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
Vvi3g0223 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0224 . . . . Adu09g02859 . Aed1g1766 . . . Ahy19g3060 . Aip09g03521 . . . Amo19g3924 . Apr8g2654 . Arst9g03821 . . . . . . Bva14g02366 . . Cca02g02746 . . . Dod06g0291 . . . . . . . . . . . . . . . . Lal13g0245 Lal12g0271 Lal24g0204 . . . . . . Lapu7g02506 . Lasa6g04788 . . . . . . . . . . . . Mal1g0211 Mepo4g04861 . Mesa1g05269 . . . . Mtr1g4319 Phac7g00280 . Phco6g03047 . . . Psa6g5329 . Pste4g00411 . . . . . Pumo3g00194 . Pvu7g0182 . Rops6g03421 . Seca8g08018 . . . Ssu7g0216 . Sto2g1086 Sto10g0048 . Tpr1g0192 Trre1g06173 . . Tsu01g04990 Vian3g00178 . Vifa3g00178 . Vimu3g03672 . Viun7g03982 . . . Vra8g2643 .
Vvi3g0225 . . . . . . . Aed9g0009 . . . . . . . . . . . Apr5g1883 . . . . . . . . . . . Cca07g00014 . . . . . . . . Gma04g00010 Gma06g00007 . . Gso4g0008 Gso4g0008 . . . . . . . . . . . . . . Lapu9g02519 . Lasa5g04842 . . . . . . . . . Lja1g2412 . . . . . . . . . . . Phac9g02177 . Phco7g00022 . . . . . . . . . . . . . Pvu9g1191 . . . . . Spst9g00009 . . . . . . . . . . . . . . . Vimu10g03768 . . . Vivi3g01116 . . Vra5g1888
Vvi3g0226 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0227 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0228 . Acco01g2037 . Accr1g01737 . Adu03g00493 . Aed9g0008 Aev04g3368 Aev05g0349 Ahy13g0726 Ahy15g0327 Aip03g00765 Aip05g00322 . Alju02g2010 . . Apr5g0318 Apr5g1885 . Arst7g02298 . . . Bisa01g3975 Bva13g00184 . . . Cca04g00423 Cca07g00013 . Dere06g0201 Dod03g3171 Dod02g0381 . Enph12g0565 . Glsi01g0216 Gma04g00009 Gma06g00006 . . Gso4g0007 Gso4g0007 . . . . . . . . . . . . . . Lapu9g02520 Lapu11g00764 . Lasa7g02083 . . . . Lele45g1272 Lele46g1364 Lele47g0138 Lele48g0141 Lja1g2413 . . . . Mepo2g02337 . Mesa13g02772 . Mibi01g1866 . . . Phac11g00657 Phco7g00021 Phco9g00497 . Prci14g0241 . . . Pste1g01794 . . . . . Pumo10g00713 Pvu9g1190 Pvu11g0452 . Rops3g00548 . Seca4g03483 Spst9g00008 Spst2g02544 Ssu3g2854 . . . . . . Trre7g02798 . . . Vian5g01504 . . Vimu10g02293 Vimu5g02354 . Viun11g02452 . . Vra2g0401 Vra5g1889
Vvi3g0229 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g03795 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0230 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00254 . . . . . . . . . . . . . . . Gma12g00377 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g4224 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0231 . . . . Adu09g02861 . Aed1g1764 . . . Ahy19g3058 . Aip09g03519 . . . Amo19g3922 . Apr8g2656 . Arst9g03824 . . . . . . Bva14g02368 . . Cca02g02747 . . . Dod06g0294 . . . . . . . . . . . . . . . . Lal13g0246 . Lal24g0203 . . . . . . Lapu7g02508 . Lasa6g04792 . . . . . . . . . . . . Mal1g0207 Mepo4g04865 . Mesa1g05275 . . . . Mtr1g4323 . . Phco6g03051 . . . . . Pste4g00401 . Pte18g00502 . . . Pumo3g00193 . Pvu7g0180 . Rops6g03423 . Seca8g08020 . Spst10g01557 . Ssu7g0215 . Sto2g1087 Sto10g0046 . Tpr1g0189 Trre1g06177 . . Tsu01g04993 Vian3g00176 . Vifa3g00168 . Vimu3g03675 . Viun7g03984 . . . Vra8g2645 .
