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
Vvi17g0323 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0324 . . . . . Adu03g02000 . Aed5g2553 Aev05g3438 . Ahy15g2767 . Aip05g03089 . . . . . Apr6g1054 Apr2g1462 . Arst5g03339 . Bach1g01507 . . Bva04g00823 Bva03g00664 . . . Cca09g02711 . . Dod02g3655 . . . . . Gma07g00845 . . Gma09g01692 Gso7g0800 . . Gso7g0800 . Lal16g1007 . . . . . . . . . . . . . Lasa7g05119 . . . . . . . . Lja2g2107 . . Mal8g3859 . Mepo2g04944 . . . . Mtr8g3758 Mtr6g2166 . . . Phco4g03602 . . Psa1g0848 . . Pste3g00278 . . . . . Pumo6g03029 Pvu3g0983 Pvu2g3267 . Rops2g00202 . Seca12g06855 . Spst3g00790 . Ssu5g3368 . Sto8g2170 . Tpr5g0253 . . . Tsu03g03161 . Vian1g04096 . Vifa1g07047 . Vimu11g04781 . Viun3g00201 . Vivi2g00759 . Vra7g3153
Vvi17g0325 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g00663 . . Cca08g00239 . . . . . . . . . Gma07g00844 . . . Gso7g0799 . . . . . . Lal8g0434 . . . . . . . . . . . . . . . . . . . . Lja2g2106 . . . . . . . . . . . . . . . . . Psa1g0849 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra1g0612 .
Vvi17g0326 . . . . . . . . Aev05g3437 . Ahy15g2770 . Aip05g03092 . . . . . Apr6g1055 . . . . . . . . . Car08g01681 . . . . . Dod02g3654 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal8g3860 . . . . . . . Mtr6g2167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr5g0252 . . . Tsu03g03162 . . . . . . . . . . . .
Vvi17g0327 . . . . . Adu03g01992 Aed7g0216 . Aev05g3436 . Ahy15g2771 . Aip05g03093 . . . . . Apr6g1056 Apr2g1460 . Arst5g03337 . Bach1g01509 . . Bva04g00821 Bva03g00662 . Car06g00265 Cca08g00238 . . . Dod02g3653 . . . . . Gma07g00843 . . Gma09g01693 Gso7g0798 . . Gso7g0798 . Lal16g1009 . Lal8g0433 Lal10g0975 Lal25g0459 . . . . . . . Lapu3g03838 . . . . . . . . . . Lja2g2105 Lja4g0139 . . . . . . . . . . . . . Phco4g03599 . . Psa1g0850 . . Pste3g00280 . . . . . Pumo6g03032 Pvu3g0985 Pvu2g3264 . . . . . Spst3g00793 Ssu5g3366 . . Sto8g2167 . . . . . . . . . Vifa1g07044 . Vimu11g04778 . . . . Vra1g0611 .
Vvi17g0328 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0329 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0330 . . . . . . Aed7g0215 Aed5g2552 . . Ahy15g2772 . Aip05g03094 . . . . . Apr6g1057 Apr2g1459 . . . . . . Bva04g00820 . . . Cca08g00237 Cca09g02709 . . Dod02g3652 . . . . . Gma07g00842 Gma08g00405 Gma05g02278 Gma09g01694 Gso7g0797 Gso7g0797 Gso7g0797 Gso7g0797 . Lal16g1010 Lal23g0640 . . . . . . . . . . . . . . . . . . . . . . Lja4g0140 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g3365 Ssu5g3366 . Sto8g2166 . . . . . . . . . . . . . . . . Vra1g0610 Vra7g3150
