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
Vvi19g0440 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0441 . . . . . . . . Aev10g2358 . Ahy18g1181 . Aip08g01247 . . . . . . . . . . . . . . . . . . Cca04g01303 . . . . . . . . Gma06g02371 . . . Gso6g2152 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1929 . . . . . . . . . . . . . . . . . . . .
Vvi19g0442 . . . . . . . . . . Ahy18g1180 . Aip08g01246 . . . . . . Apr5g0041 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0443 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0444 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca04g01299 . . . . . . . . Gma06g02374 . . . Gso6g2155 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2451 . . . . . . . Mtr8g1733 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g1993 . . . Tsu08g01975 . . . . . . . . . . . .
Vvi19g0445 . . . . . . . . . . Ahy18g1170 . Aip08g01228 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0446 . . . . . . . . Aev10g2355 . . . Aip08g01226 . . . . . . . . . . . . . . . . . Cca10g01028 . . . . . . . . . . . . Gma13g02506 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0447 . . . . Adu08g01906 . . . Aev10g2354 . Ahy18g1168 . Aip08g01224 . . . Amo18g1335 . Apr2g0331 . Arst8g02620 . Bach13g00846 Bach9g00681 . . . Bva07g01838 . . . . . . Dod10g1083 . . . . . . Gma12g01307 Gma12g02051 Gma13g02508 . . . . . . . . . . . . . . . . Lapu5g00888 . Lasa1g05094 . . . . . . . . . . . Mal4g1003 . Mepo6g03212 Mepo1g02909 Mesa5g01349 . . . Mtr2g2717 . Phac5g01294 . . Phco9g01689 . . Psa5g5698 . . Pste1g03906 . . . . . . Pvu5g0916 Pvu11g1553 . Rops3g01729 . Seca4g05245 . Spst11g00677 . . . . Tpr7g3626 . Trre11g03532 . Tsu02g04511 . . . . Vifa4g00218 . Vimu5g00368 . . Vivi2g06724 . . .
Vvi19g0448 Acco01g3345 . Accr1g03027 . Adu08g01888 . Aed1g0684 . Aev10g2343 . Ahy18g1141 Ahy13g1765 Aip08g01203 Aip03g01965 Alju02g0679 . Amo18g1300 . Apr2g0328 Apr5g0040 Arst8g02600 . Bach13g00852 . Bisa12g0659 . Bva09g00780 Bva07g01844 . . Cca10g01027 . Dere08g0534 . Dod10g1088 . Enph3g1034 . . . Gma06g02381 Gma12g01299 Gma12g02045 . Gso6g2167 Gso6g2167 Gso6g2167 . . . . . . . . . . . . . Lapu5g00882 . Lasa1g05099 . Lele09g0734 Lele10g0672 Lele11g0739 Lele12g0596 . . . . . . Mal4g0995 Mal5g2452 Mepo6g03223 . Mesa5g01332 . . . Mtr2g2725 Mtr8g1734 Phac5g01298 . . . . . Psa5g5709 . Pste3g02546 . . . . . Pumo4g03257 . Pvu5g0919 . Rops7g01193 . Seca4g04602 . Spst5g01019 . Ssu8g1050 . Sto7g0352 . Tpr7g3631 Tpr7g1992 Trre11g03540 . Tsu02g04518 Tsu08g01965 Vian11g00945 . Vifa1g02700 . . . Viun5g02735 . Vivi2g06729 . . .
