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
Vvi16g1259 Acco10g2598 . Accr4g00183 . Adu10g01541 . . . . . . . . . Alju08g0183 . . . Apr1g0600 . . . Bach12g01040 . Bisa09g0851 . Bva12g01878 Bva06g03048 . . . . Dere04g1289 . . . Enph1g1864 . Glsi08g0897 . . . . . . . . . Lal17g0623 . Lal21g0598 . . . Lan15g0595 . Lan15g0595 . . . Lapu9g01275 . Lasa5g03144 . Lele01g0145 Lele02g0150 Lele03g0155 Lele04g0147 . . . . Lja1g4716 . . . Mepo3g06644 . Mesa9g04199 . Mibi05g0154 . . . Phac9g01280 . Phco7g01516 . Prci15g0226 . Psa5g1680 . Pste2g03532 . . . . . Pumo10g01486 . Pvu9g0465 . Rops10g02188 . Seca4g02709 . Spst9g01554 . . . Sto9g2676 . . . Trre5g04048 . . . . . Vifa2g02958 . Vimu10g02015 . Viun9g02034 . Vivi3g02690 . . .
Vvi16g1260 Acco10g2596 . Accr4g00184 . Adu10g01530 . . . . . . . . . Alju08g0184 . . . Apr1g0601 . Arst10g01989 . Bach12g01039 . Bisa09g0852 . Bva12g01879 Bva06g03047 . . . . Dere04g1288 . . . Enph1g1862 . Glsi08g0899 . . . . . . . . . Lal17g0621 Lal4g0541 . . . . Lan15g0596 Lan15g0596 . . . . Lapu9g01276 . Lasa5g03143 . . Lele02g0152 . Lele04g0148 . . . . Lja1g4720 . . . Mepo3g06643 . Mesa9g04198 . Mibi05g0155 . . . Phac9g01281 . Phco7g01515 . Prci15g0227 . Psa5g1681 . Pste2g03531 . . . . . Pumo10g01485 . Pvu9g0466 . Rops10g02187 . Seca4g02708 . Spst9g01553 . . . Sto9g2677 Sto5g1363 . . Trre5g04046 . . . . . Vifa2g02957 . Vimu10g02017 . Viun9g02035 . Vivi3g02691 . . .
Vvi16g1261 Acco09g1789 . Accr7g00374 . Adu10g01529 . . . . . . . . . Alju08g0185 . . . Apr1g0602 . Arst10g01988 . Bach12g01038 . Bisa09g0853 . Bva12g01880 Bva06g03046 . . . . Dere04g1287 . . . Enph1g1861 . Glsi08g0900 . . . . . . . . . Lal17g0620 Lal4g0540 Lal21g0597 . . . Lan15g0597 Lan15g0597 Lan15g0597 . . . Lapu9g01277 . Lasa5g03142 . Lele01g0148 Lele02g0153 Lele03g0156 Lele44g0274 . . . . Lja1g4721 . . . Mepo3g06642 . Mesa9g04197 . Mibi05g0156 . . . Phac9g01283 . Phco7g01514 . . . Psa5g1682 . Pste2g03530 . . . . . . . Pvu9g0467 . . . . . Spst9g01552 . . . Sto9g2679 . . . . . . . . . . . Vimu10g02018 . Viun9g02036 . Vivi3g02693 . . .
Vvi16g1262 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1263 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1264 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1265 Acco10g2592 . . . Adu10g01527 . . . . . . . . . Alju08g0186 . . . Apr1g0603 . Arst10g01987 . Bach12g01037 . Bisa09g0855 . Bva12g01881 Bva06g03045 . . . . Dere04g1286 . . . . . Glsi08g0901 . . . . . . . . . Lal17g0619 . . . . . Lan15g0598 . . . . . Lapu9g01278 . Lasa5g03137 . Lele01g0149 Lele02g0154 Lele03g0158 Lele04g0150 . . . . Lja1g4725 . . . Mepo3g06640 . Mesa9g04195 . Mibi05g0157 . . . Phac9g01289 . Phco7g01512 . Prci15g0229 . Psa5g1684 . Pste2g03529 . . . . . Pumo10g01483 . Pvu9g0468 . Rops10g02185 . Seca4g02706 . Spst9g01551 . . . Sto9g2681 . . . . . . . Vian4g01288 . . . Vimu10g02019 . Viun9g02038 . Vivi3g02698 . . .
