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
Vvi19g1410 . . . . . . . . . . . . . . . . . . Apr2g0680 . . . Bach13g00577 . . . Bva09g01163 Bva09g01163 . . . . Dere08g0078 . . . . . . . . Gma15g02506 . . . . . . . . . Lal20g0510 . Lal11g1549 . . . . . . Lapu5g01285 . Lasa1g04556 . . . Lele11g0415 . . . . . Lja3g3984 . . . . . . . . . . . Phac9g03748 . . . Prci7g1431 . . . . . . . . . Pumo4g02877 . Pvu5g0497 . Rops7g01807 . Seca4g06805 . Spst5g01720 . . . . Sto7g0006 . . . . . . Vian11g01381 . Vifa1g04432 . Vimu4g01591 . Viun1g00852 . . . . .
Vvi19g1411 . Acco08g2216 . Accr1g02639 . . Aed1g0252 . . . . . . . . Alju10g2200 . . Apr2g0682 Apr5g0805 Arst7g01934 Arst7g01934 Bach13g00576 Bach9g01048 . Bisa02g2136 Bva09g01164 Bva07g01399 . . Cca10g01466 . . Dere07g2094 . . . Enph8g1220 . Glsi04g2139 Gma08g01499 Gma15g02049 . . Gso8g1354 Gso8g1354 . . . . . Lal20g0512 . Lal11g1550 . . . . . . Lapu5g01287 . Lasa1g04547 . . . . . . Lele30g0076 Lele31g0088 Lele32g1302 Lja3g3985 . Mal4g2040 Mal5g2121 Mepo6g02567 Mepo1g03182 Mesa5g01998 Mesa29g03601 . Mibi07g2040 Mtr2g2193 Mtr8g1450 . . Phco10g00488 Phco9g01964 . . Psa1g0357 . Pste3g01746 . Pte17g00045 Pte15g01522 . . Pumo4g02874 Pumo10g02548 Pvu5g0493 Pvu11g1863 Rops7g01814 Rops3g02265 Seca4g06811 Seca4g06811 Spst5g01723 Spst11g00433 Ssu8g1495 . Sto4g1869 . Tpr7g3125 Tpr7g1441 Trre11g03494 Trre15g01697 Tsu02g03746 Tsu08g01644 Vian11g01379 Vian5g00473 . . Vimu4g01587 Vimu5g00889 Viun1g00861 . . Vivi7g00125 Vra5g2251 .
Vvi19g1412 . . . . Adu07g01493 . Aed1g0251 . . . Ahy18g1941 . Aip08g02220 . . . Amo18g2624 . Apr2g0683 . . . Bach13g00575 . . . Bva09g01165 Bva07g01398 . . Cca10g01467 . . . Dod10g0619 . . . . . Gma08g01498 Gma15g02510 . . Gso8g1353 Gso8g1353 . . . . . Lal20g0514 . . . . . . . . Lapu5g01288 . Lasa1g04544 . . . . . . . . . Lja3g3986 . Mal4g2044 . Mepo6g02563 . Mesa5g02002 . . . Mtr2g2191 . . . Phco10g00487 . . . Psa1g0359 . Pste3g01744 . Pte17g00263 Pte15g01592 . . Pumo4g02873 . Pvu5g0492 . Rops7g01819 . Seca4g06814 . Spst5g01725 . Ssu8g1496 . Sto4g1893 . Tpr7g3124 . Trre11g03497 . Tsu06g01412 . Vian11g01378 . Vifa1g04408 . Vimu4g01586 . Viun1g00862 . . . Vra5g2250 .
Vvi19g1413 . . . . . . . . . . . . . . . . . . . Apr5g0807 . . . . . . Bva09g01168 Bva07g01397 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1414 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g01172 Bva07g01395 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr8g1448 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g1442 . . . Tsu08g01639 . . . . . . . . . . . .
Vvi19g1415 . . . . . . Aed1g0249 . . . Ahy18g1945 . Aip08g02227 . . . . . Apr2g0684 . . . . . . . Bva09g01174 Bva07g01394 . . Cca10g01477 . . . Dod10g0610 . . . . . Gma08g01496 Gma15g02514 . . Gso8g1352 Gso8g1352 . . . . . Lal20g0515 . . . . . . . . . . . . . . . . . . . . Lja3g3988 . Mal4g2047 . . . . . . . Mtr2g2188 . . . . . . . Psa1g0360 . . . . . . . . . . . . . . . . . Ssu8g1498 . . . Tpr7g3121 . . . Tsu06g01419 . . . . . . . . . . . Vra5g2249 .
