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
Vvi19g0820 . . . . . . . . . . . . . . . . . . . . . . Bach7g01114 . . . . . . . . . Dere02g3300 . . . Enph4g0200 . Glsi11g3051 . . . . . . . . . . . . . . . . . . . . . Lapu6g01706 . . . . . . . . . . . . Lja6g2554 . . Mepo6g01071 . Mesa5g03594 . . . . . Phac6g01970 . Phco11g00951 . . . . . Pste2g02724 . Pte19g00556 Pte2g00500 . . Pumo2g00232 . Pvu6g1421 . Rops11g01186 . Seca6g04328 . Spst6g01322 . . . . . . . Trre3g01178 . . . Vian6g01291 . Vifa1g09764 . Vimu2g01253 . Viun6g02133 . Vivi4g03147 . . .
Vvi19g0821 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0822 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0823 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0824 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g02588 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1222 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0825 . . . . . . . . . Aev01g0874 . Ahy11g0513 . Aip01g00509 . . . Amo11g0317 . . . . . . . . . . . Car05g01164 . . . . . . . . . . Gma08g03088 Gma18g00688 . . Gso8g2749 Gso8g2749 . . . . . Lal3g0765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu8g0876 . . . . . . . . . Sto5g1807 . . . . . . . . . . . . . . . . . .
Vvi19g0826 . . . . . . . . Aev07g0113 . Ahy17g0197 . Aip07g00139 . . . . . . . Arst1g03742 Arst7g00223 Bach7g01110 . Bisa07g0290 . Bva12g02587 . . Car05g01181 . . Dere02g3296 . Dod08g0140 . . . Glsi11g3044 . Gma08g03089 Gma18g00687 . . Gso8g2750 Gso8g2750 . . Lal18g1624 Lal22g0041 . . . . Lan2g1368 Lan2g1368 . . . . Lapu6g01710 . Lasa1g01135 . . . . . . . . . Lja6g1220 Lja6g2563 . Mal8g0191 Mepo6g01077 . . . . . . Mtr5g3449 Phac6g00797 . Phco11g00956 . . . . Psa2g0151 Pste2g02733 . Pte19g00559 Pte2g00506 . . . . Pvu6g1417 Pvu8g0877 Rops11g01192 . Seca6g04322 . Spst6g01326 . . . Sto9g2063 Sto5g1804 . . . . . Tsu05g04080 Vian6g01287 . Vifa1g09758 . Vimu2g01258 . Viun6g02124 . Vivi1g00074 . . .
Vvi19g0827 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0828 . . . . . Adu07g00088 . . Aev07g0112 Aev01g0864 Ahy17g0196 Ahy11g0511 Aip07g00138 Aip01g00507 . . . Amo11g0312 . Apr9g1895 . Arst7g00165 . Bach3g00478 . . Bva12g02586 . Car02g02198 Car05g01183 Cca05g02085 . . . Dod08g0139 Dod05g0653 . . . . Gma08g03090 Gma18g00686 Gma02g02829 Gma14g00075 Gso8g2751 Gso8g2751 Gso8g2751 Gso8g2751 Lal18g1625 . . Lal3g0764 . . Lan2g1369 . . Lan2g1369 . . . . . Lasa2g02423 . . . . . . . . Lja6g1219 . . Mal8g0115 . Mepo7g03031 . Mesa17g04625 . . . Mtr5g3503 . Phac8g03833 . Phco3g00086 . . Psa5g3813 Psa2g0105 . Pste8g00169 . . . Pte4g00291 . Pumo9g01721 . Pvu8g2944 . . . Seca8g00106 . Spst8g01047 Ssu6g3653 . Sto9g2065 . . Tpr4g0367 . Trre9g05307 . Tsu05g04158 . Vian7g01048 . Vifa1g03692 . Vimu1g00228 . Viun8g03062 . Vivi7g02480 Vra6g0078 .