Vvi16g1266 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g03044 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1358 . . . . . . . . . . . . . . . . . .
Vvi16g1267 . . . . . . . . . . . . . . . . . . Apr1g0604 . . . . . . . . Bva06g03043 . . . . . . . . . . . . . . . . . . . . Lal17g0618 . . . . . Lan15g0599 . . . . . . . . . . . . . . . . . Lja1g4726 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1357 . . . . . . . . . . . . . . . . . .
Vvi16g1268 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g01882 Bva06g03042 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2682 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Bva Bva12g01880 Chr12 15145202 15149599 -
Lal Lal17g0620 Chr17 4425484 4429527 +
Lal Lal4g0540 Chr4 3927137 3931507 +
Sto Sto9g2679 Chr9 28893962 28898305 -
Vvi Vvi16g1259 Chr16 21222427 21223305 +
Acco Acco10g2598 Chr10 36852783 36853670 -
Accr Accr4g00183 Chr4 1822870 1823757 +
Adu Adu10g01541 Chr10 67510244 67519740 -
Alju Alju08g0183 Chr08 1405295 1411609 +
Apr Apr1g0600 Chr1 7250278 7252267 +
Bach Bach12g01040 Chr12 7320410 7321300 -
Bisa Bisa09g0851 Chr09 12330440 12333112 +
Bva Bva12g01878 Chr12 15137053 15137949 +
Bva Bva06g03048 Chr06 18888620 18890012 -
Dere Dere04g1289 Chr04 14651996 14655141 -
Enph Enph1g1864 Chr1 43523517 43524203 -
Glsi Glsi08g0897 Chr08 6669729 6670619 +
Lal Lal17g0623 Chr17 4440705 4441622 -
Lal Lal21g0598 Chr21 4504751 4505677 -
Lan Lan15g0595 Chr15 13443370 13444912 +
Lan Lan15g0595 Chr15 13443370 13444912 +
Lapu Lapu9g01275 Chr9 26749441 26750724 +
Lasa Lasa5g03144 Chr5 538224964 538225836 -
Lele Lele01g0145 Chr01 851454 852338 +
Lele Lele02g0150 Chr02 836130 836789 +
Lele Lele03g0155 Chr03 827249 828127 +
Lele Lele04g0147 Chr04 833803 834690 +
Lja Lja1g4716 Chr1 63113436 63119163 +
Mepo Mepo3g06644 Chr3 80331142 80332620 -
Mesa Mesa9g04199 Chr9 74802478 74803365 -
Mibi Mibi05g0154 Chr05 1639784 1640674 +
Phac Phac9g01280 Chr9 10127150 10130678 +
Phco Phco7g01516 Chr7 14320764 14321630 -
Prci Prci15g0226 Chr15 1531459 1532930 +
Psa Psa5g1680 Chr5 131088751 131091855 +
Pste Pste2g03532 Chr2 36905855 36906693 -
Pumo Pumo10g01486 Chr10 19730062 19731698 -
Pvu Pvu9g0465 Chr9 8695509 8696778 +
Rops Rops10g02188 Chr10 39359645 39360800 -
Seca Seca4g02709 Chr4 46477685 46478563 -
Spst Spst9g01554 Chr9 15777758 15778624 -
Sto Sto9g2676 Chr9 28882723 28883604 +
Trre Trre5g04048 Chr5 41997594 41998478 -
Vifa Vifa2g02958 Chr2 843992683 843993552 -
Vimu Vimu10g02015 Chr10 29549474 29552729 +
Viun Viun9g02034 Chr9 30210692 30212455 +
Vivi Vivi3g02690 Chr3 45004506 45006046 +
Vvi Vvi16g1260 Chr16 21228286 21228918 -
Acco Acco10g2596 Chr10 36848824 36849459 +
Accr Accr4g00184 Chr4 1827621 1828256 -
Adu Adu10g01530 Chr10 66952799 66953830 +