Vvi17g0331 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0332 . . . . . Adu03g01987 Aed7g0214 Aed5g2550 Aev05g3435 . Ahy15g2775 . Aip05g03097 . . . . . Apr6g1058 Apr2g1458 . Arst5g03336 . . . . Bva04g00819 . . . Cca08g00236 Cca09g02708 . . Dod02g3651 . . . . . Gma07g00841 Gma08g00404 Gma05g02277 Gma09g01695 Gso7g0796 Gso7g0796 Gso7g0796 Gso7g0796 . Lal16g1011 . Lal8g0432 Lal10g0976 . . . . . . . . Lapu3g03836 . . . . . . . . . . Lja2g2103 Lja4g0141 . Mal8g3874 . . . . . . . Mtr6g2169 . . . . . . Psa1g0854 . . Pste3g00288 . . . . . Pumo6g03033 Pvu3g0987 Pvu2g3261 . Rops2g00206 . Seca12g06850 . Spst3g00798 Ssu5g3364 Ssu5g3364 . Sto8g2165 . Tpr5g0249 . . . . . Vian1g04090 . Vifa1g07042 . Vimu11g04775 . Viun3g00210 . . Vra1g0609 Vra7g3147
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Sto Sto8g2167 Chr8 14239230 14241705 +
Sto Sto8g2165 Chr8 14215084 14216859 -
Vvi Vvi17g0323 Chr17 3359968 3361323 -
Vvi Vvi17g0324 Chr17 3362134 3388444 -
Adu Adu03g02000 Chr03 36862174 36866617 +
Aed Aed5g2553 Chr5 26406352 26411981 +
Aev Aev05g3438 Chr05 33806551 33811442 +
Ahy Ahy15g2767 Chr15 145105263 145111044 -
Aip Aip05g03089 Chr05 134131267 134136962 -
Apr Apr6g1054 Chr6 15230009 15235988 -
Apr Apr2g1462 Chr2 20667141 20673905 +
Arst Arst5g03339 Chr5 91958203 91963935 +
Bach Bach1g01507 Chr1 28702235 28708883 -
Bva Bva04g00823 Chr04 5430033 5435930 +
Bva Bva03g00664 Chr03 3972562 3978964 +
Cca Cca09g02711 Chr09 52779116 52788338 +
Dod Dod02g3655 Chr02 74821823 74828233 +
Gma Gma07g00845 Chr07 8992139 8998943 +
Gma Gma09g01692 Chr09 42571327 42577167 -
Gso Gso7g0800 Chr7 8797807 8804578 +
Gso Gso7g0800 Chr7 8797807 8804578 +
Lal Lal16g1007 Chr16 6702608 6708719 -
Lasa Lasa7g05119 Chr7 709545896 709547076 +
Lja Lja2g2107 Chr2 23328560 23334995 +
Mal Mal8g3859 Chr8 112276714 112283716 -
Mepo Mepo2g04944 Chr2 57572027 57578726 +
Mtr Mtr8g3758 Chr8 48060883 48069163 -
Mtr Mtr6g2166 Chr6 38743818 38750940 -
Phco Phco4g03602 Chr4 55895017 55902239 +
Psa Psa1g0848 Chr1 57223673 57231418 -
Pste Pste3g00278 Chr3 1297603 1311511 -
Pumo Pumo6g03029 Chr6 72406776 72412148 -
Pvu Pvu3g0983 Chr3 19479275 19485340 -
Pvu Pvu2g3267 Chr2 47775825 47783303 +
Rops Rops2g00202 Chr2 3058408 3066094 -
Seca Seca12g06855 Chr12 160504902 160512221 +
Spst Spst3g00790 Chr3 11436444 11449060 -
Ssu Ssu5g3368 Chr5 83654641 83666541 +
Sto Sto8g2170 Chr8 14256366 14262203 +
Tpr Tpr5g0253 Chr5 3668021 3676637 +
Tsu Tsu03g03161 Chr03 43681078 43688687 -
Vian Vian1g04096 Chr1 64005845 64012000 +
Vifa Vifa1g07047 Chr1 1089071046 1089076595 +
Vimu Vimu11g04781 Chr11 67930768 67936906 +
Viun Viun3g00201 Chr3 1133779 1141085 -
Vivi Vivi2g00759 Chr2 23101748 23103312 +
Vra Vra7g3153 Chr7 51278869 51285496 +
Vvi Vvi17g0325 Chr17 3401091 3402803 +