Vvi3g0232 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja1g2413 Chr1 27831291 27833553 -
Vvi Vvi3g0223 Chr3 1929912 1930461 +
Vvi Vvi3g0224 Chr3 1934977 1940611 +
Adu Adu09g02859 Chr09 116285830 116290904 +
Aed Aed1g1766 Chr1 15180853 15187759 -
Ahy Ahy19g3060 Chr19 153376711 153381688 -
Aip Aip09g03521 Chr09 141898662 141902477 -
Amo Amo19g3924 Chr19 154969578 154974637 -
Apr Apr8g2654 Chr8 36319948 36326498 +
Arst Arst9g03821 Chr9 114182412 114187152 +
Bva Bva14g02366 Chr14 20373008 20384746 +
Cca Cca02g02746 Chr02 48938147 48946906 +
Dod Dod06g0291 Chr06 3946964 3952569 +
Lal Lal13g0245 Chr13 1546725 1552303 +
Lal Lal12g0271 Chr12 1940520 1946174 +
Lal Lal24g0204 Chr24 1492336 1498792 -
Lapu Lapu7g02506 Chr7 41450481 41458133 +
Lasa Lasa6g04788 Chr6 669487855 669493278 +
Mal Mal1g0211 Chr1 2347267 2352688 -
Mepo Mepo4g04861 Chr4 57950342 57956842 +
Mesa Mesa1g05269 Chr1 79946871 79952071 +
Mtr Mtr1g4319 Chr1 54882010 54888474 +
Phac Phac7g00280 Chr7 1308598 1316483 -
Phco Phco6g03047 Chr6 51529604 51535324 +
Psa Psa6g5329 Chr6 466846016 466854459 +
Pste Pste4g00411 Chr4 3143626 3156770 -
Pumo Pumo3g00194 Chr3 2446473 2453318 -
Pvu Pvu7g0182 Chr7 1203242 1210388 -
Rops Rops6g03421 Chr6 58854301 58862068 +
Seca Seca8g08018 Chr8 177747899 177757359 +
Ssu Ssu7g0216 Chr7 3554361 3560067 -
Sto Sto2g1086 Chr2 9507178 9512074 +
Sto Sto10g0048 Chr10 399746 405641 -
Tpr Tpr1g0192 Chr1 1563333 1569694 -
Trre Trre1g06173 Chr1 65552867 65557816 +
Tsu Tsu01g04990 Chr01 56697410 56704324 +
Vian Vian3g00178 Chr3 1467337 1472559 -
Vifa Vifa3g00178 Chr3 13552847 13558145 -
Vimu Vimu3g03672 Chr3 49342671 49347895 +
Viun Viun7g03982 Chr7 39409218 39415804 +
Vra Vra8g2643 Chr8 44322833 44329429 +
Vvi Vvi3g0225 Chr3 1942112 1946828 -
Aed Aed9g0009 Chr9 84628 86663 -
Apr Apr5g1883 Chr5 21858754 21873649 +
Cca Cca07g00014 Chr07 275584 279536 -
Gma Gma04g00010 Chr04 109570 114381 -
Gma Gma06g00007 Chr06 98251 101504 -
Gso Gso4g0008 Chr4 108420 113246 -
Gso Gso4g0008 Chr4 108420 113246 -
Lapu Lapu9g02519 Chr9 39423555 39427371 +
Lasa Lasa5g04842 Chr5 699310760 699315363 +
Lja Lja1g2412 Chr1 27827211 27831127 +
Phac Phac9g02177 Chr9 20869648 20873192 +
Phco Phco7g00022 Chr7 163722 166777 -
Pvu Pvu9g1191 Chr9 17394550 17398627 -
Spst Spst9g00009 Chr9 115984 119698 -
Vimu Vimu10g03768 Chr10 46359774 46361956 +
Vivi Vivi3g01116 Chr3 18647699 18657855 +