Vvi19g0829 . . . . . . . . . Aev01g0863 . Ahy11g0510 . Aip01g00506 . . . Amo11g0311 . . . . . . . . . . . . . . . . . Dod05g0651 . . . . Gma08g03091 Gma18g00685 . . Gso8g2752 Gso8g2752 . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1218 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu8g0878 . . . . . . . . Sto9g2066 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Mal Mal8g0115 Chr8 1931335 1937600 -
Mtr Mtr5g3503 Chr5 43813287 43819830 +
Tpr Tpr4g0367 Chr4 3620983 3626733 +
Tsu Tsu05g04158 Chr05 52224021 52229938 +
Vvi Vvi19g0820 Chr19 9094526 9098457 +
Bach Bach7g01114 Chr7 21960223 21963813 -
Dere Dere02g3300 Chr02 41412098 41417441 +
Enph Enph4g0200 Chr4 4801716 4806431 +
Glsi Glsi11g3051 Chr11 26296618 26300914 -
Lapu Lapu6g01706 Chr6 16921476 16925806 +
Lja Lja6g2554 Chr6 54342125 54346398 +
Mepo Mepo6g01071 Chr6 11345405 11350090 +
Mesa Mesa5g03594 Chr5 63251817 63255894 -
Phac Phac6g01970 Chr6 19951594 19987308 -
Phco Phco11g00951 Chr11 7010207 7013833 +
Pste Pste2g02724 Chr2 27453245 27456806 +
Pte Pte19g00556 Chr19 4392220 4396554 +
Pte Pte2g00500 Chr2 3819435 3823809 +
Pumo Pumo2g00232 Chr2 4447085 4451276 -
Pvu Pvu6g1421 Chr6 25063682 25067902 -
Rops Rops11g01186 Chr11 17384789 17396955 +
Seca Seca6g04328 Chr6 110995391 110997790 -
Spst Spst6g01322 Chr6 12218334 12221687 +
Trre Trre3g01178 Chr3 8817557 8821506 +
Vian Vian6g01291 Chr6 30533214 30536740 -
Vifa Vifa1g09764 Chr1 1582657351 1582660409 +
Vimu Vimu2g01253 Chr2 8362644 8366748 +
Viun Viun6g02133 Chr6 27339334 27343764 -
Vivi Vivi4g03147 Chr4 143816720 143820569 +
Vvi Vvi19g0821 Chr19 9101792 9103366 -
Vvi Vvi19g0822 Chr19 9113583 9114473 +
Vvi Vvi19g0823 Chr19 9116147 9125302 +
Vvi Vvi19g0824 Chr19 9136274 9137990 +
Bva Bva12g02588 Chr12 19216727 19223298 +
Lja Lja6g1222 Chr6 36028164 36035230 +
Vvi Vvi19g0825 Chr19 9142788 9145871 +
Aev Aev01g0874 Chr01 8505471 8513014 +
Ahy Ahy11g0513 Chr11 7562801 7569622 +
Aip Aip01g00509 Chr01 7175284 7182355 +
Amo Amo11g0317 Chr11 4812260 4819031 +
Car Car05g01164 Chr05 54300070 54309137 -
Gma Gma08g03088 Chr08 47565142 47572344 -
Gma Gma18g00688 Chr18 7071888 7077083 +
Gso Gso8g2749 Chr8 45199840 45207079 -
Gso Gso8g2749 Chr8 45199840 45207079 -
Lal Lal3g0765 Chr3 6622106 6630178 +
Pvu Pvu8g0876 Chr8 8522245 8529013 -
Sto Sto5g1807 Chr5 13193252 13200172 +
Vvi Vvi19g0826 Chr19 9147678 9157412 +
Aev Aev07g0113 Chr07 687583 689962 -
Ahy Ahy17g0197 Chr17 1947522 1951393 -
Aip Aip07g00139 Chr07 1069414 1071409 -
Arst Arst1g03742 Chr1 98739297 98745371 +
Arst Arst7g00223 Chr7 1362086 1365843 -
Bach Bach7g01110 Chr7 21931510 21934285 -
Bisa Bisa07g0290 Chr07 7596737 7601690 -
Bva Bva12g02587 Chr12 19212030 19216030 -
Car Car05g01181 Chr05 54600308 54603421 +
Dere Dere02g3296 Chr02 41351022 41354998 -
Dod Dod08g0140 Chr08 1572961 1577605 -
Glsi Glsi11g3044 Chr11 26088668 26096810 -
Gma Gma08g03089 Chr08 47578632 47581911 +
Gma Gma18g00687 Chr18 7058877 7063640 -
Gso Gso8g2750 Chr8 45212229 45216625 +
Gso Gso8g2750 Chr8 45212229 45216625 +
Lal Lal18g1624 Chr18 17643661 17653989 +
Lal Lal22g0041 Chr22 249723 254544 -
Lan Lan2g1368 Chr2 24342135 24346671 +
Lan Lan2g1368 Chr2 24342135 24346671 +
Lapu Lapu6g01710 Chr6 16959679 16965677 +
Lasa Lasa1g01135 Chr1 92169794 92171734 -
Lja Lja6g1220 Chr6 35972257 35980436 -
Lja Lja6g2563 Chr6 54399543 54401553 +
Mal Mal8g0191 Chr8 3040213 3042514 -
Mepo Mepo6g01077 Chr6 11451205 11462077 +
Mtr Mtr5g3449 Chr5 43351634 43355513 +
Phac Phac6g00797 Chr6 12451059 12455040 +
Phco Phco11g00956 Chr11 7056209 7059111 +
