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
Vvi17g0453 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01107 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0454 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01108 Bva05g00595 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0455 . . . . Adu01g03161 . . Aed6g1662 Aev01g2217 . Ahy11g2067 . Aip01g02274 . . . Amo11g2434 . . Apr9g2924 Arst1g04079 . Bach5g00502 . . . Bva06g01109 Bva05g00594 Car07g00862 . . Cca11g02057 . . Dod05g1830 . . . . . . . Gma05g00165 Gma17g00778 . . . . . Lal7g1332 Lal14g1874 . . . . . . . . . Lapu3g00943 . Lasa4g03379 . . . . . . . . . . Lja4g2054 Mal5g4370 . Mepo1g01175 . Mesa29g01205 . . . Mtr4g4006 . . . Phco8g01444 . . . . . Pste6g02745 . Pte3g00374 . . . Pumo4g01188 . Pvu3g1877 . Rops2g03779 . Seca12g01272 . Spst3g04799 . . Ssu6g1155 . . Tpr5g3119 . Trre15g04333 . Tsu04g03788 . Vian1g00863 . Vifa4g03475 . Vimu7g00899 . . . Vivi1g01794 . . Vra7g1971
Vvi17g0456 . . . . . Adu10g02166 Aed10g1163 . . Aev08g1652 . Ahy20g2390 . Aip10g02809 . . . . . . . Arst10g02776 . Bach2g01923 . . Bva06g01110 Bva05g00593 . . Cca03g00697 . . . . Dod09g0517 . . . . Gma06g01866 Gma04g01519 . . Gso6g1753 Gso6g1753 . . . . . . . . . . . . . . . . . Lasa1g04218 . . . . . . . . Lja1g5436 . . . . Mepo6g02377 . Mesa5g02179 . . . . . . . Phco7g02439 . . Psa1g0667 . . Pste2g00381 . . . . . Pumo10g02299 . Pvu9g2108 . Rops10g00406 . Seca4g03408 . . Ssu1g1994 . Sto3g1658 . . . . Trre11g02348 . . . Vian4g00578 . . . Vimu10g00782 . Viun9g00801 . Vivi4g01716 . .
Vvi17g0457 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00591 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0458 . . . . . . Aed10g1162 . . . . Ahy20g2394 . Aip10g02813 . . . Amo20g3134 . . . . . . . . Bva06g01111 . . . Cca03g00696 . . . . Dod09g0516 . . . . Gma06g01864 . . . Gso6g1752 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5437 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g1995 . . Sto12g1004 . . . . . . . . . . . . . . . . . .
Vvi17g0459 . . . . Adu01g03164 . . Aed6g1660 Aev01g2216 . Ahy11g2064 . Aip01g02272 . . . Amo11g2433 . . Apr9g2925 Arst1g04086 . . . . . Bva06g01112 . Car07g00863 . . Cca11g02055 . . Dod05g1828 . . . . . . . Gma05g00167 Gma17g00776 . . . . Lal19g1430 . . . . . Lan1g1078 . . . . . Lapu3g00944 . Lasa4g03378 . . . . . . . . . . Lja4g2055 Mal5g4369 . Mepo1g01176 . Mesa29g01206 . . . Mtr4g4005 . . . Phco8g01442 . . . Psa4g1059 . . . . . . . Pumo4g01191 . Pvu3g1879 . Rops2g03780 . Seca12g01276 . Spst3g04796 . . Ssu6g1157 . . Tpr5g3118 . Trre15g04331 . Tsu04g03787 . Vian1g00862 . Vifa4g03471 . Vimu7g00896 . Viun3g04698 . Vivi1g01796 . . Vra7g1970
