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
Vvi17g0353 . . . . Adu05g02621 . . . Aev05g3421 . Ahy15g2809 . Aip05g03134 . . . . . Apr6g1072 . Arst5g03312 . . . . . . . . . Cca08g00220 . . . Dod02g3637 . . . . . Gma07g00827 . . . Gso7g0784 . . . Lal15g0995 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco5g00231 . . . . . . . . . . . Pumo6g03052 . Pvu4g1668 . Rops5g00227 . . . Spst4g02735 . Ssu5g3354 . . . . . . . . . Vian8g01487 . . . Vimu8g01511 . Viun4g00279 . . . Vra1g0596 .
Vvi17g0354 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0355 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0356 . . . . Adu05g02617 . . . . . . . . . . . . . Apr6g1074 . Arst5g03307 . . . . . . . . . . . . . . . . . . . Gma07g00823 . . Gma09g01715 Gso7g0781 . . Gso7g0781 . . . . . . . . . . . . . . Lasa1g04051 . . . . . . . . . . . . . Mepo7g00514 . Mesa22g03169 . . . Mtr8g3748 . Phac4g02109 . Phco5g00221 . . . . . . . . Pte9g00099 . . Pumo6g03057 . Pvu4g1676 . Rops5g00223 . Seca12g06834 . Spst4g02731 . . . . . Tpr3g0365 . Trre3g03944 . Tsu02g00170 . Vian8g01492 . Vifa1g06963 . Vimu8g01507 . Viun4g00274 . . . . .
Vvi17g0357 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal8g0421 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0358 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0359 . . . . Adu05g02616 . . . . . Ahy15g2815 . Aip05g03141 . . . . . Apr6g1075 . . . . . . . . . . . . . . . Dod02g3631 . . . . . Gma07g00821 . . . Gso7g0779 . . . . . . . Lal10g0986 . . . . . . . . . Lasa1g04052 . . . . . . . . . Lja2g2082 . . Mal8g3900 . . Mesa22g03171 . . . . Mtr6g2193 Phac4g02111 . . . . . Psa1g0879 . Pste9g01508 . Pte16g00070 . . . . . Pvu4g1678 . . . . . . . . . . . . Tpr5g0226 Trre3g03946 . . . . . . . Vimu8g01502 . . . . . . .
Vvi17g0360 . . . . Adu05g02615 . Aed7g0189 . Aev05g3416 . Ahy15g2816 . Aip05g03142 . . . . . . . Arst5g03304 . . . . . . . Car08g01704 . Cca08g00213 . . . Dod02g3630 . . . . . Gma07g00820 . . Gma09g01717 . . . . . . . . . . . . . . . . . . Lasa1g04053 . . . . . . . . . Lja2g2081 . . Mal8g3901 Mepo7g00512 . Mesa22g03173 . . . . Mtr6g2194 . . . . . . . . Pste9g01509 . Pte16g00069 . . . Pumo6g03059 . Pvu4g1679 . . . Seca10g04946 . Spst4g02729 . . . . . . Tpr5g0225 Trre3g03947 . . . . . Vifa1g06960 . . . Viun4g00270 . . . Vra1g0589 .
