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
Vvi17g1003 . . . . . Adu03g02109 Aed10g0843 . . Aev04g1505 . Ahy13g0187 . Aip03g00194 . . . Amo13g0110 . . . Arst3g02794 . . . . Bva06g01461 . . Car05g01655 Cca03g00366 . . . . . . . . . . Gma04g01865 . . . . . . . . . . . Lal21g0762 . . . . . . . . . . . . . . . . . . . . . Mal2g2482 . Mepo3g05763 . Mesa9g03147 . . . Mtr3g2380 . Phac9g02832 . Phco7g02007 . . . Psa5g3290 . Pste2g00462 . . . . . Pumo10g01922 . Pvu9g1749 . Rops10g00762 . Seca4g02903 . Spst9g02078 Ssu1g2331 . Sto3g1300 . . Tpr7g1199 . . . Tsu03g02527 . Vian4g00939 . Vifa2g01922 . Vimu10g01388 . Viun9g01423 . Vivi3g04581 Vra5g0685 .
Vvi17g1004 . . . . . Adu03g02108 Aed10g0842 . . Aev04g1504 . Ahy13g0188 . Aip03g00195 . . . Amo13g0111 Apr1g0262 . . Arst3g02792 . Bach2g02223 . . Bva06g01462 . . Car05g01654 Cca03g00365 . . . . . . . . . Gma06g01546 Gma04g01866 . . Gso6g1463 Gso6g1463 . . . . . . Lal4g0746 Lal21g0763 . . . . . . . Lapu9g00829 . Lasa5g01664 . . . . . . . . Lja1g5265 . . Mal2g2483 . Mepo3g05762 . Mesa9g03145 . . . Mtr3g2379 . Phac9g02830 . Phco7g02006 . . . Psa5g3291 . Pste2g00459 . . . . . Pumo10g01921 . Pvu9g1748 . Rops10g00763 . Seca4g02901 . Spst9g02079 Ssu1g2332 . Sto3g1299 . . Tpr7g1198 . . . Tsu03g02526 . Vian4g00940 . Vifa2g01921 . Vimu10g01391 . Viun9g01429 . Vivi3g04580 Vra5g0684 .
Vvi17g1005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2377 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1006 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1007 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1008 . Acco13g0524 . Accr12g00465 . Adu03g02107 Aed10g0841 . . Aev04g1503 . Ahy13g0189 . Aip03g00196 . Alju13g1655 . Amo13g0112 Apr1g0263 . . Arst3g02791 . . . Bisa02g1186 . Bva05g00288 . Car05g01653 Cca03g00364 . . Dere14g0686 . . . Enph5g0426 . Glsi13g1379 Gma06g01545 Gma04g01867 . . Gso6g1462 Gso6g1462 . . . . . . Lal4g0745 . . . . . . . . Lapu9g00828 . . . . . . Lele17g1116 Lele18g0424 Lele19g0443 . Lja1g5264 . . . . . . . . Mibi13g0517 . . . . . Phco7g02005 . Prci9g1773 . . . Pste2g00456 . . . . . Pumo10g01920 . Pvu9g1747 . Rops10g00764 . Seca4g02900 . . Ssu1g2333 . . Sto12g0698 . . . . . . . Vian4g00941 . . . Vimu10g01395 . Viun9g01430 . . Vra5g0683 .
Vvi17g1009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1010 . . . . . . . . Aev01g1930 . Ahy11g1522 Ahy13g0190 Aip01g01651 Aip03g00197 . . Amo11g1568 Amo13g0113 . . . . . . . . . Bva05g00287 . . . . . . Dod05g1526 . . . . . . . . . . . . . . Lal7g0891 . . . . . . . . . . . . . . . . . . . . . . . Lja4g2371 Mal5g4017 . . . . . . . Mtr4g3729 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto12g0695 Tpr5g2774 . . . Tsu04g02534 . . . . . . . . . . . . .