Alju Alju08g0184 Chr08 1414832 1415467 -
Apr Apr1g0601 Chr1 7255795 7257349 -
Arst Arst10g01989 Chr10 66102004 66102823 +
Bach Bach12g01039 Chr12 7316011 7316643 +
Bisa Bisa09g0852 Chr09 12337692 12338330 -
Bva Bva12g01879 Chr12 15141305 15141937 -
Bva Bva06g03047 Chr06 18885031 18886055 +
Dere Dere04g1288 Chr04 14643896 14644531 +
Enph Enph1g1862 Chr1 43519003 43519638 +
Glsi Glsi08g0899 Chr08 6675660 6676292 -
Lal Lal17g0621 Chr17 4433652 4434284 +
Lal Lal4g0541 Chr4 3936724 3937356 +
Lan Lan15g0596 Chr15 13457798 13458790 -
Lan Lan15g0596 Chr15 13457798 13458790 -
Lapu Lapu9g01276 Chr9 26754945 26755896 -
Lasa Lasa5g03143 Chr5 538174723 538175349 +
Lele Lele02g0152 Chr02 840652 841290 -
Lele Lele04g0148 Chr04 837777 838415 -
Lja Lja1g4720 Chr1 63389521 63390494 -
Mepo Mepo3g06643 Chr3 80321985 80323222 +
Mesa Mesa9g04198 Chr9 74793880 74794515 +
Mibi Mibi05g0155 Chr05 1645726 1646361 -
Phac Phac9g01281 Chr9 10131024 10132422 -
Phco Phco7g01515 Chr7 14315398 14316030 +
Prci Prci15g0227 Chr15 1536873 1537862 -
Psa Psa5g1681 Chr5 131097269 131098967 -
Pste Pste2g03531 Chr2 36893776 36895151 +
Pumo Pumo10g01485 Chr10 19723900 19724869 +
Pvu Pvu9g0466 Chr9 8700246 8700878 -
Rops Rops10g02187 Chr10 39352485 39353348 +
Seca Seca4g02708 Chr4 46467329 46467961 +
Spst Spst9g01553 Chr9 15755093 15755725 +
Sto Sto9g2677 Chr9 28888090 28888722 -
Sto Sto5g1363 Chr5 9315718 9316341 +
Trre Trre5g04046 Chr5 41956416 41957057 -
Vifa Vifa2g02957 Chr2 843938979 843939611 +
Vimu Vimu10g02017 Chr10 29554315 29554947 -
Viun Viun9g02035 Chr9 30216175 30217090 -
Vivi Vivi3g02691 Chr3 45013033 45013932 -
Vvi Vvi16g1261 Chr16 21231705 21237766 -
Acco Acco09g1789 Chr09 34598974 34603162 -
Accr Accr7g00374 Chr7 5030592 5034627 +
Adu Adu10g01529 Chr10 66945067 66949344 +
Alju Alju08g0185 Chr08 1419618 1423559 -
Apr Apr1g0602 Chr1 7261042 7266583 -
Arst Arst10g01988 Chr10 66094057 66098829 +
Bach Bach12g01038 Chr12 7308274 7312861 +
Bisa Bisa09g0853 Chr09 12342077 12346185 -
Bva Bva12g01880 Chr12 15145202 15149599 -
Bva Bva06g03046 Chr06 18878080 18882078 +
Dere Dere04g1287 Chr04 14635636 14640559 +
Enph Enph1g1861 Chr1 43511440 43517039 +
Glsi Glsi08g0900 Chr08 6679697 6684296 -
Lal Lal17g0620 Chr17 4425484 4429527 +
Lal Lal4g0540 Chr4 3927137 3931507 +
Lal Lal21g0597 Chr21 4497599 4501889 +
Lan Lan15g0597 Chr15 13462763 13467274 -
Lan Lan15g0597 Chr15 13462763 13467274 -
Lan Lan15g0597 Chr15 13462763 13467274 -
Lapu Lapu9g01277 Chr9 26760027 26764822 -
Lasa Lasa5g03142 Chr5 537938799 537942035 +
Lele Lele01g0148 Chr01 860352 865015 -
Lele Lele02g0153 Chr02 844555 848735 -
Lele Lele03g0156 Chr03 842192 846888 -
Lele Lele44g0274 Chr44 1985351 1990431 +
Lja Lja1g4721 Chr1 63403807 63408442 -
Mepo Mepo3g06642 Chr3 80313180 80317043 +
Mesa Mesa9g04197 Chr9 74784489 74787870 +
