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
Vvi4g0654 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0655 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0656 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0657 . . . . . Adu06g02921 . Aed6g1258 Aev07g1317 . Ahy16g3225 . Aip06g03469 . . . Amo16g3768 . . . . . . Bach3g02022 . . Bva10g00453 Bva06g02321 . . . Cca05g00774 . . Dod08g1771 . . . . . Gma14g00927 Gma17g02136 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00476 . . . . . . . . Pte3g01180 . . Pumo9g00495 . Pvu1g0418 . Rops9g01963 . Seca8g03242 . . . Ssu5g0466 . Sto9g3367 . . . . . . . Vian7g00529 . . . Vimu1g02758 . Viun8g00606 . . . Vra6g1680
Vvi4g0658 . . . . . Adu06g02922 . . Aev07g1315 . Ahy16g3226 . Aip06g03470 . . . Amo16g3769 . . Apr9g0218 . Arst10g02387 . Bach3g02023 . . Bva10g00454 . . Car04g03222 . Cca05g00775 . . Dod08g1772 . . . . . Gma14g00926 Gma17g02137 . . Gso14g0885 Gso14g0885 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00475 . . . Psa6g0606 . . . . Pte3g01188 . . Pumo9g00494 . Pvu1g0417 . Rops9g01962 . Seca8g03240 . . . Ssu5g0465 . Sto9g3368 . . . . . . . Vian7g00530 . Vifa3g04598 . Vimu1g02759 . Viun8g00605 . Vivi4g05191 . Vra6g1681
Vvi4g0659 . Acco05g2170 . Accr3g00831 . Adu06g02923 . . Aev07g1314 Aev08g0540 Ahy16g3227 Ahy20g2096 Aip06g03471 Aip10g02469 . Alju07g2134 Amo16g3770 Amo20g2711 . Apr9g0220 . Arst10g02385 . Bach3g02024 . Bisa05g1839 Bva10g00455 Bva06g02320 . Car04g03224 . Cca05g00776 . Dere05g1897 Dod08g1773 Dod09g1873 . Enph7g0895 . Glsi10g0622 Gma14g00925 Gma17g02138 Gma04g00557 . Gso14g0884 Gso14g0884 Gso14g0884 . . . . . . . . . . . . . . . . . . . . . Lele25g0698 Lele26g0703 Lele27g1394 . . . . . . . . . . Mibi08g1878 . . . . . Phco2g00472 . Prci2g1110 . Psa6g0603 . . . . . . . Pumo9g00493 . Pvu1g0416 . . . Seca8g03237 . Spst8g01876 . Ssu5g0464 Sto5g0929 . . . . . . . . . . Vifa3g04597 . . . Viun8g00603 . Vivi4g05194 . Vra6g1682
Vvi4g0660 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0661 . . . . Adu10g01879 . . . . Aev08g0539 . Ahy20g2097 . Aip10g02470 . . . Amo20g2712 . . Arst10g02386 . Bach12g00438 . . . . Bva06g02319 . . . . . . . . . . . . . . Gma04g00556 Gma06g00545 . . . . . Lal4g0195 . . . . . . . . . . Lapu9g01956 . . . . . . . . . . . Lja1g3952 . . . . . . . . . . . . . Phco7g00676 . . . . . Pste2g01506 . . . . . . . Pvu9g0886 . . . . . . . . . Sto5g0930 . . . . . . . . . . . Vimu10g03046 . . . . . . .
Vvi4g0662 . . . . . . . . Aev07g1310 Aev08g0538 Ahy16g3236 Ahy20g2098 Aip06g03478 Aip10g02471 . . Amo16g3776 Amo20g2713 . Apr9g0221 . . . . . . . . . Car04g03225 . . . . Dod08g1780 Dod09g1874 . . . . . Gma17g02137 . . . . . . Lal21g0301 . . . . . Lan3g1116 . . . . . . . . . . . . . . . . . Lja1g3954 . . . . . . . . . . . . . . . . . . Psa6g0601 . . . . . . . . . . . . . . . . . . Sto5g0935 . . . . . . . . . . . . . . . . . . .