Vvi17g1011 . . . . . Adu03g02105 Aed10g0840 . . Aev04g1502 . Ahy13g0191 . Aip03g00198 . . . Amo13g0114 Apr1g0264 . . Arst3g02789 . Bach2g02224 . . Bva06g01463 . . Car05g01652 Cca03g00363 . . . . . . . . . Gma06g01544 Gma04g01868 . . Gso6g1461 Gso6g1461 . . . . . Lal17g0871 . . . . . . . . . Lapu9g00827 . Lasa5g01666 . . . . . . . . Lja1g5263 . . Mal2g2484 . Mepo3g05761 . Mesa9g03144 . . . Mtr3g2378 . Phac9g02828 . Phco7g02004 . . . Psa5g3293 . Pste2g00451 . . . . . Pumo10g01918 . Pvu9g1746 . Rops10g00767 . Seca4g02899 . Spst9g02080 Ssu1g2335 . Sto3g1298 . . . . . . . . Vian4g00942 . Vifa2g01917 . Vimu10g01397 . Viun9g01432 . Vivi3g04579 Vra5g0682 .
Vvi17g1012 . Acco13g0522 . . . Adu03g02104 . . . Aev04g1501 . . . Aip03g00199 . Alju13g1657 . . Apr1g0265 . . Arst3g02788 . . . Bisa02g1183 . Bva05g00286 . Car05g01651 . . . Dere14g0688 . . . Enph5g0424 . Glsi13g1381 Gma06g01542 Gma04g01869 . . Gso6g1460 Gso6g1460 . . . . . Lal17g0870 . . . . . . . . . Lapu9g00826 . . . . . . Lele17g1118 Lele18g0422 Lele19g0441 Lele20g1010 Lja1g5260 . . . . . . . . Mibi13g0515 . . . . . Phco7g02003 . . . . . Pste2g00447 . . . . . . . Pvu9g1745 . . . . . Spst9g02081 . . . Sto12g0694 . . . . . . . . . . . Vimu10g01959 . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g1003 Chr17 12252058 12257023 +
Adu Adu03g02109 Chr03 41660562 41664846 -
Aed Aed10g0843 Chr10 7015927 7019598 -
Aev Aev04g1505 Chr04 10807581 10810962 -
Ahy Ahy13g0187 Chr13 2015623 2020807 +
Aip Aip03g00194 Chr03 1983022 1988652 +
Amo Amo13g0110 Chr13 1627577 1632571 +
Arst Arst3g02794 Chr3 41951891 41956641 -
Bva Bva06g01461 Chr06 10667624 10670808 +
Car Car05g01655 Chr05 61317979 61321607 -
Cca Cca03g00366 Chr03 5632568 5636621 -
Gma Gma04g01865 Chr04 48877468 48883363 +
Lal Lal21g0762 Chr21 6316247 6322224 -
Mal Mal2g2482 Chr2 31431335 31435567 +
Mepo Mepo3g05763 Chr3 71783071 71787524 -
Mesa Mesa9g03147 Chr9 61712016 61715145 +
Mtr Mtr3g2380 Chr3 37630828 37634967 -
Phac Phac9g02832 Chr9 27032439 27036623 -
Phco Phco7g02007 Chr7 34303830 34307365 -
Psa Psa5g3290 Chr5 256927088 256931944 +
Pste Pste2g00462 Chr2 4224919 4229838 -
Pumo Pumo10g01922 Chr10 25342042 25345360 -
Pvu Pvu9g1749 Chr9 24691620 24695594 -
Rops Rops10g00762 Chr10 18098485 18103699 +
Seca Seca4g02903 Chr4 49984849 49987310 -
Spst Spst9g02078 Chr9 42389158 42394522 +
Ssu Ssu1g2331 Chr1 65524541 65528474 +
Sto Sto3g1300 Chr3 9407072 9411293 -
Tpr Tpr7g1199 Chr7 12125034 12129982 -
Tsu Tsu03g02527 Chr03 30152093 30155541 -
Vian Vian4g00939 Chr4 13647091 13650318 +
Vifa Vifa2g01922 Chr2 497592819 497595094 -