Vvi17g0361 Acco01g0646 . Accr1g00445 . Adu05g02613 . Aed7g0187 Aed5g2536 . . Ahy11g2117 . Aip01g02333 . Alju02g3258 . Amo11g2501 . Apr6g1077 Apr2g1446 Arst5g03302 Arst5g03301 . . Bisa01g0397 . Bva04g00805 . Car08g01706 Car06g00273 Cca08g00211 Cca09g02696 Dere06g1767 . . . Enph12g1151 . Glsi01g1977 . Gma07g00818 Gma08g00391 Gma05g02268 . Gso7g0777 Gso7g0777 Gso7g0777 . . . Lal23g0635 Lal8g0420 Lal10g0988 . . . . . . . Lapu4g00176 Lapu3g03828 Lasa1g04059 Lasa7g05106 Lele45g0448 Lele46g0469 Lele47g0955 Lele48g1017 . . . . Lja2g2079 Lja4g0151 Mal7g5259 Mal8g3903 Mepo7g00509 Mepo2g04930 . . Mibi01g3027 . Mtr8g3747 Mtr6g2196 . Phac2g04748 Phco5g00215 . . . . . Pste9g01511 Pste3g00328 Pte16g00068 . . . Pumo6g03061 . Pvu4g1681 Pvu2g3247 Rops5g00215 . Seca12g06833 . Spst4g02727 Spst3g00816 Ssu5g3350 Ssu5g3350 . Sto8g2145 . Tpr5g0219 Trre3g03950 . . . Vian8g01496 . Vifa1g06955 . Vimu8g01498 Vimu11g04744 Viun4g00268 . . . Vra1g0587 Vra7g3136
Vvi17g0362 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0353 Chr17 3717278 3718273 -
Adu Adu05g02621 Chr05 92792440 92793604 +
Aev Aev05g3421 Chr05 33683530 33684471 +
Ahy Ahy15g2809 Chr15 145921132 145922744 -
Aip Aip05g03134 Chr05 134939323 134940324 -
Apr Apr6g1072 Chr6 15388617 15390159 -
Arst Arst5g03312 Chr5 91450836 91452332 +
Cca Cca08g00220 Chr08 3099785 3100645 +
Dod Dod02g3637 Chr02 74546157 74547091 +
Gma Gma07g00827 Chr07 8821435 8822376 +
Gso Gso7g0784 Chr7 8638618 8640375 +
Lal Lal15g0995 Chr15 7966744 7967416 -
Phco Phco5g00231 Chr5 1905754 1906710 +
Pumo Pumo6g03052 Chr6 72716181 72717134 -
Pvu Pvu4g1668 Chr4 43964844 43965791 -
Rops Rops5g00227 Chr5 3516545 3517519 +
Spst Spst4g02735 Chr4 67211069 67212028 +
Ssu Ssu5g3354 Chr5 83464804 83465307 +
Vian Vian8g01487 Chr8 34319467 34320239 -
Vimu Vimu8g01511 Chr8 21068360 21069369 +
Viun Viun4g00279 Chr4 1630847 1634384 +
Vra Vra1g0596 Chr1 6955875 6957410 +
Vvi Vvi17g0354 Chr17 3719749 3728204 +
Vvi Vvi17g0355 Chr17 3730621 3730965 +
Vvi Vvi17g0356 Chr17 3748196 3748810 +
Adu Adu05g02617 Chr05 92660269 92661477 -
Apr Apr6g1074 Chr6 15425614 15426986 +
Arst Arst5g03307 Chr5 91318933 91319986 -
Gma Gma07g00823 Chr07 8767503 8768573 -
Gma Gma09g01715 Chr09 42784838 42785823 +
Gso Gso7g0781 Chr7 8586785 8587754 -
Gso Gso7g0781 Chr7 8586785 8587754 -
Lasa Lasa1g04051 Chr1 700461285 700461986 +
Mepo Mepo7g00514 Chr7 8718488 8719483 -
Mesa Mesa22g03169 Chr22 83156763 83157446 +
Mtr Mtr8g3748 Chr8 47970856 47971817 -
Phac Phac4g02109 Chr4 47392314 47393368 +
Phco Phco5g00221 Chr5 1802666 1803244 -
Pte Pte9g00099 Chr9 1185708 1186415 +
Pumo Pumo6g03057 Chr6 72781932 72783064 +
Pvu Pvu4g1676 Chr4 44040391 44041261 +
Rops Rops5g00223 Chr5 3465964 3467107 -
Seca Seca12g06834 Chr12 160286422 160287087 -
Spst Spst4g02731 Chr4 67179732 67180307 -