Vvi19g0449 Acco01g3346 . Accr1g03029 . Adu08g01887 . Aed1g0685 . Aev10g2342 . Ahy18g1140 Ahy13g1764 Aip08g01202 Aip03g01964 Alju02g0678 . Amo18g1299 . Apr2g0327 Apr5g0039 Arst8g02598 . Bach13g00853 . Bisa12g0660 . Bva09g00779 Bva07g01845 . . Cca10g01025 . Dere08g0535 . Dod10g1089 . Enph3g1035 . . . Gma06g02382 Gma12g01296 Gma12g02044 Gma13g02511 Gso6g2168 Gso6g2168 Gso6g2168 Gso6g2168 Lal9g0480 . Lal2g0538 . Lal1g0544 . Lan8g1422 . Lan8g1422 . Lan8g1422 . Lapu5g00881 . Lasa1g05100 . Lele09g0735 Lele10g0673 Lele11g0740 Lele12g0595 . . . . . . Mal4g0994 Mal5g2456 Mepo6g03224 . Mesa5g01331 . . . Mtr2g2726 Mtr8g1738 Phac6g02816 . . . Prci7g1982 . Psa5g5713 . Pste3g02547 . . Pte15g01954 . . Pumo4g03256 . Pvu5g0920 . Rops7g01191 . Seca4g04607 . Spst5g01018 . Ssu8g1049 . Sto7g0353 . Tpr7g3632 Tpr7g1991 Trre11g03542 . Tsu02g04519 Tsu08g01962 Vian11g00944 . Vifa1g02696 . . . Viun5g02737 . Vivi2g06732 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma12g02051 Chr12 41159558 41160286 -
Vvi Vvi19g0440 Chr19 4899274 4899900 -
Vvi Vvi19g0441 Chr19 4900009 4902808 -
Aev Aev10g2358 Chr10 23323066 23325328 -
Ahy Ahy18g1181 Chr18 19478647 19482904 +
Aip Aip08g01247 Chr08 18567704 18571959 +
Cca Cca04g01303 Chr04 16357259 16389767 -
Gma Gma06g02371 Chr06 45286705 45293068 +
Gso Gso6g2152 Chr6 41190412 41195385 -
Ssu Ssu3g1929 Chr3 61268305 61269488 +
Vvi Vvi19g0442 Chr19 4909285 4913322 -
Ahy Ahy18g1180 Chr18 19446361 19455888 +
Aip Aip08g01246 Chr08 18536170 18540501 +
Apr Apr5g0041 Chr5 385676 389448 -
Vvi Vvi19g0443 Chr19 4920661 4924479 +
Vvi Vvi19g0444 Chr19 4926818 4931945 -
Cca Cca04g01299 Chr04 16240353 16252168 -
Gma Gma06g02374 Chr06 45314002 45320588 -
Gso Gso6g2155 Chr6 41271327 41278089 -
Mal Mal5g2451 Chr5 67711411 67714572 +
Mtr Mtr8g1733 Chr8 25787623 25791363 -
Tpr Tpr7g1993 Chr7 24456065 24459674 -
Tsu Tsu08g01975 Chr08 25762026 25764967 -
Vvi Vvi19g0445 Chr19 4935585 4943417 -
Ahy Ahy18g1170 Chr18 19006629 19010151 +
Aip Aip08g01228 Chr08 18173513 18176733 +
Vvi Vvi19g0446 Chr19 4944143 4947633 -
Aev Aev10g2355 Chr10 23309302 23312889 +
Aip Aip08g01226 Chr08 18133138 18136269 +
Cca Cca10g01028 Chr10 12561318 12564958 -
Gma Gma13g02506 Chr13 39962492 39967518 -
Vvi Vvi19g0447 Chr19 4955380 4955973 +
Adu Adu08g01906 Chr08 31618528 31621920 -
Aev Aev10g2354 Chr10 23305254 23305601 -
Ahy Ahy18g1168 Chr18 18947033 18947657 -
Aip Aip08g01224 Chr08 18076646 18077391 -
Amo Amo18g1335 Chr18 24325918 24326866 +
Apr Apr2g0331 Chr2 3955184 3957304 -
Arst Arst8g02620 Chr8 35969486 35970062 -
Bach Bach13g00846 Chr13 13857330 13857992 +
Bach Bach9g00681 Chr9 4737798 4738327 +
Bva Bva07g01838 Chr07 16637253 16638401 +
Dod Dod10g1083 Chr10 29619966 29620322 +
Gma Gma12g01307 Chr12 18922346 18923455 -
Gma Gma12g02051 Chr12 41159558 41160286 -
Gma Gma13g02508 Chr13 39975098 39975793 +
Lapu Lapu5g00888 Chr5 13091688 13092044 -
Lasa Lasa1g05094 Chr1 824135145 824135501 +
Mal Mal4g1003 Chr4 13726831 13727187 -
Mepo Mepo6g03212 Chr6 43960856 43961698 +
Mepo Mepo1g02909 Chr1 31653954 31654621 -