Vra Vra5g1888 Chr5 24607685 24610738 +
Vvi Vvi3g0226 Chr3 1949395 1949676 +
Vvi Vvi3g0227 Chr3 1949695 1949805 +
Vvi Vvi3g0228 Chr3 1951605 1954457 -
Acco Acco01g2037 Chr01 36191222 36195679 -
Accr Accr1g01737 Chr1 47428986 47433240 -
Adu Adu03g00493 Chr03 4501385 4505303 -
Aed Aed9g0008 Chr9 79978 82294 +
Aev Aev04g3368 Chr04 32440047 32440580 -
Aev Aev05g0349 Chr05 2498694 2501399 +
Ahy Ahy13g0726 Chr13 7493744 7495549 -
Ahy Ahy15g0327 Chr15 3938066 3942017 +
Aip Aip03g00765 Chr03 7304837 7306727 -
Aip Aip05g00322 Chr05 3634603 3638016 +
Alju Alju02g2010 Chr02 19417188 19422180 +
Apr Apr5g0318 Chr5 2880967 2884747 -
Apr Apr5g1885 Chr5 21879002 21881547 -
Arst Arst7g02298 Chr7 53807048 53810255 +
Bisa Bisa01g3975 Chr01 95597071 95604530 -
Bva Bva13g00184 Chr13 887314 891713 +
Cca Cca04g00423 Chr04 4222416 4227880 +
Cca Cca07g00013 Chr07 268598 274692 -
Dere Dere06g0201 Chr06 2828801 2833391 +
Dod Dod03g3171 Chr03 64285557 64287249 -
Dod Dod02g0381 Chr02 5125440 5128827 +
Enph Enph12g0565 Chr12 12152197 12157605 -
Glsi Glsi01g0216 Chr01 1724205 1728465 +
Gma Gma04g00009 Chr04 101621 106457 +
Gma Gma06g00006 Chr06 89468 96428 +
Gso Gso4g0007 Chr4 102722 105427 +
Gso Gso4g0007 Chr4 102722 105427 +
Lapu Lapu9g02520 Chr9 39429532 39432717 -
Lapu Lapu11g00764 Chr11 10553112 10558412 -
Lasa Lasa7g02083 Chr7 489685061 489688109 -
Lele Lele45g1272 Chr45 22631750 22635125 -
Lele Lele46g1364 Chr46 20654312 20657942 -
Lele Lele47g0138 Chr47 979389 982747 +
Lele Lele48g0141 Chr48 1685709 1692298 +
Lja Lja1g2413 Chr1 27831291 27833553 -
Mepo Mepo2g02337 Chr2 33101206 33105786 -
Mesa Mesa13g02772 Chr13 32474235 32477932 +
Mibi Mibi01g1866 Chr01 27441246 27444848 +
Phac Phac11g00657 Chr11 4357287 4362889 +
Phco Phco7g00021 Chr7 156394 158735 +
Phco Phco9g00497 Chr9 3616716 3620740 +
Prci Prci14g0241 Chr14 1909394 1914296 +
Pste Pste1g01794 Chr1 5501915 5511775 +
Pumo Pumo10g00713 Chr10 9110844 9115193 -
Pvu Pvu9g1190 Chr9 17387503 17390389 +
Pvu Pvu11g0452 Chr11 3788786 3794248 +
Rops Rops3g00548 Chr3 6835894 6844155 +
Seca Seca4g03483 Chr4 60603069 60608804 +
Spst Spst9g00008 Chr9 111586 113975 +
Spst Spst2g02544 Chr2 25082942 25089554 -
Ssu Ssu3g2854 Chr3 83137656 83142405 -
Trre Trre7g02798 Chr7 24261846 24265906 +
Vian Vian5g01504 Chr5 37609237 37613200 -
Vimu Vimu10g02293 Chr10 33543592 33548073 +
Vimu Vimu5g02354 Chr5 34349265 34355143 -