Psa Psa2g0151 Chr2 5664860 5668153 -
Pste Pste2g02733 Chr2 27526731 27531693 +
Pte Pte19g00559 Chr19 4430034 4435744 +
Pte Pte2g00506 Chr2 3862416 3865569 +
Pvu Pvu6g1417 Chr6 25018836 25023773 -
Pvu Pvu8g0877 Chr8 8534323 8538138 +
Rops Rops11g01192 Chr11 17464088 17471179 +
Seca Seca6g04322 Chr6 110947420 110954281 -
Spst Spst6g01326 Chr6 12253324 12256872 +
Sto Sto9g2063 Chr9 24563296 24566656 +
Sto Sto5g1804 Chr5 13179061 13182481 -
Tsu Tsu05g04080 Chr05 51608056 51617557 +
Vian Vian6g01287 Chr6 30485558 30488681 -
Vifa Vifa1g09758 Chr1 1581069267 1581071754 -
Vimu Vimu2g01258 Chr2 8406205 8407661 +
Viun Viun6g02124 Chr6 27292677 27298133 -
Vivi Vivi1g00074 Chr1 1491203 1497170 -
Vvi Vvi19g0827 Chr19 9157796 9158177 +
Vvi Vvi19g0828 Chr19 9159413 9162652 -
Adu Adu07g00088 Chr07 872767 877520 -
Aev Aev07g0112 Chr07 681619 684268 +
Aev Aev01g0864 Chr01 8444333 8447311 +
Ahy Ahy17g0196 Chr17 1943005 1946050 +
Ahy Ahy11g0511 Chr11 7521572 7524587 +
Aip Aip07g00138 Chr07 1064650 1067803 +
Aip Aip01g00507 Chr01 7138738 7141952 +
Amo Amo11g0312 Chr11 4769872 4773394 +
Apr Apr9g1895 Chr9 27571972 27577339 +
Arst Arst7g00165 Chr7 1024163 1029315 -
Bach Bach3g00478 Chr3 13848080 13853652 +
Bva Bva12g02586 Chr12 19208220 19211340 +
Car Car02g02198 Chr02 52132745 52146218 +
Car Car05g01183 Chr05 54613963 54617127 -
Cca Cca05g02085 Chr05 40651369 40657444 +
Dod Dod08g0139 Chr08 1569526 1572363 +
Dod Dod05g0653 Chr05 9763449 9763808 +
Gma Gma08g03090 Chr08 47582451 47585620 -
Gma Gma18g00686 Chr18 7054050 7057160 +
Gma Gma02g02829 Chr02 53784576 53787650 -
Gma Gma14g00075 Chr14 617541 622510 -
Gso Gso8g2751 Chr8 45217281 45220380 -
Gso Gso8g2751 Chr8 45217281 45220380 -
Gso Gso8g2751 Chr8 45217281 45220380 -
Gso Gso8g2751 Chr8 45217281 45220380 -
Lal Lal18g1625 Chr18 17654799 17657957 -
Lal Lal3g0764 Chr3 6615358 6618676 +
Lan Lan2g1369 Chr2 24347581 24350537 -
Lan Lan2g1369 Chr2 24347581 24350537 -
Lasa Lasa2g02423 Chr2 501395320 501401343 +
Lja Lja6g1219 Chr6 35966087 35969312 +
Mal Mal8g0115 Chr8 1931335 1937600 -
Mepo Mepo7g03031 Chr7 41196823 41203498 +
Mesa Mesa17g04625 Chr17 77654245 77660125 +
Mtr Mtr5g3503 Chr5 43813287 43819830 +
Phac Phac8g03833 Chr8 44282424 44287835 +
Phco Phco3g00086 Chr3 544733 552851 -
Psa Psa5g3813 Chr5 300613514 300616776 +
Psa Psa2g0105 Chr2 3631686 3637750 -
Pste Pste8g00169 Chr8 964128 971363 -
Pte Pte4g00291 Chr4 11607639 11612249 -
Pumo Pumo9g01721 Chr9 46282554 46288347 -
Pvu Pvu8g2944 Chr8 59055451 59060614 +
Seca Seca8g00106 Chr8 1356157 1362237 -
Spst Spst8g01047 Chr8 9186692 9191767 +
Ssu Ssu6g3653 Chr6 80379572 80385460 +
Sto Sto9g2065 Chr9 24569112 24577183 -
Tpr Tpr4g0367 Chr4 3620983 3626733 +
Trre Trre9g05307 Chr9 57964197 57970107 +
Tsu Tsu05g04158 Chr05 52224021 52229938 +
Vian Vian7g01048 Chr7 18679171 18684228 -
Vifa Vifa1g03692 Chr1 570411509 570417980 +
Vimu Vimu1g00228 Chr1 1269136 1274235 -
Viun Viun8g03062 Chr8 37696308 37701958 +
Vivi Vivi7g02480 Chr7 88723019 88729285 -
Vra Vra6g0078 Chr6 510122 515647 -
Vvi Vvi19g0829 Chr19 9168929 9178217 +
Aev Aev01g0863 Chr01 8423909 8431178 -
Ahy Ahy11g0510 Chr11 7512951 7516209 -
Aip Aip01g00506 Chr01 7133455 7135014 -
Amo Amo11g0311 Chr11 4761226 4764407 -
Dod Dod05g0651 Chr05 9753780 9757996 -
Gma Gma08g03091 Chr08 47586957 47597895 +
Gma Gma18g00685 Chr18 7046700 7050771 -
Gso Gso8g2752 Chr8 45221532 45225056 +
Gso Gso8g2752 Chr8 45221532 45225056 +
Lja Lja6g1218 Chr6 35959827 35962612 -
Pvu Pvu8g0878 Chr8 8539524 8543056 +
Sto Sto9g2066 Chr9 24580534 24584103 +