Mesa Mesa5g01349 Chr5 19204619 19204927 -
Mtr Mtr2g2717 Chr2 40339266 40339902 +
Phac Phac5g01294 Chr5 30282922 30284677 +
Phco Phco9g01689 Chr9 39843719 39844054 +
Psa Psa5g5698 Chr5 495788481 495789896 +
Pste Pste1g03906 Chr1 19976425 19980534 +
Pvu Pvu5g0916 Chr5 24354170 24354813 +
Pvu Pvu11g1553 Chr11 39232906 39233771 +
Rops Rops3g01729 Chr3 29212220 29212751 -
Seca Seca4g05245 Chr4 98014280 98014636 -
Spst Spst11g00677 Chr11 28989726 28990061 -
Tpr Tpr7g3626 Chr7 44980706 44981312 +
Trre Trre11g03532 Chr11 48220076 48220435 +
Tsu Tsu02g04511 Chr02 54100633 54101351 +
Vifa Vifa4g00218 Chr4 42899635 42899976 -
Vimu Vimu5g00368 Chr5 3315773 3316446 -
Vivi Vivi2g06724 Chr2 205291669 205292219 +
Vvi Vvi19g0448 Chr19 4962716 4967446 +
Acco Acco01g3345 Chr01 50534643 50538056 +
Accr Accr1g03027 Chr1 66998790 67001349 +
Adu Adu08g01888 Chr08 31320939 31325252 -
Aed Aed1g0684 Chr1 8113640 8114812 +
Aev Aev10g2343 Chr10 23253546 23258133 -
Ahy Ahy18g1141 Chr18 17903659 17908199 -
Ahy Ahy13g1765 Chr13 28482586 28486482 -
Aip Aip08g01203 Chr08 17112487 17114328 -
Aip Aip03g01965 Chr03 27389731 27391275 -
Alju Alju02g0679 Chr02 4996330 5002668 -
Amo Amo18g1300 Chr18 23293451 23297891 -
Apr Apr2g0328 Chr2 3923677 3928193 -
Apr Apr5g0040 Chr5 381611 383338 -
Arst Arst8g02600 Chr8 35672190 35673692 -
Bach Bach13g00852 Chr13 13894337 13898200 +
Bisa Bisa12g0659 Chr12 9918287 9923348 +
Bva Bva09g00780 Chr09 4003112 4007446 -
Bva Bva07g01844 Chr07 16681220 16684648 +
Cca Cca10g01027 Chr10 12542843 12547543 -
Dere Dere08g0534 Chr08 8243385 8247398 +
Dod Dod10g1088 Chr10 29749256 29753927 +
Enph Enph3g1034 Chr3 31490242 31494285 +
Gma Gma06g02381 Chr06 45549141 45551431 +
Gma Gma12g01299 Chr12 18348715 18350797 -
Gma Gma12g02045 Chr12 41113002 41117391 -
Gso Gso6g2167 Chr6 41535225 41538265 +
Gso Gso6g2167 Chr6 41535225 41538265 +
Gso Gso6g2167 Chr6 41535225 41538265 +
Lapu Lapu5g00882 Chr5 13020927 13025677 -
Lasa Lasa1g05099 Chr1 824647849 824650090 +
Lele Lele09g0734 Chr09 5563868 5566766 +
Lele Lele10g0672 Chr10 5017744 5018690 +
Lele Lele11g0739 Chr11 6992920 6995704 +
Lele Lele12g0596 Chr12 14388143 14390658 -
Mal Mal4g0995 Chr4 13575178 13578429 -
Mal Mal5g2452 Chr5 67719128 67721122 +
Mepo Mepo6g03223 Chr6 44047954 44051569 +
Mesa Mesa5g01332 Chr5 18895832 18897503 -
Mtr Mtr2g2725 Chr2 40438372 40442513 +
Mtr Mtr8g1734 Chr8 25803258 25805191 +
Phac Phac5g01298 Chr5 30345650 30349502 +
Psa Psa5g5709 Chr5 496586467 496589053 +
Pste Pste3g02546 Chr3 18298046 18299545 +
Pumo Pumo4g03257 Chr4 67375822 67380416 -
Pvu Pvu5g0919 Chr5 24449388 24453506 +
Rops Rops7g01193 Chr7 15984019 15987955 -
Seca Seca4g04602 Chr4 84784420 84790155 +
Spst Spst5g01019 Chr5 10146113 10150244 -
Ssu Ssu8g1050 Chr8 18171983 18175852 -
Sto Sto7g0352 Chr7 2531343 2532524 +
Tpr Tpr7g3631 Chr7 45035470 45038389 +
Tpr Tpr7g1992 Chr7 24447275 24450129 -
Trre Trre11g03540 Chr11 48347527 48349785 +
Tsu Tsu02g04518 Chr02 54180664 54183355 +
Tsu Tsu08g01965 Chr08 25409635 25411636 -
