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
Vvi19g0080 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0081 . . . . . . . Aed4g2522 . . . Ahy13g1858 . Aip03g02061 . . . Amo13g2341 . . . . . . . . . . . . . Cca09g01055 . . . . . . . . . Gma18g00897 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu9g0894 . . . . . . . . . . . . . . . . . . . .
Vvi19g0082 . . . . . . . . . . Ahy17g0439 . Aip07g00368 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0083 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0084 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0085 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma12g01506 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0086 . . . . Adu07g02325 . Aed1g0500 . . . . . . . . . . . Apr2g0481 . Arst7g02987 . . . . . . Bva07g01619 Car01g01952 . Cca10g01201 . . . . . . . . . . . . Gma13g02364 . . . . . . . Lal20g0391 . . . . . . . . . . Lasa1g04859 . . . . . . . . . . . Mal4g1623 . Mepo6g02924 . . . . . Mtr2g2490 . . . . . . . . . Pste3g02197 . . Pte15g01620 . . Pumo4g03328 . Pvu5g0822 . Rops7g01413 . Seca4g06356 . Spst5g01421 . Ssu8g1256 . . Sto4g2764 . . . . . . . . Vifa1g03343 . Vimu4g01912 . Viun5g02453 . Vivi2g06035 . . .
Vvi19g0087 Acco01g3197 . . . Adu07g02343 . . . Aev10g1273 . Ahy18g1505 . Aip08g01619 . Alju02g0831 . . . Apr2g0475 . . . . . Bisa12g0480 . . Bva07g01631 Car01g01956 . Cca10g01194 . . . Dod10g0887 . Enph3g0903 . Glsi14g0941 . . . . Gma13g02374 . . . . . . . . . . . . . . . . . . Lasa1g04869 . . Lele10g0548 . Lele12g0724 . . . . . . . . Mepo6g02946 . Mesa5g01624 . . . Mtr2g2499 . . . . . Prci7g1772 . . . Pste3g02221 . . Pte15g01623 . . Pumo4g03343 . Pvu5g0834 . Rops7g01408 . Seca4g06318 . Spst5g01408 . Ssu8g1246 . Sto7g0153 . Tpr7g3410 . . . Tsu02g04225 . . . Vifa1g03309 . Vimu4g01890 . Viun5g02463 . Vivi2g06057 . . .
Vvi19g0088 . . . . Adu07g02344 . Aed1g0513 . Aev10g1276 . Ahy18g1504 . Aip08g01618 . . . . . Apr2g0474 . Arst7g03011 . Bach13g00714 . . . Bva09g00949 Bva07g01632 Car01g01957 . Cca10g01192 . . . Dod10g0888 . . . . . . . Gma12g02170 Gma13g02377 . . . . . . . Lal20g0390 . Lal11g1474 . . . . . . Lapu5g01103 . Lasa1g04870 . . . . . . . . . . . Mal4g1595 . Mepo6g02947 . Mesa5g01620 . . . Mtr2g2501 . . . . . . . . . Pste3g02224 . . . . . Pumo4g03344 . Pvu5g0835 . Rops7g01407 . Seca4g06315 . Spst5g01406 . Ssu8g1242 . . . Tpr7g3412 . . . . . . . Vifa1g03306 . Vimu4g01888 . Viun5g02464 . Vivi2g06058 . . .