Vimu Vimu10g01388 Chr10 14720334 14723552 +
Viun Viun9g01423 Chr9 15697721 15701481 +
Vivi Vivi3g04581 Chr3 82993963 82996434 -
Vra Vra5g0685 Chr5 10961474 10964901 -
Vvi Vvi17g1004 Chr17 12257609 12259195 -
Adu Adu03g02108 Chr03 41657156 41659543 +
Aed Aed10g0842 Chr10 7012964 7016024 +
Aev Aev04g1504 Chr04 10805299 10806960 +
Ahy Ahy13g0188 Chr13 2021199 2024230 -
Aip Aip03g00195 Chr03 1989155 1991933 -
Amo Amo13g0111 Chr13 1632864 1635361 -
Apr Apr1g0262 Chr1 2982505 2984118 -
Arst Arst3g02792 Chr3 41948498 41950977 +
Bach Bach2g02223 Chr2 29042235 29043863 -
Bva Bva06g01462 Chr06 10671003 10672631 -
Car Car05g01654 Chr05 61309931 61311965 +
Cca Cca03g00365 Chr03 5623304 5625435 +
Gma Gma06g01546 Chr06 14920139 14922526 +
Gma Gma04g01866 Chr04 48884565 48887001 -
Gso Gso6g1463 Chr6 14625713 14628398 +
Gso Gso6g1463 Chr6 14625713 14628398 +
Lal Lal4g0746 Chr4 6236826 6242607 +
Lal Lal21g0763 Chr21 6328812 6331815 -
Lapu Lapu9g00829 Chr9 12134405 12136242 +
Lasa Lasa5g01664 Chr5 393712678 393714270 -
Lja Lja1g5265 Chr1 79656308 79658396 +
Mal Mal2g2483 Chr2 31436192 31437808 -
Mepo Mepo3g05762 Chr3 71780816 71782791 +
Mesa Mesa9g03145 Chr9 61684576 61686192 +
Mtr Mtr3g2379 Chr3 37628548 37630634 +
Phac Phac9g02830 Chr9 27024386 27026508 +
Phco Phco7g02006 Chr7 34297812 34301285 +
Psa Psa5g3291 Chr5 256930196 256931752 -
Pste Pste2g00459 Chr2 4191649 4193536 +
Pumo Pumo10g01921 Chr10 25337797 25339967 +
Pvu Pvu9g1748 Chr9 24685784 24687907 +
Rops Rops10g00763 Chr10 18105052 18106680 -
Seca Seca4g02901 Chr4 49976543 49978117 +
Spst Spst9g02079 Chr9 42396274 42398134 -
Ssu Ssu1g2332 Chr1 65529612 65531240 -
Sto Sto3g1299 Chr3 9404593 9406203 +
Tpr Tpr7g1198 Chr7 12118541 12124628 +
Tsu Tsu03g02526 Chr03 30149797 30151410 +
Vian Vian4g00940 Chr4 13660596 13662197 -
Vifa Vifa2g01921 Chr2 497590835 497592430 +
Vimu Vimu10g01391 Chr10 14742079 14743620 -
Viun Viun9g01429 Chr9 15905901 15907850 -
Vivi Vivi3g04580 Chr3 82992000 82993891 +
Vra Vra5g0684 Chr5 10947325 10949281 +
Vvi Vvi17g1005 Chr17 12269629 12273319 +
Lja Lja2g2377 Chr2 28820067 28824509 -
Vvi Vvi17g1006 Chr17 12285890 12287854 +
Vvi Vvi17g1007 Chr17 12311238 12313131 +
Vvi Vvi17g1008 Chr17 12313948 12323972 -
Acco Acco13g0524 Chr13 3779865 3787329 +
Accr Accr12g00465 Chr12 4311503 4319790 +
Adu Adu03g02107 Chr03 41643097 41650977 +
Aed Aed10g0841 Chr10 7000918 7009932 +
Aev Aev04g1503 Chr04 10790732 10797941 +
Ahy Ahy13g0189 Chr13 2028763 2038583 -
Aip Aip03g00196 Chr03 1997884 2005955 -
Alju Alju13g1655 Chr13 34666115 34673889 -
Amo Amo13g0112 Chr13 1639728 1649378 -