Vvi17g0460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0461 . . . . Adu01g03167 . . Aed6g1659 Aev01g2215 . Ahy11g2062 . Aip01g02270 . . . . . . Apr9g2926 Arst1g04088 . Bach10g01136 . Bisa08g1697 . Bva06g01113 Bva05g00590 Car07g00864 . . Cca11g02054 Dere03g1043 . Dod05g1827 . . . Glsi02g0968 . . . Gma05g00169 Gma17g00775 . . . . Lal19g1431 Lal7g1333 Lal14g1875 . . . Lan1g1077 Lan1g1077 Lan1g1077 . . . Lapu3g00945 . Lasa4g03373 . . . . . . . . . . Lja4g2056 Mal5g4368 . Mepo1g01177 . Mesa29g01207 . . . Mtr4g4004 . . . Phco8g01440 . . . . . Pste6g02740 . . Pte2g02302 . . Pumo4g01192 . Pvu3g1880 . Rops2g03781 . Seca12g01278 . Spst3g04794 . . Ssu6g1159 Sto3g1655 Sto12g1003 Tpr5g3117 . Trre15g04327 . Tsu04g03784 . Vian1g00861 . Vifa4g03467 . Vimu7g00894 . Viun3g04697 . Vivi1g01802 . . Vra7g1969
Vvi17g0462 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0453 Chr17 5109624 5115573 +
Bva Bva06g01107 Chr06 8849119 8853246 +
Vvi Vvi17g0454 Chr17 5116982 5117539 -
Bva Bva06g01108 Chr06 8852564 8853214 -
Bva Bva05g00595 Chr05 2969067 2969740 +
Vvi Vvi17g0455 Chr17 5126464 5127783 -
Adu Adu01g03161 Chr01 103407785 103409731 -
Aed Aed6g1662 Chr6 20448894 20449931 +
Aev Aev01g2217 Chr01 26476583 26477899 +
Ahy Ahy11g2067 Chr11 130814101 130815808 +
Aip Aip01g02274 Chr01 119849042 119850564 +
Amo Amo11g2434 Chr11 129279892 129281611 +
Apr Apr9g2924 Chr9 36090998 36092483 -
Arst Arst1g04079 Chr1 102675674 102677395 -
Bach Bach5g00502 Chr5 3431550 3432947 +
Bva Bva06g01109 Chr06 8855105 8856817 -
Bva Bva05g00594 Chr05 2965526 2967205 +
Car Car07g00862 Chr07 7611097 7612257 -
Cca Cca11g02057 Chr11 46160798 46162119 +
Dod Dod05g1830 Chr05 43843105 43844781 +
Gma Gma05g00165 Chr05 1565129 1566592 -
Gma Gma17g00778 Chr17 6561276 6562724 +
Lal Lal7g1332 Chr7 18544675 18545769 -
Lal Lal14g1874 Chr14 18209171 18210367 -
Lapu Lapu3g00943 Chr3 10159950 10161318 -
Lasa Lasa4g03379 Chr4 589551427 589552602 +
Lja Lja4g2054 Chr4 21975690 21977405 -
Mal Mal5g4370 Chr5 115100633 115101886 +
Mepo Mepo1g01175 Chr1 11455558 11456838 -
Mesa Mesa29g01205 Chr29 15655113 15656390 -
Mtr Mtr4g4006 Chr4 53881042 53882638 +
Phco Phco8g01444 Chr8 14927619 14928629 +
Pste Pste6g02745 Chr6 15077519 15079442 -
Pte Pte3g00374 Chr3 3116175 3119109 +
Pumo Pumo4g01188 Chr4 15141538 15143252 -
Pvu Pvu3g1877 Chr3 39308941 39310508 -
Rops Rops2g03779 Chr2 69686432 69687682 -
Seca Seca12g01272 Chr12 12414984 12416159 -
Spst Spst3g04799 Chr3 99691141 99692139 +
Ssu Ssu6g1155 Chr6 18809345 18810343 -
Tpr Tpr5g3119 Chr5 53998116 53999798 +
Trre Trre15g04333 Chr15 53946506 53947699 +
Tsu Tsu04g03788 Chr04 46818277 46819488 +
Vian Vian1g00863 Chr1 9006559 9007578 +
Vifa Vifa4g03475 Chr4 1089104357 1089105511 +
Vimu Vimu7g00899 Chr7 8751910 8752920 +
Vivi Vivi1g01794 Chr1 38274010 38275454 -
Vra Vra7g1971 Chr7 39213519 39214965 +
Vvi Vvi17g0456 Chr17 5129807 5134711 -
Adu Adu10g02166 Chr10 94393823 94397866 -
Aed Aed10g1163 Chr10 10970515 10975582 +
Aev Aev08g1652 Chr08 12828641 12834308 +
Ahy Ahy20g2390 Chr20 128297138 128302951 -