Vvi19g1416 . . . . . . Aed1g0248 . Aev10g0677 . Ahy18g1947 . Aip08g02236 . . . Amo18g2639 . Apr2g0685 . . . . . . . Bva09g01175 Bva07g01393 . . Cca10g01478 . . . Dod10g0609 . . . . . Gma08g01495 Gma15g02515 . . Gso8g1351 Gso8g1351 . . . . . Lal20g0516 . . . . . . . . . . . . . . . . . . . . Lja3g3991 . Mal4g2048 . . . . . . . Mtr2g2186 . . . . . . . Psa1g0361 . . . . . . . . . . . . . . . . . Ssu8g1499 . Sto4g1899 Sto7g0007 Tpr7g3120 . . . Tsu06g01420 . . . . . . . . . . . Vra5g2248 .
Vvi19g1417 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1419 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Phac Phac9g03748 Chr9 36523379 36529547 -
Adu Adu07g01493 Chr07 32231825 32236205 +
Bva Bva07g01393 Chr07 14292071 14295363 +
Vvi Vvi19g1410 Chr19 23355570 23383396 +
Apr Apr2g0680 Chr2 8304662 8326495 +
Bach Bach13g00577 Chr13 11183902 11192636 -
Bva Bva09g01163 Chr09 6195093 6204361 +
Bva Bva09g01163 Chr09 6195093 6204361 +
Dere Dere08g0078 Chr08 1886799 1904159 -
Gma Gma15g02506 Chr15 52730859 52748352 +
Lal Lal20g0510 Chr20 4351202 4363215 +
Lal Lal11g1549 Chr11 18586702 18599321 +
Lapu Lapu5g01285 Chr5 25686592 25705674 +
Lasa Lasa1g04556 Chr1 753803800 753818381 +
Lele Lele11g0415 Chr11 3970206 3984217 -
Lja Lja3g3984 Chr3 78638755 78653239 +
Phac Phac9g03748 Chr9 36523379 36529547 -
Prci Prci7g1431 Chr7 30222491 30235173 -
Pumo Pumo4g02877 Chr4 55043634 55058109 -
Pvu Pvu5g0497 Chr5 5501199 5515494 -
Rops Rops7g01807 Chr7 28614100 28629398 +
Seca Seca4g06805 Chr4 141892372 141904555 +
Spst Spst5g01720 Chr5 52592327 52605897 +
Sto Sto7g0006 Chr7 74613 80941 +
Vian Vian11g01381 Chr11 23081260 23107897 -
Vifa Vifa1g04432 Chr1 689990209 690010196 +
Vimu Vimu4g01591 Chr4 17090907 17113543 -
Viun Viun1g00852 Chr1 11005601 11024387 +
Vvi Vvi19g1411 Chr19 23388302 23390037 +
Acco Acco08g2216 Chr08 37615654 37617849 -
Accr Accr1g02639 Chr1 62633820 62636679 -
Aed Aed1g0252 Chr1 4260143 4263119 +
Alju Alju10g2200 Chr10 42931936 42934007 -
Apr Apr2g0682 Chr2 8361481 8363723 -
Apr Apr5g0805 Chr5 11579348 11581715 +
Arst Arst7g01934 Chr7 32300291 32302893 +
Arst Arst7g01934 Chr7 32300291 32302893 +
Bach Bach13g00576 Chr13 11175960 11177776 -
Bach Bach9g01048 Chr9 7868548 7870307 +
Bisa Bisa02g2136 Chr02 48780457 48782540 +
Bva Bva09g01164 Chr09 6210898 6212952 +
Bva Bva07g01399 Chr07 14327864 14329953 -
Cca Cca10g01466 Chr10 22741193 22743766 -
Dere Dere07g2094 Chr07 34983800 34985876 +
Enph Enph8g1220 Chr8 20383945 20386258 +
Glsi Glsi04g2139 Chr04 73222635 73224757 -
Gma Gma08g01499 Chr08 13123791 13126438 +
Gma Gma15g02049 Chr15 36699899 36702381 -
Gso Gso8g1354 Chr8 12941283 12943984 +
Gso Gso8g1354 Chr8 12941283 12943984 +
Lal Lal20g0512 Chr20 4376965 4379407 +
Lal Lal11g1550 Chr11 18604443 18606678 +
Lapu Lapu5g01287 Chr5 25733025 25735757 -
Lasa Lasa1g04547 Chr1 752701476 752703632 +