Viun Viun11g02452 Chr11 38134967 38139499 -
Vra Vra2g0401 Chr2 3106033 3110825 +
Vra Vra5g1889 Chr5 24613178 24616081 -
Vvi Vvi3g0229 Chr3 1965185 1966624 -
Car Car06g03795 Chr06 69664757 69666703 -
Vvi Vvi3g0230 Chr3 1973280 1978301 +
Bva Bva14g00254 Chr14 1310401 1314825 +
Gma Gma12g00377 Chr12 3092096 3092959 -
Psa Psa7g4224 Chr7 342935410 342937660 +
Vvi Vvi3g0231 Chr3 1980582 2017369 +
Adu Adu09g02861 Chr09 116296164 116307019 +
Aed Aed1g1764 Chr1 15173901 15177004 -
Ahy Ahy19g3058 Chr19 153360952 153371912 -
Aip Aip09g03519 Chr09 141882148 141893477 -
Amo Amo19g3922 Chr19 154953281 154964167 -
Apr Apr8g2656 Chr8 36332545 36347986 +
Arst Arst9g03824 Chr9 114192636 114203424 +
Bva Bva14g02368 Chr14 20388912 20401667 +
Cca Cca02g02747 Chr02 48953009 48969704 +
Dod Dod06g0294 Chr06 3974199 3984208 +
Lal Lal13g0246 Chr13 1553292 1566809 +
Lal Lal24g0203 Chr24 1475343 1491571 -
Lapu Lapu7g02508 Chr7 41468236 41488094 +
Lasa Lasa6g04792 Chr6 669649732 669663179 +
Mal Mal1g0207 Chr1 2313085 2328328 -
Mepo Mepo4g04865 Chr4 57976957 57990841 +
Mesa Mesa1g05275 Chr1 79984367 80000116 +
Mtr Mtr1g4323 Chr1 54911714 54926000 +
Phco Phco6g03051 Chr6 51545267 51560427 +
Pste Pste4g00401 Chr4 3086391 3109275 -
Pte Pte18g00502 Chr18 10758891 10770590 +
Pumo Pumo3g00193 Chr3 2424679 2429603 -
Pvu Pvu7g0180 Chr7 1179750 1194271 -
Rops Rops6g03423 Chr6 58872691 58890090 +
Seca Seca8g08020 Chr8 177764517 177783416 +
Spst Spst10g01557 Chr10 16233696 16248535 +
Ssu Ssu7g0215 Chr7 3534777 3536701 -
Sto Sto2g1087 Chr2 9514241 9531089 +
Sto Sto10g0046 Chr10 379954 393447 -
Tpr Tpr1g0189 Chr1 1513463 1525411 -
Trre Trre1g06177 Chr1 65567227 65578555 +
Tsu Tsu01g04993 Chr01 56718316 56731085 +
Vian Vian3g00176 Chr3 1453649 1456130 -
Vifa Vifa3g00168 Chr3 12916446 12919082 -
Vimu Vimu3g03675 Chr3 49366616 49382537 +
Viun Viun7g03984 Chr7 39431730 39436087 +
Vra Vra8g2645 Chr8 44362973 44365859 +
Vvi Vvi3g0232 Chr3 2018794 2020385 -
Acco Acco01g2037 Chr01 36191222 36195679 -
Accr Accr1g01737 Chr1 47428986 47433240 -
Adu Adu03g00493 Chr03 4501385 4505303 -
Alju Alju02g2010 Chr02 19417188 19422180 +
Arst Arst7g02298 Chr7 53807048 53810255 +
Bisa Bisa01g3975 Chr01 95597071 95604530 -
Cca Cca04g00423 Chr04 4222416 4227880 +
Dere Dere06g0201 Chr06 2828801 2833391 +
Enph Enph12g0565 Chr12 12152197 12157605 -
Glsi Glsi01g0216 Chr01 1724205 1728465 +