Bva Bva03g00663 Chr03 3969228 3972135 -
Cca Cca08g00239 Chr08 3310443 3315062 -
Gma Gma07g00844 Chr07 8985452 8987763 -
Gso Gso7g0799 Chr7 8791585 8793978 -
Lal Lal8g0434 Chr8 2920626 2924401 -
Lja Lja2g2106 Chr2 23324467 23327546 -
Psa Psa1g0849 Chr1 57275598 57279128 +
Vra Vra1g0612 Chr1 7088678 7092256 -
Vvi Vvi17g0326 Chr17 3406359 3411171 +
Aev Aev05g3437 Chr05 33795501 33801059 -
Ahy Ahy15g2770 Chr15 145173197 145176380 +
Aip Aip05g03092 Chr05 134199493 134202604 +
Apr Apr6g1055 Chr6 15243953 15246840 +
Car Car08g01681 Chr08 26646105 26649298 -
Dod Dod02g3654 Chr02 74787244 74791531 -
Mal Mal8g3860 Chr8 112339914 112344549 +
Mtr Mtr6g2167 Chr6 38761928 38766412 +
Tpr Tpr5g0252 Chr5 3647421 3651047 -
Tsu Tsu03g03162 Chr03 43704770 43711915 +
Vvi Vvi17g0327 Chr17 3414943 3416439 -
Adu Adu03g01992 Chr03 36734742 36737734 +
Aed Aed7g0216 Chr7 1539616 1542125 +
Aev Aev05g3436 Chr05 33789544 33794544 +
Ahy Ahy15g2771 Chr15 145178844 145181379 -
Aip Aip05g03093 Chr05 134205277 134209676 -
Apr Apr6g1056 Chr6 15247118 15250733 -
Apr Apr2g1460 Chr2 20657856 20660056 +
Arst Arst5g03337 Chr5 91932748 91935104 +
Bach Bach1g01509 Chr1 28713657 28716519 -
Bva Bva04g00821 Chr04 5425173 5428008 +
Bva Bva03g00662 Chr03 3966006 3968620 +
Car Car06g00265 Chr06 2830442 2832401 +
Cca Cca08g00238 Chr08 3302280 3304870 +
Dod Dod02g3653 Chr02 74782983 74785944 +
Gma Gma07g00843 Chr07 8981049 8983409 +
Gma Gma09g01693 Chr09 42586278 42587828 -
Gso Gso7g0798 Chr7 8787194 8789603 +
Gso Gso7g0798 Chr7 8787194 8789603 +
Lal Lal16g1009 Chr16 6714184 6716552 -
Lal Lal8g0433 Chr8 2918902 2921112 +
Lal Lal10g0975 Chr10 17029830 17032320 -
Lal Lal25g0459 Chr25 3156923 3159355 +
Lapu Lapu3g03838 Chr3 61938943 61947634 +
Lja Lja2g2105 Chr2 23314937 23317539 +
Lja Lja4g0139 Chr4 1060439 1062828 -
Phco Phco4g03599 Chr4 55881696 55883304 +
Psa Psa1g0850 Chr1 57279303 57281341 -
Pste Pste3g00280 Chr3 1320874 1323332 -
Pumo Pumo6g03032 Chr6 72453396 72454684 -
Pvu Pvu3g0985 Chr3 19492644 19495007 -
Pvu Pvu2g3264 Chr2 47764190 47766326 +
Spst Spst3g00793 Chr3 11463346 11464599 -
Ssu Ssu5g3366 Chr5 83644386 83645834 +
Sto Sto8g2167 Chr8 14239230 14241705 +
Vifa Vifa1g07044 Chr1 1089010388 1089011798 +
Vimu Vimu11g04778 Chr11 67918115 67919419 +
Vra Vra1g0611 Chr1 7085657 7088008 +
Vvi Vvi17g0328 Chr17 3419321 3425451 +
Vvi Vvi17g0329 Chr17 3428366 3429713 -
Vvi Vvi17g0330 Chr17 3454188 3455622 -
Aed Aed7g0215 Chr7 1537458 1538722 +
Aed Aed5g2552 Chr5 26400941 26403010 +
Ahy Ahy15g2772 Chr15 145185887 145188054 -
Aip Aip05g03094 Chr05 134216042 134218320 -
Apr Apr6g1057 Chr6 15252967 15254265 -
Apr Apr2g1459 Chr2 20650154 20651925 +
Bva Bva04g00820 Chr04 5421697 5422943 +