Apr Apr1g0263 Chr1 2988775 2999860 -
Arst Arst3g02791 Chr3 41934389 41942619 +
Bisa Bisa02g1186 Chr02 19949264 19959093 +
Bva Bva05g00288 Chr05 1402441 1409683 +
Car Car05g01653 Chr05 61292506 61302253 +
Cca Cca03g00364 Chr03 5597145 5611104 +
Dere Dere14g0686 Chr14 7246346 7255285 -
Enph Enph5g0426 Chr5 3372623 3383909 +
Glsi Glsi13g1379 Chr13 30949971 30959261 -
Gma Gma06g01545 Chr06 14894130 14912065 +
Gma Gma04g01867 Chr04 48895672 48904291 -
Gso Gso6g1462 Chr6 14600689 14619012 +
Gso Gso6g1462 Chr6 14600689 14619012 +
Lal Lal4g0745 Chr4 6215718 6225709 +
Lapu Lapu9g00828 Chr9 12110358 12125459 +
Lele Lele17g1116 Chr17 21453747 21463215 -
Lele Lele18g0424 Chr18 2484282 2492065 +
Lele Lele19g0443 Chr19 2529968 2542110 +
Lja Lja1g5264 Chr1 79623081 79633230 +
Mibi Mibi13g0517 Chr13 7057703 7064681 +
Phco Phco7g02005 Chr7 34279498 34290139 +
Prci Prci9g1773 Chr9 29661507 29671400 -
Pste Pste2g00456 Chr2 4161924 4173534 +
Pumo Pumo10g01920 Chr10 25316545 25322499 +
Pvu Pvu9g1747 Chr9 24668427 24679278 +
Rops Rops10g00764 Chr10 18112044 18123123 -
Seca Seca4g02900 Chr4 49957683 49968006 +
Ssu Ssu1g2333 Chr1 65536544 65547391 -
Sto Sto12g0698 Chr12 4427622 4435738 +
Vian Vian4g00941 Chr4 13674827 13690001 -
Vimu Vimu10g01395 Chr10 14758732 14763982 -
Viun Viun9g01430 Chr9 15916645 15931936 -
Vra Vra5g0683 Chr5 10921708 10937897 +
Vvi Vvi17g1009 Chr17 12354547 12355203 -
Vvi Vvi17g1010 Chr17 12367028 12375117 +
Aev Aev01g1930 Chr01 24217092 24219925 -
Ahy Ahy11g1522 Chr11 67084592 67102430 +
Ahy Ahy13g0190 Chr13 2039596 2042499 +
Aip Aip01g01651 Chr01 62601100 62605763 +
Aip Aip03g00197 Chr03 2006429 2009399 +
Amo Amo11g1568 Chr11 65968642 65973609 +
Amo Amo13g0113 Chr13 1651232 1654202 +
Bva Bva05g00287 Chr05 1396172 1400532 -
Dod Dod05g1526 Chr05 40168436 40171458 -
Lal Lal7g0891 Chr7 15403151 15407043 -
Lja Lja4g2371 Chr4 26536044 26540467 +
Mal Mal5g4017 Chr5 109891114 109894309 -
Mtr Mtr4g3729 Chr4 51025638 51031011 -
Sto Sto12g0695 Chr12 4414062 4417059 -
Tpr Tpr5g2774 Chr5 49853292 49857530 -
Tsu Tsu04g02534 Chr04 28567345 28571860 -
Vvi Vvi17g1011 Chr17 12376735 12378241 -
Adu Adu03g02105 Chr03 41636428 41638195 +
Aed Aed10g0840 Chr10 6998049 7000061 +
Aev Aev04g1502 Chr04 10788252 10789900 +
Ahy Ahy13g0191 Chr13 2042463 2044409 -
Aip Aip03g00198 Chr03 2008900 2011101 -
Amo Amo13g0114 Chr13 1654300 1655923 -
Apr Apr1g0264 Chr1 3001135 3003324 -
Arst Arst3g02789 Chr3 41927822 41929541 +
Bach Bach2g02224 Chr2 29047565 29049066 -
Bva Bva06g01463 Chr06 10675665 10677428 -
Car Car05g01652 Chr05 61289464 61291767 +