Vvi19g0089 Acco01g3198 . Accr1g02868 . Adu07g02345 . Aed1g0514 . Aev10g1277 . Ahy18g1503 . Aip08g01617 . Alju02g0830 . . . Apr2g0473 . Arst7g03012 . . . Bisa12g0481 . Bva09g00948 Bva07g01635 Car01g01959 . Cca10g01191 . Dere08g0333 . Dod10g0889 . Enph3g0904 . Glsi14g0942 . . . Gma12g02169 Gma13g02378 . . . . . Lal1g1612 . . . Lal11g1473 . . . . . . Lapu5g01102 . Lasa1g04871 . . Lele10g0549 Lele11g0612 Lele12g0723 . . . . . . Mal4g1593 . Mepo6g02949 . Mesa5g01618 . Mibi01g0733 . Mtr2g2503 . . . . . Prci7g1773 . . . Pste3g02225 . Pte17g00293 Pte15g01624 . . Pumo4g03345 . Pvu5g0836 . Rops7g01406 . Seca4g06313 . Spst5g01405 . Ssu8g1241 . Sto7g0155 . Tpr7g3414 . . . Tsu02g04228 . . . Vifa1g03304 . Vimu4g01886 . Viun5g02465 . Vivi2g06060 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lapu Lapu5g01102 Chr5 22341370 22346124 +
Vvi Vvi19g0080 Chr19 957484 960645 -
Vvi Vvi19g0081 Chr19 967511 969604 +
Aed Aed4g2522 Chr4 27167856 27169822 -
Ahy Ahy13g1858 Chr13 31033478 31038592 +
Aip Aip03g02061 Chr03 29826089 29831203 +
Amo Amo13g2341 Chr13 40395038 40400141 +
Cca Cca09g01055 Chr09 31153215 31155921 -
Gma Gma18g00897 Chr18 10523252 10525129 +
Ssu Ssu9g0894 Chr9 38310130 38321288 -
Vvi Vvi19g0082 Chr19 974833 977755 +
Ahy Ahy17g0439 Chr17 4264177 4267043 +
Aip Aip07g00368 Chr07 3225185 3227999 +
Vvi Vvi19g0083 Chr19 980055 997226 +
Vvi Vvi19g0084 Chr19 999010 999525 +
Vvi Vvi19g0085 Chr19 1012206 1014254 +
Gma Gma12g01506 Chr12 32587185 32589259 +
Vvi Vvi19g0086 Chr19 1015625 1018186 -
Adu Adu07g02325 Chr07 76536409 76539096 -
Aed Aed1g0500 Chr1 6700351 6702660 -
Apr Apr2g0481 Chr2 5550866 5553317 +
Arst Arst7g02987 Chr7 75388098 75390713 -
Bva Bva07g01619 Chr07 15536983 15539400 -
Car Car01g01952 Chr01 44332809 44336319 -
Cca Cca10g01201 Chr10 15475024 15478194 +
Gma Gma13g02364 Chr13 38457993 38460776 -
Lal Lal20g0391 Chr20 3105451 3108506 +
Lasa Lasa1g04859 Chr1 797931111 797933080 -
Mal Mal4g1623 Chr4 27440877 27443332 +
Mepo Mepo6g02924 Chr6 40702590 40706463 -
Mtr Mtr2g2490 Chr2 37580870 37584297 -
Pste Pste3g02197 Chr3 15409732 15415152 -
Pte Pte15g01620 Chr15 14212156 14214174 -
Pumo Pumo4g03328 Chr4 70340778 70343983 -
Pvu Pvu5g0822 Chr5 17373452 17376926 -
Rops Rops7g01413 Chr7 20020093 20023829 +
Seca Seca4g06356 Chr4 125839043 125844362 +
Spst Spst5g01421 Chr5 39836912 39838740 +
Ssu Ssu8g1256 Chr8 22443428 22446275 +
Sto Sto4g2764 Chr4 28583656 28586179 -
Vifa Vifa1g03343 Chr1 521230743 521232268 +
Vimu Vimu4g01912 Chr4 21060658 21062389 +
Viun Viun5g02453 Chr5 34626933 34629112 -
Vivi Vivi2g06035 Chr2 192387627 192390669 -
Vvi Vvi19g0087 Chr19 1024773 1034084 +