Mibi Mibi05g0156 Chr05 1650302 1654177 -
Phac Phac9g01283 Chr9 10136159 10141423 -
Phco Phco7g01514 Chr7 14306727 14311074 +
Psa Psa5g1682 Chr5 131131454 131135493 -
Pste Pste2g03530 Chr2 36884349 36889097 +
Pvu Pvu9g0467 Chr9 8704897 8709930 -
Spst Spst9g01552 Chr9 15746257 15750638 +
Sto Sto9g2679 Chr9 28893962 28898305 -
Vimu Vimu10g02018 Chr10 29557883 29563542 -
Viun Viun9g02036 Chr9 30220733 30225802 -
Vivi Vivi3g02693 Chr3 45052107 45055644 -
Vvi Vvi16g1262 Chr16 21243055 21243315 -
Vvi Vvi16g1263 Chr16 21243972 21244235 +
Vvi Vvi16g1264 Chr16 21244425 21244816 +
Vvi Vvi16g1265 Chr16 21255084 21256764 +
Acco Acco10g2592 Chr10 36837136 36838645 -
Adu Adu10g01527 Chr10 66817582 66819972 -
Alju Alju08g0186 Chr08 1425771 1427169 +
Apr Apr1g0603 Chr1 7278234 7280367 +
Arst Arst10g01987 Chr10 65967401 65969617 -
Bach Bach12g01037 Chr12 7300027 7301758 -
Bisa Bisa09g0855 Chr09 12376532 12378432 +
Bva Bva12g01881 Chr12 15152340 15154640 +
Bva Bva06g03045 Chr06 18871874 18873929 -
Dere Dere04g1286 Chr04 14628460 14630245 -
Glsi Glsi08g0901 Chr08 6686972 6688779 +
Lal Lal17g0619 Chr17 4418840 4421681 -
Lan Lan15g0598 Chr15 13478308 13481159 +
Lapu Lapu9g01278 Chr9 26774738 26776648 +
Lasa Lasa5g03137 Chr5 537324063 537325714 -
Lele Lele01g0149 Chr01 865069 868623 +
Lele Lele02g0154 Chr02 850860 852460 +
Lele Lele03g0158 Chr03 849614 853935 +
Lele Lele04g0150 Chr04 852869 854339 +
Lja Lja1g4725 Chr1 63684453 63688206 +
Mepo Mepo3g06640 Chr3 80293595 80295555 -
Mesa Mesa9g04195 Chr9 74763783 74765393 -
Mibi Mibi05g0157 Chr05 1656495 1657947 +
Phac Phac9g01289 Chr9 10154702 10157524 +
Phco Phco7g01512 Chr7 14287997 14289860 -
Prci Prci15g0229 Chr15 1544015 1546511 +
Psa Psa5g1684 Chr5 131193864 131196381 +
Pste Pste2g03529 Chr2 36867791 36869956 -
Pumo Pumo10g01483 Chr10 19707560 19709943 -
Pvu Pvu9g0468 Chr9 8727257 8729478 +
Rops Rops10g02185 Chr10 39315174 39317308 -
Seca Seca4g02706 Chr4 46402521 46405296 -
Spst Spst9g01551 Chr9 15711468 15713208 -
Sto Sto9g2681 Chr9 28902445 28904031 +
Vian Vian4g01288 Chr4 26069821 26071565 +
Vimu Vimu10g02019 Chr10 29592471 29594174 +
Viun Viun9g02038 Chr9 30243374 30245419 +
Vivi Vivi3g02698 Chr3 45094271 45096424 +
Vvi Vvi16g1266 Chr16 21257487 21263758 -
Bva Bva06g03044 Chr06 18867928 18871606 +
Sto Sto5g1358 Chr5 9297144 9300930 +
Vvi Vvi16g1267 Chr16 21269961 21283495 -
Apr Apr1g0604 Chr1 7280309 7284034 -
Bva Bva06g03043 Chr06 18864658 18867193 +
Lal Lal17g0618 Chr17 4416216 4419467 +
Lan Lan15g0599 Chr15 13482356 13484588 -
Lja Lja1g4726 Chr1 63697013 63699229 -
Sto Sto5g1357 Chr5 9288412 9295758 +
Vvi Vvi16g1268 Chr16 21284299 21286223 -
Bva Bva12g01882 Chr12 15158064 15158969 -
Bva Bva06g03042 Chr06 18859585 18864117 +
Sto Sto9g2682 Chr9 28907191 28908015 -