Tpr Tpr3g0365 Chr3 3922878 3924003 +
Trre Trre3g03944 Chr3 50582171 50582836 +
Tsu Tsu02g00170 Chr02 1319551 1320690 +
Vian Vian8g01492 Chr8 34422554 34423132 +
Vifa Vifa1g06963 Chr1 1074277319 1074278053 -
Vimu Vimu8g01507 Chr8 21008069 21008509 -
Viun Viun4g00274 Chr4 1586468 1587410 -
Vvi Vvi17g0357 Chr17 3751203 3752948 +
Lal Lal8g0421 Chr8 2832288 2834489 -
Vvi Vvi17g0358 Chr17 3757298 3760029 +
Vvi Vvi17g0359 Chr17 3761620 3762435 -
Adu Adu05g02616 Chr05 92649546 92650431 +
Ahy Ahy15g2815 Chr15 146116674 146118083 -
Aip Aip05g03141 Chr05 135120500 135121383 -
Apr Apr6g1075 Chr6 15430908 15431804 -
Dod Dod02g3631 Chr02 74444774 74445720 +
Gma Gma07g00821 Chr07 8758692 8760156 +
Gso Gso7g0779 Chr7 8578260 8579930 +
Lal Lal10g0986 Chr10 17112874 17113890 -
Lasa Lasa1g04052 Chr1 700555639 700556439 -
Lja Lja2g2082 Chr2 22987245 22988344 +
Mal Mal8g3900 Chr8 113186695 113187608 -
Mesa Mesa22g03171 Chr22 83183168 83184032 -
Mtr Mtr6g2193 Chr6 39186982 39188322 -
Phac Phac4g02111 Chr4 47398650 47399523 -
Psa Psa1g0879 Chr1 58560046 58561029 -
Pste Pste9g01508 Chr9 14920523 14921630 -
Pte Pte16g00070 Chr16 796466 799247 +
Pvu Pvu4g1678 Chr4 44045016 44045857 -
Tpr Tpr5g0226 Chr5 3274483 3275665 +
Trre Trre3g03946 Chr3 50601480 50602503 -
Vimu Vimu8g01502 Chr8 20993292 20995830 +
Vvi Vvi17g0360 Chr17 3763213 3764901 +
Adu Adu05g02615 Chr05 92647064 92648188 -
Aed Aed7g0189 Chr7 1329681 1330104 -
Aev Aev05g3416 Chr05 33643442 33643998 -
Ahy Ahy15g2816 Chr15 146118879 146120354 +
Aip Aip05g03142 Chr05 135122742 135123850 +
Arst Arst5g03304 Chr5 91305660 91306829 -
Car Car08g01704 Chr08 26904764 26905849 +
Cca Cca08g00213 Chr08 2939191 2940377 -
Dod Dod02g3630 Chr02 74442882 74443733 -
Gma Gma07g00820 Chr07 8757107 8757932 -
Gma Gma09g01717 Chr09 42801116 42801543 +
Lasa Lasa1g04053 Chr1 700599254 700599833 +
Lja Lja2g2081 Chr2 22983515 22984352 -
Mal Mal8g3901 Chr8 113191199 113193320 +
Mepo Mepo7g00512 Chr7 8690989 8692813 -
Mesa Mesa22g03173 Chr22 83332190 83333785 +
Mtr Mtr6g2194 Chr6 39195108 39197330 +
Pste Pste9g01509 Chr9 14922732 14923458 +
Pte Pte16g00069 Chr16 795164 796167 -
Pumo Pumo6g03059 Chr6 72790567 72793013 +
Pvu Pvu4g1679 Chr4 44046813 44047730 +
Seca Seca10g04946 Chr10 113998158 113999031 +
Spst Spst4g02729 Chr4 67158492 67160135 -
Tpr Tpr5g0225 Chr5 3264442 3265940 -
Trre Trre3g03947 Chr3 50611885 50612828 +
Vifa Vifa1g06960 Chr1 1073970438 1073971128 -
Viun Viun4g00270 Chr4 1579076 1580183 -
Vra Vra1g0589 Chr1 6889548 6890255 -
Vvi Vvi17g0361 Chr17 3767971 3772400 +
Acco Acco01g0646 Chr01 7585437 7590029 -
Accr Accr1g00445 Chr1 8674969 8679384 -
Adu Adu05g02613 Chr05 92609430 92614616 -
Aed Aed7g0187 Chr7 1319854 1325256 -
Aed Aed5g2536 Chr5 26305884 26310452 -