Acco Acco01g3197 Chr01 49420310 49423972 +
Adu Adu07g02343 Chr07 77006628 77010529 +
Aev Aev10g1273 Chr10 16367267 16374773 +
Ahy Ahy18g1505 Chr18 30972303 30976740 -
Aip Aip08g01619 Chr08 30714323 30718445 -
Alju Alju02g0831 Chr02 6150743 6154410 -
Apr Apr2g0475 Chr2 5459552 5464405 -
Bisa Bisa12g0480 Chr12 7265535 7271078 +
Bva Bva07g01631 Chr07 15613792 15621260 +
Car Car01g01956 Chr01 44460936 44464293 +
Cca Cca10g01194 Chr10 15344866 15353481 -
Dod Dod10g0887 Chr10 26564837 26573487 +
Enph Enph3g0903 Chr3 30434539 30439744 +
Glsi Glsi14g0941 Chr14 10888766 10923780 +
Gma Gma13g02374 Chr13 38526486 38531660 +
Lasa Lasa1g04869 Chr1 799011324 799013831 +
Lele Lele10g0548 Chr10 4027314 4030104 +
Lele Lele12g0724 Chr12 15376872 15379910 -
Mepo Mepo6g02946 Chr6 40920574 40924646 +
Mesa Mesa5g01624 Chr5 23873917 23875485 -
Mtr Mtr2g2499 Chr2 37703501 37708966 +
Prci Prci7g1772 Chr7 32838029 32842591 +
Pste Pste3g02221 Chr3 15580058 15586711 +
Pte Pte15g01623 Chr15 14221718 14226891 +
Pumo Pumo4g03343 Chr4 70665065 70671718 +
Pvu Pvu5g0834 Chr5 18564956 18571381 +
Rops Rops7g01408 Chr7 19663152 19673026 -
Seca Seca4g06318 Chr4 125104527 125110661 -
Spst Spst5g01408 Chr5 38886791 38892137 +
Ssu Ssu8g1246 Chr8 22197508 22206157 -
Sto Sto7g0153 Chr7 1194536 1198211 +
Tpr Tpr7g3410 Chr7 42329080 42333712 +
Tsu Tsu02g04225 Chr02 50168643 50174187 +
Vifa Vifa1g03309 Chr1 515237785 515245460 -
Vimu Vimu4g01890 Chr4 20784387 20791813 -
Viun Viun5g02463 Chr5 35095433 35100995 +
Vivi Vivi2g06057 Chr2 192919445 192922324 +
Vvi Vvi19g0088 Chr19 1034870 1045855 +
Adu Adu07g02344 Chr07 77022306 77026418 +
Aed Aed1g0513 Chr1 6765388 6775283 +
Aev Aev10g1276 Chr10 16383335 16391155 +
Ahy Ahy18g1504 Chr18 30965035 30969351 -
Aip Aip08g01618 Chr08 30707490 30711553 -
Apr Apr2g0474 Chr2 5452032 5457431 -
Arst Arst7g03011 Chr7 75873927 75878103 +
Bach Bach13g00714 Chr13 12780603 12784411 +
Bva Bva09g00949 Chr09 4873831 4878195 -
Bva Bva07g01632 Chr07 15618933 15624620 +
Car Car01g01957 Chr01 44466149 44471391 +
Cca Cca10g01192 Chr10 15324256 15329668 -
Dod Dod10g0888 Chr10 26575120 26581212 +
Gma Gma12g02170 Chr12 42578340 42584798 -
Gma Gma13g02377 Chr13 38539894 38544875 +
Lal Lal20g0390 Chr20 3085959 3099702 -
Lal Lal11g1474 Chr11 17999547 18006097 -
Lapu Lapu5g01103 Chr5 22349115 22354834 -
Lasa Lasa1g04870 Chr1 799046856 799051122 +
Mal Mal4g1595 Chr4 26200741 26205780 -
Mepo Mepo6g02947 Chr6 40928097 40933473 +
Mesa Mesa5g01620 Chr5 23830991 23835910 -
Mtr Mtr2g2501 Chr2 37736522 37741635 +
Pste Pste3g02224 Chr3 15588280 15592726 +
Pumo Pumo4g03344 Chr4 70730285 70735454 +