Vvi4g0663 . . . . . . . . Aev07g1309 . Ahy16g3237 . Aip06g03479 . . . Amo16g3777 . . . . . . . . . . . . . . . . . Dod08g1781 . . . . . . . . . . . . . . . . Lal25g1018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma14g00925 Chr14 10423861 10429313 -
Gso Gso14g0884 Chr14 10360668 10364645 -
Vvi Vvi4g0654 Chr4 6751903 6752451 -
Vvi Vvi4g0655 Chr4 6766825 6768378 -
Vvi Vvi4g0656 Chr4 6768903 6777086 -
Vvi Vvi4g0657 Chr4 6786300 6792553 +
Adu Adu06g02921 Chr06 106904014 106908489 +
Aed Aed6g1258 Chr6 17367274 17377980 +
Aev Aev07g1317 Chr07 11879301 11883898 -
Ahy Ahy16g3225 Chr16 148857246 148861650 +
Aip Aip06g03469 Chr06 131864585 131868532 +
Amo Amo16g3768 Chr16 149111804 149116274 +
Bach Bach3g02022 Chr3 27871733 27875038 +
Bva Bva10g00453 Chr10 4638476 4642147 +
Bva Bva06g02321 Chr06 15020385 15022873 -
Cca Cca05g00774 Chr05 21475352 21480729 +
Dod Dod08g1771 Chr08 42174521 42180802 +
Gma Gma14g00927 Chr14 10445265 10449354 -
Gma Gma17g02136 Chr17 38875963 38880186 +
Phco Phco2g00476 Chr2 4279878 4283297 -
Pte Pte3g01180 Chr3 10065344 10068824 +
Pumo Pumo9g00495 Chr9 7976251 7981051 -
Pvu Pvu1g0418 Chr1 4179241 4185058 -
Rops Rops9g01963 Chr9 36235073 36242275 -
Seca Seca8g03242 Chr8 92966273 92971142 -
Ssu Ssu5g0466 Chr5 9838958 9843287 -
Sto Sto9g3367 Chr9 33494239 33496689 +
Vian Vian7g00529 Chr7 12876474 12879586 +
Vimu Vimu1g02758 Chr1 39837188 39839723 +
Viun Viun8g00606 Chr8 4616458 4619847 -
Vra Vra6g1680 Chr6 32831352 32834797 +
Vvi Vvi4g0658 Chr4 6796477 6801663 +
Adu Adu06g02922 Chr06 106909104 106913748 +
Aev Aev07g1315 Chr07 11862724 11873796 -
Ahy Ahy16g3226 Chr16 148862205 148874885 +
Aip Aip06g03470 Chr06 131869552 131884300 +
Amo Amo16g3769 Chr16 149116797 149123365 +
Apr Apr9g0218 Chr9 2850548 2854088 +
Arst Arst10g02387 Chr10 84961494 84964849 -
Bach Bach3g02023 Chr3 27876018 27878394 +
Bva Bva10g00454 Chr10 4643136 4645732 +
Car Car04g03222 Chr04 60636806 60640627 +
Cca Cca05g00775 Chr05 21510037 21514870 +
Dod Dod08g1772 Chr08 42184154 42190325 +
Gma Gma14g00926 Chr14 10439124 10443594 -
Gma Gma17g02137 Chr17 38881590 38888191 +
Gso Gso14g0885 Chr14 10374654 10379098 -
Gso Gso14g0885 Chr14 10374654 10379098 -
Phco Phco2g00475 Chr2 4273044 4275673 -
Psa Psa6g0606 Chr6 20401594 20405329 -
Pte Pte3g01188 Chr3 10204191 10204802 -
Pumo Pumo9g00494 Chr9 7969388 7973349 -
Pvu Pvu1g0417 Chr1 4172938 4175634 -
Rops Rops9g01962 Chr9 36228023 36231168 -
Seca Seca8g03240 Chr8 92843468 92847973 -
Ssu Ssu5g0465 Chr5 9816129 9819794 -
Sto Sto9g3368 Chr9 33498230 33500027 +
Vian Vian7g00530 Chr7 12882568 12885034 +
Vifa Vifa3g04598 Chr3 1317289181 1317291632 -
Vimu Vimu1g02759 Chr1 39841765 39844181 +
Viun Viun8g00605 Chr8 4611350 4614076 -
Vivi Vivi4g05191 Chr4 183780414 183782666 +
Vra Vra6g1681 Chr6 32851275 32854123 +
Vvi Vvi4g0659 Chr4 6805248 6812659 +
Acco Acco05g2170 Chr05 37823846 37828415 -
Accr Accr3g00831 Chr3 9239452 9242804 +
Adu Adu06g02923 Chr06 106917481 106921029 +
Aev Aev07g1314 Chr07 11856619 11859707 -
Aev Aev08g0540 Chr08 3053790 3056072 -
Ahy Ahy16g3227 Chr16 148878130 148881689 +
Ahy Ahy20g2096 Chr20 118012727 118014615 +
Aip Aip06g03471 Chr06 131885664 131889952 +
Aip Aip10g02469 Chr10 110655341 110657196 +
Alju Alju07g2134 Chr07 47481163 47490497 -
Amo Amo16g3770 Chr16 149127096 149130657 +
Amo Amo20g2711 Chr20 124979635 124981554 +
Apr Apr9g0220 Chr9 2877256 2881293 -