Lapu Lapu11g00764 Chr11 10553112 10558412 -
Lasa Lasa7g02083 Chr7 489685061 489688109 -
Lele Lele45g1272 Chr45 22631750 22635125 -
Lele Lele46g1364 Chr46 20654312 20657942 -
Lele Lele47g0138 Chr47 979389 982747 +
Lele Lele48g0141 Chr48 1685709 1692298 +
Mepo Mepo2g02337 Chr2 33101206 33105786 -
Mesa Mesa13g02772 Chr13 32474235 32477932 +
Mibi Mibi01g1866 Chr01 27441246 27444848 +
Phac Phac11g00657 Chr11 4357287 4362889 +
Phco Phco9g00497 Chr9 3616716 3620740 +
Prci Prci14g0241 Chr14 1909394 1914296 +
Psa Psa7g4224 Chr7 342935410 342937660 +
Pste Pste1g01794 Chr1 5501915 5511775 +
Pumo Pumo10g00713 Chr10 9110844 9115193 -
Pvu Pvu11g0452 Chr11 3788786 3794248 +
Rops Rops3g00548 Chr3 6835894 6844155 +
Seca Seca4g03483 Chr4 60603069 60608804 +
Spst Spst2g02544 Chr2 25082942 25089554 -
Ssu Ssu3g2854 Chr3 83137656 83142405 -
Trre Trre7g02798 Chr7 24261846 24265906 +
Vian Vian5g01504 Chr5 37609237 37613200 -
Vimu Vimu5g02354 Chr5 34349265 34355143 -
Viun Viun11g02452 Chr11 38134967 38139499 -
Vra Vra2g0401 Chr2 3106033 3110825 +
Vimu Vimu10g02293 Chr10 33543592 33548073 +
Acco Acco01g2037 Chr01 36191222 36195679 -
Accr Accr1g01737 Chr1 47428986 47433240 -
Adu Adu03g00493 Chr03 4501385 4505303 -
Alju Alju02g2010 Chr02 19417188 19422180 +
Arst Arst7g02298 Chr7 53807048 53810255 +
Bisa Bisa01g3975 Chr01 95597071 95604530 -
Dere Dere06g0201 Chr06 2828801 2833391 +
Enph Enph12g0565 Chr12 12152197 12157605 -
Glsi Glsi01g0216 Chr01 1724205 1728465 +
Lapu Lapu11g00764 Chr11 10553112 10558412 -
Lasa Lasa7g02083 Chr7 489685061 489688109 -
Lele Lele45g1272 Chr45 22631750 22635125 -
Lele Lele46g1364 Chr46 20654312 20657942 -
Lele Lele47g0138 Chr47 979389 982747 +
Lele Lele48g0141 Chr48 1685709 1692298 +
Mepo Mepo2g02337 Chr2 33101206 33105786 -
Mesa Mesa13g02772 Chr13 32474235 32477932 +
Mibi Mibi01g1866 Chr01 27441246 27444848 +
Phac Phac11g00657 Chr11 4357287 4362889 +
Phco Phco9g00497 Chr9 3616716 3620740 +
Prci Prci14g0241 Chr14 1909394 1914296 +
Pste Pste1g01794 Chr1 5501915 5511775 +
Pumo Pumo10g00713 Chr10 9110844 9115193 -
Pvu Pvu11g0452 Chr11 3788786 3794248 +
Rops Rops3g00548 Chr3 6835894 6844155 +
Seca Seca4g03483 Chr4 60603069 60608804 +
Spst Spst2g02544 Chr2 25082942 25089554 -
Trre Trre7g02798 Chr7 24261846 24265906 +
Vian Vian5g01504 Chr5 37609237 37613200 -
Vimu Vimu5g02354 Chr5 34349265 34355143 -
Viun Viun11g02452 Chr11 38134967 38139499 -