Aip Aip10g02809 Chr10 120336690 120341390 -
Arst Arst10g02776 Chr10 93677909 93682762 -
Bach Bach2g01923 Chr2 27055909 27061460 -
Bva Bva06g01110 Chr06 8857155 8862807 -
Bva Bva05g00593 Chr05 2959751 2964764 +
Cca Cca03g00697 Chr03 13057710 13063023 +
Dod Dod09g0517 Chr09 7973185 7977372 +
Gma Gma06g01866 Chr06 20241342 20246887 +
Gma Gma04g01519 Chr04 40731452 40741553 -
Gso Gso6g1753 Chr6 19874717 19880391 +
Gso Gso6g1753 Chr6 19874717 19880391 +
Lasa Lasa1g04218 Chr1 716300676 716305065 +
Lja Lja1g5436 Chr1 92296312 92301437 -
Mepo Mepo6g02377 Chr6 32309754 32315126 -
Mesa Mesa5g02179 Chr5 35436324 35441595 +
Phco Phco7g02439 Chr7 42561442 42566371 -
Psa Psa1g0667 Chr1 41787364 41792445 +
Pste Pste2g00381 Chr2 3258196 3263807 -
Pumo Pumo10g02299 Chr10 32621931 32623724 +
Pvu Pvu9g2108 Chr9 30189242 30194406 -
Rops Rops10g00406 Chr10 11264824 11270046 -
Seca Seca4g03408 Chr4 59483140 59488767 +
Ssu Ssu1g1994 Chr1 56415636 56420843 -
Sto Sto3g1658 Chr3 12624331 12639043 +
Trre Trre11g02348 Chr11 28031057 28036063 -
Vian Vian4g00578 Chr4 6907780 6912659 +
Vimu Vimu10g00782 Chr10 6891260 6897564 +
Viun Viun9g00801 Chr9 5991839 5996548 +
Vivi Vivi4g01716 Chr4 75070973 75075884 +
Vvi Vvi17g0457 Chr17 5148100 5149542 +
Bva Bva05g00591 Chr05 2955207 2957065 +
Vvi Vvi17g0458 Chr17 5149856 5151301 -
Aed Aed10g1162 Chr10 10947739 10949121 +
Ahy Ahy20g2394 Chr20 128494265 128496354 -
Aip Aip10g02813 Chr10 120517943 120520722 -
Amo Amo20g3134 Chr20 135947192 135949153 -
Bva Bva06g01111 Chr06 8864516 8866079 +
Cca Cca03g00696 Chr03 12994682 12996525 -
Dod Dod09g0516 Chr09 7959540 7961706 +
Gma Gma06g01864 Chr06 20223219 20224824 +
Gso Gso6g1752 Chr6 19857400 19859046 +
Lja Lja1g5437 Chr1 92334870 92336501 +
Ssu Ssu1g1995 Chr1 56438542 56443177 -
Sto Sto12g1004 Chr12 6244488 6249148 -
Vvi Vvi17g0459 Chr17 5154403 5159611 +
Adu Adu01g03164 Chr01 103446608 103448718 +
Aed Aed6g1660 Chr6 20441459 20444280 -
Aev Aev01g2216 Chr01 26466835 26468345 -
Ahy Ahy11g2064 Chr11 130768472 130770855 -
Aip Aip01g02272 Chr01 119803866 119806073 -
Amo Amo11g2433 Chr11 129234635 129236510 -
Apr Apr9g2925 Chr9 36104275 36107272 +
Arst Arst1g04086 Chr1 102714103 102716263 +
Bva Bva06g01112 Chr06 8866864 8869563 +
Car Car07g00863 Chr07 7632402 7635524 +
Cca Cca11g02055 Chr11 46142294 46147491 -
Dod Dod05g1828 Chr05 43831634 43833928 -
Gma Gma05g00167 Chr05 1574391 1578780 +
Gma Gma17g00776 Chr17 6545097 6549407 -
Lal Lal19g1430 Chr19 16966479 16969991 +
Lan Lan1g1078 Chr1 20931494 20934916 -
Lapu Lapu3g00944 Chr3 10170829 10177861 +
Lasa Lasa4g03378 Chr4 589475827 589488498 -
Lja Lja4g2055 Chr4 22000907 22004044 +
Mal Mal5g4369 Chr5 115084461 115088807 -
Mepo Mepo1g01176 Chr1 11465306 11468611 +
Mesa Mesa29g01206 Chr29 15663293 15666237 +
Mtr Mtr4g4005 Chr4 53872275 53875640 -
Phco Phco8g01442 Chr8 14904174 14910670 -
Psa Psa4g1059 Chr4 77566277 77571086 -