Vian Vian11g00945 Chr11 11588381 11592339 -
Vifa Vifa1g02700 Chr1 424234763 424237605 -
Viun Viun5g02735 Chr5 38860960 38865475 +
Vivi Vivi2g06729 Chr2 205394717 205397564 +
Vvi Vvi19g0449 Chr19 4971785 4973877 -
Acco Acco01g3346 Chr01 50540971 50542961 -
Accr Accr1g03029 Chr1 67004397 67006356 -
Adu Adu08g01887 Chr08 31311416 31315381 +
Aed Aed1g0685 Chr1 8118015 8123939 -
Aev Aev10g2342 Chr10 23246355 23248917 +
Ahy Ahy18g1140 Chr18 17890312 17894933 +
Ahy Ahy13g1764 Chr13 28475860 28480122 +
Aip Aip08g01202 Chr08 17098491 17104298 +
Aip Aip03g01964 Chr03 27382820 27386814 +
Alju Alju02g0678 Chr02 4991420 4993407 +
Amo Amo18g1299 Chr18 23279994 23284779 +
Apr Apr2g0327 Chr2 3916561 3920192 +
Apr Apr5g0039 Chr5 372168 376356 +
Arst Arst8g02598 Chr8 35662534 35667033 +
Bach Bach13g00853 Chr13 13901996 13904353 -
Bisa Bisa12g0660 Chr12 9926132 9928598 -
Bva Bva09g00779 Chr09 3997586 4000779 +
Bva Bva07g01845 Chr07 16687470 16690516 -
Cca Cca10g01025 Chr10 12508345 12513204 +
Dere Dere08g0535 Chr08 8250446 8252458 -
Dod Dod10g1089 Chr10 29761868 29765250 -
Enph Enph3g1035 Chr3 31495974 31498693 -
Gma Gma06g02382 Chr06 45556163 45560337 -
Gma Gma12g01296 Chr12 18274542 18277917 +
Gma Gma12g02044 Chr12 41103610 41106983 +
Gma Gma13g02511 Chr13 40018471 40022895 -
Gso Gso6g2168 Chr6 41542672 41547068 -
Gso Gso6g2168 Chr6 41542672 41547068 -
Gso Gso6g2168 Chr6 41542672 41547068 -
Gso Gso6g2168 Chr6 41542672 41547068 -
Lal Lal9g0480 Chr9 3229130 3232755 +
Lal Lal2g0538 Chr2 3239765 3244714 -
Lal Lal1g0544 Chr1 3503891 3507639 +
Lan Lan8g1422 Chr8 21285909 21288853 -
Lan Lan8g1422 Chr8 21285909 21288853 -
Lan Lan8g1422 Chr8 21285909 21288853 -
Lapu Lapu5g00881 Chr5 12995689 13000079 +
Lasa Lasa1g05100 Chr1 824924177 824927211 -
Lele Lele09g0735 Chr09 5570031 5572098 -
Lele Lele10g0673 Chr10 5022012 5024131 -
Lele Lele11g0740 Chr11 6998958 7001037 -
Lele Lele12g0595 Chr12 14382745 14386217 +
Mal Mal4g0994 Chr4 13564194 13568354 +
Mal Mal5g2456 Chr5 67954388 67957497 -
Mepo Mepo6g03224 Chr6 44058070 44063081 -
Mesa Mesa5g01331 Chr5 18882968 18886574 +
Mtr Mtr2g2726 Chr2 40448987 40453749 -
Mtr Mtr8g1738 Chr8 25924000 25928003 -
Phac Phac6g02816 Chr6 25172752 25176218 -
Prci Prci7g1982 Chr7 34078245 34080840 -
Psa Psa5g5713 Chr5 497164817 497169697 +
Pste Pste3g02547 Chr3 18303998 18308951 -
Pte Pte15g01954 Chr15 25811323 25813484 +
Pumo Pumo4g03256 Chr4 67356143 67361265 +
Pvu Pvu5g0920 Chr5 24456394 24460346 -
Rops Rops7g01191 Chr7 15977067 15980509 +
Seca Seca4g04607 Chr4 84884189 84887537 -
Spst Spst5g01018 Chr5 10138690 10141733 +
Ssu Ssu8g1049 Chr8 18161345 18165043 +
Sto Sto7g0353 Chr7 2536284 2538369 -
Tpr Tpr7g3632 Chr7 45044357 45048965 -
Tpr Tpr7g1991 Chr7 24406200 24410507 +
Trre Trre11g03542 Chr11 48360238 48363894 -
Tsu Tsu02g04519 Chr02 54191329 54195685 -
Tsu Tsu08g01962 Chr08 25305648 25309623 +
Vian Vian11g00944 Chr11 11580987 11584054 +
Vifa Vifa1g02696 Chr1 423252346 423255164 +
Viun Viun5g02737 Chr5 38866275 38872203 -
Vivi Vivi2g06732 Chr2 205465336 205469248 -