Cca Cca03g00363 Chr03 5585088 5593557 +
Gma Gma06g01544 Chr06 14889297 14890568 +
Gma Gma04g01868 Chr04 48908520 48910426 -
Gso Gso6g1461 Chr6 14596636 14598928 +
Gso Gso6g1461 Chr6 14596636 14598928 +
Lal Lal17g0871 Chr17 6635419 6637920 +
Lapu Lapu9g00827 Chr9 12089366 12092048 +
Lasa Lasa5g01666 Chr5 393850558 393852336 -
Lja Lja1g5263 Chr1 79595122 79597428 +
Mal Mal2g2484 Chr2 31450567 31452363 -
Mepo Mepo3g05761 Chr3 71765716 71767748 +
Mesa Mesa9g03144 Chr9 61663047 61664825 +
Mtr Mtr3g2378 Chr3 37613410 37615502 +
Phac Phac9g02828 Chr9 27001465 27003361 +
Phco Phco7g02004 Chr7 34253162 34254863 +
Psa Psa5g3293 Chr5 256982030 256985548 -
Pste Pste2g00451 Chr2 4104212 4106371 -
Pumo Pumo10g01918 Chr10 25305290 25309836 +
Pvu Pvu9g1746 Chr9 24661078 24663076 +
Rops Rops10g00767 Chr10 18132745 18133218 -
Seca Seca4g02899 Chr4 49944181 49956949 +
Spst Spst9g02080 Chr9 42469415 42471391 -
Ssu Ssu1g2335 Chr1 65559081 65563432 -
Sto Sto3g1298 Chr3 9391495 9393456 +
Vian Vian4g00942 Chr4 13692735 13694631 -
Vifa Vifa2g01917 Chr2 496747948 496749699 +
Vimu Vimu10g01397 Chr10 14785791 14787662 -
Viun Viun9g01432 Chr9 15936888 15938906 -
Vivi Vivi3g04579 Chr3 82953057 82955573 +
Vra Vra5g0682 Chr5 10903367 10905708 +
Vvi Vvi17g1012 Chr17 12380133 12388598 -
Acco Acco13g0522 Chr13 3769178 3773976 +
Adu Adu03g02104 Chr03 41631838 41635364 +
Aev Aev04g1501 Chr04 10782765 10786706 +
Aip Aip03g00199 Chr03 2012177 2014165 -
Alju Alju13g1657 Chr13 34685746 34690980 -
Apr Apr1g0265 Chr1 3016021 3020626 -
Arst Arst3g02788 Chr3 41923188 41927002 +
Bisa Bisa02g1183 Chr02 19891043 19895755 +
Bva Bva05g00286 Chr05 1391435 1395168 +
Car Car05g01651 Chr05 61275183 61282081 +
Dere Dere14g0688 Chr14 7274676 7279052 -
Enph Enph5g0424 Chr5 3362380 3366979 +
Glsi Glsi13g1381 Chr13 30967352 30972100 -
Gma Gma06g01542 Chr06 14882375 14887601 +
Gma Gma04g01869 Chr04 48911686 48916922 -
Gso Gso6g1460 Chr6 14590622 14595821 +
Gso Gso6g1460 Chr6 14590622 14595821 +
Lal Lal17g0870 Chr17 6628949 6634894 +
Lapu Lapu9g00826 Chr9 12082659 12087418 +
Lele Lele17g1118 Chr17 21468471 21474272 -
Lele Lele18g0422 Chr18 2472566 2478392 +
Lele Lele19g0441 Chr19 2514150 2518440 +
Lele Lele20g1010 Chr20 16019019 16024043 -
Lja Lja1g5260 Chr1 79576799 79582396 +
Mibi Mibi13g0515 Chr13 7046159 7050688 +
Phco Phco7g02003 Chr7 34237089 34242047 +
Pste Pste2g00447 Chr2 4018512 4023586 +
Pvu Pvu9g1745 Chr9 24650300 24655196 +
Spst Spst9g02081 Chr9 42474644 42478984 -
Sto Sto12g0694 Chr12 4408098 4412275 +
Vimu Vimu10g01959 Chr10 28443166 28450334 -