Pvu Pvu5g0835 Chr5 18571868 18577663 +
Rops Rops7g01407 Chr7 19646945 19652291 -
Seca Seca4g06315 Chr4 125066689 125073303 -
Spst Spst5g01406 Chr5 38660002 38665903 -
Ssu Ssu8g1242 Chr8 22104188 22109325 -
Tpr Tpr7g3412 Chr7 42339786 42344942 +
Vifa Vifa1g03306 Chr1 514659271 514663164 -
Vimu Vimu4g01888 Chr4 20764205 20766234 -
Viun Viun5g02464 Chr5 35101855 35107611 +
Vivi Vivi2g06058 Chr2 192928375 192932619 +
Vvi Vvi19g0089 Chr19 1048715 1053372 -
Acco Acco01g3198 Chr01 49425823 49431071 -
Accr Accr1g02868 Chr1 65648797 65650528 -
Adu Adu07g02345 Chr07 77027154 77031199 -
Aed Aed1g0514 Chr1 6781741 6786186 -
Aev Aev10g1277 Chr10 16392154 16399619 -
Ahy Ahy18g1503 Chr18 30960203 30964436 +
Aip Aip08g01617 Chr08 30702861 30706934 +
Alju Alju02g0830 Chr02 6146513 6149681 +
Apr Apr2g0473 Chr2 5446388 5451083 +
Arst Arst7g03012 Chr7 75878795 75882883 -
Bisa Bisa12g0481 Chr12 7272296 7276641 -
Bva Bva09g00948 Chr09 4872023 4874638 +
Bva Bva07g01635 Chr07 15636257 15638495 -
Car Car01g01959 Chr01 44475259 44479313 -
Cca Cca10g01191 Chr10 15318419 15322998 +
Dere Dere08g0333 Chr08 5785755 5792031 -
Dod Dod10g0889 Chr10 26582483 26587293 -
Enph Enph3g0904 Chr3 30440312 30444193 -
Glsi Glsi14g0942 Chr14 10926554 10929587 -
Gma Gma12g02169 Chr12 42571817 42576353 +
Gma Gma13g02378 Chr13 38546301 38551602 -
Lal Lal1g1612 Chr1 18539473 18544912 -
Lal Lal11g1473 Chr11 17996363 17999933 +
Lapu Lapu5g01102 Chr5 22341370 22346124 +
Lasa Lasa1g04871 Chr1 799063616 799066343 -
Lele Lele10g0549 Chr10 4031872 4034644 -
Lele Lele11g0612 Chr11 5985131 5990964 -
Lele Lele12g0723 Chr12 15372632 15375386 +
Mal Mal4g1593 Chr4 26191991 26195274 +
Mepo Mepo6g02949 Chr6 40936800 40940496 -
Mesa Mesa5g01618 Chr5 23811274 23827195 +
Mibi Mibi01g0733 Chr01 6995318 6998197 +
Mtr Mtr2g2503 Chr2 37744637 37748420 -
Prci Prci7g1773 Chr7 32845862 32849090 -
Pste Pste3g02225 Chr3 15593973 15599003 -
Pte Pte17g00293 Chr17 3991071 3993819 -
Pte Pte15g01624 Chr15 14235190 14238514 -
Pumo Pumo4g03345 Chr4 70736406 70742353 -
Pvu Pvu5g0836 Chr5 18594351 18599039 -
Rops Rops7g01406 Chr7 19640798 19645641 +
Seca Seca4g06313 Chr4 125035709 125039291 +
Spst Spst5g01405 Chr5 38653563 38657921 +
Ssu Ssu8g1241 Chr8 22098088 22102111 +
Sto Sto7g0155 Chr7 1205613 1209291 -
Tpr Tpr7g3414 Chr7 42347207 42350953 -
Tsu Tsu02g04228 Chr02 50192625 50196120 -
Vifa Vifa1g03304 Chr1 514651369 514654109 +
Vimu Vimu4g01886 Chr4 20756991 20760258 +
Viun Viun5g02465 Chr5 35131512 35136032 -
Vivi Vivi2g06060 Chr2 192943138 192946295 -
Ahy Ahy17g0439 Chr17 4264177 4267043 +
Aip Aip07g00368 Chr07 3225185 3227999 +
Tpr Tpr7g3410 Chr7 42329080 42333712 +