Arst Arst10g02385 Chr10 84930921 84932608 +
Bach Bach3g02024 Chr3 27879619 27882354 +
Bisa Bisa05g1839 Chr05 34557340 34560380 -
Bva Bva10g00455 Chr10 4650885 4653852 +
Bva Bva06g02320 Chr06 15016854 15019843 -
Car Car04g03224 Chr04 60646333 60651735 -
Cca Cca05g00776 Chr05 21526335 21530435 +
Dere Dere05g1897 Chr05 28880212 28886539 -
Dod Dod08g1773 Chr08 42196085 42203658 +
Dod Dod09g1873 Chr09 40346894 40350005 +
Enph Enph7g0895 Chr7 14753977 14760492 -
Glsi Glsi10g0622 Chr10 3910561 3914895 -
Gma Gma14g00925 Chr14 10423861 10429313 -
Gma Gma17g02138 Chr17 38895219 38899820 +
Gma Gma04g00557 Chr04 5007776 5010293 -
Gso Gso14g0884 Chr14 10360668 10364645 -
Gso Gso14g0884 Chr14 10360668 10364645 -
Gso Gso14g0884 Chr14 10360668 10364645 -
Lele Lele25g0698 Chr25 4402858 4405561 +
Lele Lele26g0703 Chr26 4478787 4482267 +
Lele Lele27g1394 Chr27 20286688 20289248 -
Mibi Mibi08g1878 Chr08 35631249 35633890 -
Phco Phco2g00472 Chr2 4257664 4264618 -
Prci Prci2g1110 Chr2 8236588 8240877 +
Psa Psa6g0603 Chr6 20362606 20367568 +
Pumo Pumo9g00493 Chr9 7947100 7951292 -
Pvu Pvu1g0416 Chr1 4161321 4168217 -
Seca Seca8g03237 Chr8 92775652 92779569 -
Spst Spst8g01876 Chr8 23382800 23386859 -
Ssu Ssu5g0464 Chr5 9806518 9809521 -
Sto Sto5g0929 Chr5 6261798 6264794 +
Vifa Vifa3g04597 Chr3 1317277360 1317286211 -
Viun Viun8g00603 Chr8 4561395 4568562 -
Vivi Vivi4g05194 Chr4 183805434 183809609 -
Vra Vra6g1682 Chr6 32857264 32865781 +
Vvi Vvi4g0660 Chr4 6815127 6843942 +
Vvi Vvi4g0661 Chr4 6845035 6856294 -
Adu Adu10g01879 Chr10 86015978 86019323 -
Aev Aev08g0539 Chr08 3050036 3053271 +
Ahy Ahy20g2097 Chr20 118014450 118018604 -
Aip Aip10g02470 Chr10 110657426 110660975 -
Amo Amo20g2712 Chr20 124981534 124985478 -
Arst Arst10g02386 Chr10 84932655 84936797 -
Bach Bach12g00438 Chr12 2962303 2966956 +
Bva Bva06g02319 Chr06 15011268 15016378 +
Gma Gma04g00556 Chr04 5002045 5007053 +
Gma Gma06g00545 Chr06 4818489 4824012 +
Lal Lal4g0195 Chr4 1217126 1221962 +
Lapu Lapu9g01956 Chr9 34425162 34430693 -
Lja Lja1g3952 Chr1 50124220 50129808 -
Phco Phco7g00676 Chr7 5148040 5152862 +
Pste Pste2g01506 Chr2 16263710 16269423 +
Pvu Pvu9g0886 Chr9 13552936 13558212 +
Sto Sto5g0930 Chr5 6267763 6277524 -
Vimu Vimu10g03046 Chr10 41361090 41366057 -
Vvi Vvi4g0662 Chr4 6870931 6884500 -
Aev Aev07g1310 Chr07 11815263 11821598 +
Aev Aev08g0538 Chr08 3046881 3049162 +
Ahy Ahy16g3236 Chr16 148931928 148936140 -
Ahy Ahy20g2098 Chr20 118034800 118039257 -
Aip Aip06g03478 Chr06 131934237 131938246 -
Aip Aip10g02471 Chr10 110678364 110681208 -
Amo Amo16g3776 Chr16 149183707 149187687 -
Amo Amo20g2713 Chr20 125001671 125004508 -
Apr Apr9g0221 Chr9 2882026 2885663 -
Car Car04g03225 Chr04 60652855 60655774 -
Dod Dod08g1780 Chr08 42276566 42281176 -
Dod Dod09g1874 Chr09 40358155 40361430 -
Gma Gma17g02137 Chr17 38881590 38888191 +
Lal Lal21g0301 Chr21 1992881 1997691 +
Lan Lan3g1116 Chr3 23503282 23507381 -
Lja Lja1g3954 Chr1 50197579 50200967 -
Psa Psa6g0601 Chr6 20344974 20347848 +
Sto Sto5g0935 Chr5 6296012 6298883 -
Vvi Vvi4g0663 Chr4 6893924 6896204 -
Aev Aev07g1309 Chr07 11805932 11808752 +
Ahy Ahy16g3237 Chr16 148937066 148941349 -
Aip Aip06g03479 Chr06 131939664 131943604 -
Amo Amo16g3777 Chr16 149189561 149193298 -
Dod Dod08g1781 Chr08 42289749 42294034 -
Lal Lal25g1018 Chr25 13501907 13506046 -
Seca Seca8g03237 Chr8 92775652 92779569 -