Ahy Ahy11g2117 Chr11 132882187 132884982 +
Aip Aip01g02333 Chr01 121737016 121739419 +
Alju Alju02g3258 Chr02 50153386 50157863 +
Amo Amo11g2501 Chr11 131065368 131070035 +
Apr Apr6g1077 Chr6 15439514 15445551 +
Apr Apr2g1446 Chr2 20505268 20509110 -
Arst Arst5g03302 Chr5 91267982 91271521 -
Arst Arst5g03301 Chr5 91267982 91273152 -
Bisa Bisa01g0397 Chr01 5427321 5431531 +
Bva Bva04g00805 Chr04 5324194 5328229 -
Car Car08g01706 Chr08 26911472 26916584 +
Car Car06g00273 Chr06 2990667 3021795 -
Cca Cca08g00211 Chr08 2924041 2930463 -
Cca Cca09g02696 Chr09 52605905 52619297 -
Dere Dere06g1767 Chr06 32577096 32582475 -
Enph Enph12g1151 Chr12 18392424 18395615 -
Glsi Glsi01g1977 Chr01 83183473 83187081 -
Gma Gma07g00818 Chr07 8742569 8748508 -
Gma Gma08g00391 Chr08 3277344 3282499 -
Gma Gma05g02268 Chr05 43701184 43704204 -
Gso Gso7g0777 Chr7 8551859 8557462 -
Gso Gso7g0777 Chr7 8551859 8557462 -
Gso Gso7g0777 Chr7 8551859 8557462 -
Lal Lal23g0635 Chr23 9083716 9093842 -
Lal Lal8g0420 Chr8 2825294 2829943 -
Lal Lal10g0988 Chr10 17119170 17123370 +
Lapu Lapu4g00176 Chr4 1735142 1741852 -
Lapu Lapu3g03828 Chr3 61767266 61777876 -
Lasa Lasa1g04059 Chr1 701648043 701651592 +
Lasa Lasa7g05106 Chr7 708207828 708210380 -
Lele Lele45g0448 Chr45 3480184 3494291 -
Lele Lele46g0469 Chr46 3199095 3201581 -
Lele Lele47g0955 Chr47 15589633 15608256 +
Lele Lele48g1017 Chr48 15169043 15173078 +
Lja Lja2g2079 Chr2 22941887 22954426 -
Lja Lja4g0151 Chr4 1163105 1166543 +
Mal Mal7g5259 Chr7 121828378 121832794 -
Mal Mal8g3903 Chr8 113221276 113231899 +
Mepo Mepo7g00509 Chr7 8663552 8669317 -
Mepo Mepo2g04930 Chr2 57421746 57423607 -
Mibi Mibi01g3027 Chr01 53679903 53683582 +
Mtr Mtr8g3747 Chr8 47961567 47965119 -
Mtr Mtr6g2196 Chr6 39216201 39221518 +
Phac Phac2g04748 Chr2 44341870 44346114 -
Phco Phco5g00215 Chr5 1758504 1764080 -
Pste Pste9g01511 Chr9 14936836 14942656 +
Pste Pste3g00328 Chr3 1615021 1618414 +
Pte Pte16g00068 Chr16 791350 794291 -
Pumo Pumo6g03061 Chr6 72801952 72808346 +
Pvu Pvu4g1681 Chr4 44055715 44062295 +
Pvu Pvu2g3247 Chr2 47617194 47621926 -
Rops Rops5g00215 Chr5 3393313 3397512 -
Seca Seca12g06833 Chr12 160275536 160279535 -
Spst Spst4g02727 Chr4 67149780 67156520 -
Spst Spst3g00816 Chr3 11606694 11610891 +
Ssu Ssu5g3350 Chr5 83270686 83277589 -
Ssu Ssu5g3350 Chr5 83270686 83277589 -
Sto Sto8g2145 Chr8 14061234 14064408 -
Tpr Tpr5g0219 Chr5 3190582 3195474 -
Trre Trre3g03950 Chr3 50645152 50647087 +
Vian Vian8g01496 Chr8 34440628 34446279 +
Vifa Vifa1g06955 Chr1 1073303554 1073307089 -
Vimu Vimu8g01498 Chr8 20977430 20982441 -
Vimu Vimu11g04744 Chr11 67643029 67643412 -
Viun Viun4g00268 Chr4 1562953 1569972 -
Vra Vra1g0587 Chr1 6878323 6884313 -
Vra Vra7g3136 Chr7 51144616 51147477 -
Vvi Vvi17g0362 Chr17 3774075 3775250 +