cca11g02687 Chr11 54298117 54299515 -
Dod Dod05g2581 Chr05 52110220 52111297 -
Gma Gma17g00319 Chr17 2547907 2548929 -
Gma Gma07g02305 Chr07 45901794 45902768 +
Gso Gso17g0281 Chr17 2510325 2511585 -
Gso Gso17g0281 Chr17 2510325 2511585 -
Lal Lal7g0977 Chr7 16054133 16055092 +
Lapu Lapu3g00342 Chr3 3420292 3421269 -
Lja Lja4g1369 Chr4 12251341 12254088 +
Phco Phco8g02133 Chr8 22879140 22880201 -
Pste Pste6g03979 Chr6 29096864 29097538 -
Pumo Pumo4g00462 Chr4 6069766 6070716 -
Pvu Pvu3g1196 Chr3 28783424 28784425 +
Rops Rops2g04974 Chr2 89458836 89465289 +
Seca Seca12g00430 Chr12 3726484 3727509 +
Spst Spst3g02942 Chr3 79093977 79095044 -
Ssu Ssu6g0422 Chr6 6562881 6563912 +
Sto Sto12g1529 Chr12 10595798 10596844 -
Vian Vian1g00354 Chr1 3139728 3140774 +
Vimu Vimu7g01707 Chr7 15774740 15775786 -
Viun Viun3g05637 Chr3 62022646 62023644 -
Vra Vra7g2765 Chr7 47925943 47927234 +