Pumo Pumo4g01191 Chr4 15151780 15152790 +
Pvu Pvu3g1879 Chr3 39320477 39327307 +
Rops Rops2g03780 Chr2 69702389 69706812 +
Seca Seca12g01276 Chr12 12437423 12441905 +
Spst Spst3g04796 Chr3 99674998 99684250 -
Ssu Ssu6g1157 Chr6 18828661 18832504 +
Tpr Tpr5g3118 Chr5 53992265 53995687 -
Trre Trre15g04331 Chr15 53935478 53938271 -
Tsu Tsu04g03787 Chr04 46812079 46815344 -
Vian Vian1g00862 Chr1 8979222 8987690 -
Vifa Vifa4g03471 Chr4 1088590565 1088592808 -
Vimu Vimu7g00896 Chr7 8736247 8741977 -
Viun Viun3g04698 Chr3 54361013 54367021 -
Vivi Vivi1g01796 Chr1 38288570 38293837 +
Vra Vra7g1970 Chr7 39186070 39194838 -
Vvi Vvi17g0460 Chr17 5160826 5162715 -
Vvi Vvi17g0461 Chr17 5178349 5186521 +
Adu Adu01g03167 Chr01 103503836 103511302 +
Aed Aed6g1659 Chr6 20423558 20431644 -
Aev Aev01g2215 Chr01 26445104 26453558 -
Ahy Ahy11g2062 Chr11 130688787 130696772 -
Aip Aip01g02270 Chr01 119696560 119701107 -
Apr Apr9g2926 Chr9 36120348 36128580 +
Arst Arst1g04088 Chr1 102771425 102778503 +
Bach Bach10g01136 Chr10 8456204 8459241 -
Bisa Bisa08g1697 Chr08 39696584 39709377 +
Bva Bva06g01113 Chr06 8874326 8880039 +
Bva Bva05g00590 Chr05 2929576 2936465 -
Car Car07g00864 Chr07 7659260 7667792 +
Cca Cca11g02054 Chr11 46110168 46120306 -
Dere Dere03g1043 Chr03 16455378 16463043 -
Dod Dod05g1827 Chr05 43797012 43807033 -
Glsi Glsi02g0968 Chr02 6420337 6431111 -
Gma Gma05g00169 Chr05 1594432 1602305 +
Gma Gma17g00775 Chr17 6524581 6534933 -
Lal Lal19g1431 Chr19 16972807 16981546 +
Lal Lal7g1333 Chr7 18551373 18555225 +
Lal Lal14g1875 Chr14 18217811 18226246 +
Lan Lan1g1077 Chr1 20915302 20925526 -
Lan Lan1g1077 Chr1 20915302 20925526 -
Lan Lan1g1077 Chr1 20915302 20925526 -
Lapu Lapu3g00945 Chr3 10187281 10194579 +
Lasa Lasa4g03373 Chr4 588899077 588906491 -
Lja Lja4g2056 Chr4 22030997 22044646 +
Mal Mal5g4368 Chr5 115037975 115045133 -
Mepo Mepo1g01177 Chr1 11490807 11499567 +
Mesa Mesa29g01207 Chr29 15693413 15700990 +
Mtr Mtr4g4004 Chr4 53840501 53849063 -
Phco Phco8g01440 Chr8 14888684 14894884 -
Pste Pste6g02740 Chr6 15018934 15030462 -
Pte Pte2g02302 Chr2 42718124 42724227 +
Pumo Pumo4g01192 Chr4 15181312 15191329 +
Pvu Pvu3g1880 Chr3 39336665 39343835 +
Rops Rops2g03781 Chr2 69727049 69735144 +
Seca Seca12g01278 Chr12 12464118 12471522 +
Spst Spst3g04794 Chr3 99645617 99653138 -
Ssu Ssu6g1159 Chr6 18875085 18884067 +
Sto Sto3g1655 Chr3 12581340 12593743 -
Sto Sto12g1003 Chr12 6233403 6237894 -
Tpr Tpr5g3117 Chr5 53964751 53973640 -
Trre Trre15g04327 Chr15 53873465 53880715 -
Tsu Tsu04g03784 Chr04 46760790 46768688 -
Vian Vian1g00861 Chr1 8964765 8971228 -
Vifa Vifa4g03467 Chr4 1087075821 1087088717 -
Vimu Vimu7g00894 Chr7 8726991 8728263 -
Viun Viun3g04697 Chr3 54345593 54352802 -
Vivi Vivi1g01802 Chr1 38371965 38379453 +
Vra Vra7g1969 Chr7 39171317 39177950 -
Vvi Vvi17g0462 Chr17 5186803 5186931 -