Cca Cca08g00237 Chr08 3299788 3301370 +
Cca Cca09g02709 Chr09 52766161 52771852 +
Dod Dod02g3652 Chr02 74766867 74768670 +
Gma Gma07g00842 Chr07 8977478 8978728 +
Gma Gma08g00405 Chr08 3412345 3414081 +
Gma Gma05g02278 Chr05 43819126 43820924 +
Gma Gma09g01694 Chr09 42591307 42592520 -
Gso Gso7g0797 Chr7 8783652 8785075 +
Gso Gso7g0797 Chr7 8783652 8785075 +
Gso Gso7g0797 Chr7 8783652 8785075 +
Gso Gso7g0797 Chr7 8783652 8785075 +
Lal Lal16g1010 Chr16 6718001 6719884 -
Lal Lal23g0640 Chr23 9135162 9137027 +
Lja Lja4g0140 Chr4 1064425 1065911 -
Ssu Ssu5g3365 Chr5 83612946 83614340 +
Ssu Ssu5g3366 Chr5 83644386 83645834 +
Sto Sto8g2166 Chr8 14235281 14236800 +
Vra Vra1g0610 Chr1 7082637 7084261 +
Vra Vra7g3150 Chr7 51265116 51267125 +
Vvi Vvi17g0331 Chr17 3463181 3465385 -
Vvi Vvi17g0332 Chr17 3477176 3478490 +
Adu Adu03g01987 Chr03 36615102 36616502 -
Aed Aed7g0214 Chr7 1526101 1527628 -
Aed Aed5g2550 Chr5 26389255 26390961 -
Aev Aev05g3435 Chr05 33777277 33778744 -
Ahy Ahy15g2775 Chr15 145246491 145248267 +
Aip Aip05g03097 Chr05 134281982 134283913 +
Apr Apr6g1058 Chr6 15273265 15275040 +
Apr Apr2g1458 Chr2 20640219 20641660 -
Arst Arst5g03336 Chr5 91889068 91891010 -
Bva Bva04g00819 Chr04 5414756 5416377 -
Cca Cca08g00236 Chr08 3272304 3274236 -
Cca Cca09g02708 Chr09 52755045 52756869 -
Dod Dod02g3651 Chr02 74754446 74756320 -
Gma Gma07g00841 Chr07 8963907 8965766 -
Gma Gma08g00404 Chr08 3403259 3405137 -
Gma Gma05g02277 Chr05 43809643 43811553 -
Gma Gma09g01695 Chr09 42604149 42605802 +
Gso Gso7g0796 Chr7 8769556 8771449 -
Gso Gso7g0796 Chr7 8769556 8771449 -
Gso Gso7g0796 Chr7 8769556 8771449 -
Gso Gso7g0796 Chr7 8769556 8771449 -
Lal Lal16g1011 Chr16 6723723 6725452 +
Lal Lal8g0432 Chr8 2908368 2910411 -
Lal Lal10g0976 Chr10 17037992 17039843 +
Lapu Lapu3g03836 Chr3 61917878 61919073 -
Lja Lja2g2103 Chr2 23295955 23297814 -
Lja Lja4g0141 Chr4 1072015 1073684 +
Mal Mal8g3874 Chr8 112628519 112630637 +
Mtr Mtr6g2169 Chr6 38830686 38833054 +
Psa Psa1g0854 Chr1 57437365 57439465 +
Pste Pste3g00288 Chr3 1375323 1377265 +
Pumo Pumo6g03033 Chr6 72468849 72470683 +
Pvu Pvu3g0987 Chr3 19512352 19514272 +
Pvu Pvu2g3261 Chr2 47743513 47745376 -
Rops Rops2g00206 Chr2 3112583 3114303 +
Seca Seca12g06850 Chr12 160462336 160463969 -
Spst Spst3g00798 Chr3 11478746 11480366 +
Ssu Ssu5g3364 Chr5 83598133 83599848 -
Ssu Ssu5g3364 Chr5 83598133 83599848 -
Sto Sto8g2165 Chr8 14215084 14216859 -
Tpr Tpr5g0249 Chr5 3614748 3617075 -
Vian Vian1g04090 Chr1 63969667 63971184 -
Vifa Vifa1g07042 Chr1 1088227899 1088229489 -
Vimu Vimu11g04775 Chr11 67895868 67897288 -
Viun Viun3g00210 Chr3 1184499 1186114 +
Vra Vra1g0609 Chr1 7069013 7071114 -
Vra Vra7g3147 Chr7 51244645 51246332 -