Lele Lele30g0076 Chr30 836995 838779 +
Lele Lele31g0088 Chr31 853029 854777 +
Lele Lele32g1302 Chr32 13980703 13982439 -
Lja Lja3g3985 Chr3 78672561 78675027 +
Mal Mal4g2040 Chr4 43815971 43818087 +
Mal Mal5g2121 Chr5 50015415 50017922 -
Mepo Mepo6g02567 Chr6 35288820 35291373 -
Mepo Mepo1g03182 Chr1 36491685 36494315 +
Mesa Mesa5g01998 Chr5 31546468 31548589 +
Mesa Mesa29g03601 Chr29 58411564 58414034 +
Mibi Mibi07g2040 Chr07 43130430 43132383 -
Mtr Mtr2g2193 Chr2 32917609 32920153 -
Mtr Mtr8g1450 Chr8 18084690 18087938 -
Phco Phco10g00488 Chr10 4897812 4900225 +
Phco Phco9g01964 Chr9 44504421 44507902 +
Psa Psa1g0357 Chr1 20889417 20892356 -
Pste Pste3g01746 Chr3 11281894 11284636 +
Pte Pte17g00045 Chr17 752038 754256 +
Pte Pte15g01522 Chr15 12534944 12537406 -
Pumo Pumo4g02874 Chr4 54960414 54962780 +
Pumo Pumo10g02548 Chr10 44107777 44110509 -
Pvu Pvu5g0493 Chr5 5428850 5431298 +
Pvu Pvu11g1863 Chr11 45455983 45460142 +
Rops Rops7g01814 Chr7 28810762 28812891 +
Rops Rops3g02265 Chr3 45047057 45050014 +
Seca Seca4g06811 Chr4 142180908 142183228 +
Seca Seca4g06811 Chr4 142180908 142183228 +
Spst Spst5g01723 Chr5 52660902 52664584 -
Spst Spst11g00433 Chr11 25037747 25039887 -
Ssu Ssu8g1495 Chr8 30279473 30281505 -
Sto Sto4g1869 Chr4 19401923 19404227 +
Tpr Tpr7g3125 Chr7 38712308 38715091 -
Tpr Tpr7g1441 Chr7 15794917 15797776 +
Trre Trre11g03494 Chr11 47591440 47593509 +
Trre Trre15g01697 Chr15 13590694 13593396 -
Tsu Tsu02g03746 Chr02 42385374 42387071 -
Tsu Tsu08g01644 Chr08 19612420 19615203 -
Vian Vian11g01379 Chr11 23032622 23034605 +
Vian Vian5g00473 Chr5 13033287 13036740 -
Vimu Vimu4g01587 Chr4 17051429 17053368 +
Vimu Vimu5g00889 Chr5 11999265 12000964 -
Viun Viun1g00861 Chr1 11190558 11192633 -
Vivi Vivi7g00125 Chr7 8044118 8046396 +
Vra Vra5g2251 Chr5 28706169 28708762 +
Vvi Vvi19g1412 Chr19 23399297 23401415 -
Adu Adu07g01493 Chr07 32231825 32236205 +
Aed Aed1g0251 Chr1 4244484 4248623 +
Ahy Ahy18g1941 Chr18 99750226 99754820 -
Aip Aip08g02220 Chr08 92165993 92170248 -
Amo Amo18g2624 Chr18 109490760 109495245 -
Apr Apr2g0683 Chr2 8377915 8380928 -
Bach Bach13g00575 Chr13 11159888 11162772 +
Bva Bva09g01165 Chr09 6221130 6224543 -
Bva Bva07g01398 Chr07 14317371 14320834 +
Cca Cca10g01467 Chr10 22775292 22778631 -
Dod Dod10g0619 Chr10 19615054 19618550 +
Gma Gma08g01498 Chr08 13103556 13106509 +
Gma Gma15g02510 Chr15 52821066 52824226 -
Gso Gso8g1353 Chr8 12921717 12925245 +
Gso Gso8g1353 Chr8 12921717 12925245 +
Lal Lal20g0514 Chr20 4390299 4393973 -
Lapu Lapu5g01288 Chr5 25762368 25766488 -
Lasa Lasa1g04544 Chr1 752455573 752458123 +
Lja Lja3g3986 Chr3 78682611 78687014 -
Mal Mal4g2044 Chr4 45107286 45110911 -
Mepo Mepo6g02563 Chr6 35105046 35108519 +
Mesa Mesa5g02002 Chr5 31828463 31831936 -
Mtr Mtr2g2191 Chr2 32833418 32837422 +
Phco Phco10g00487 Chr10 4863060 4866338 +
Psa Psa1g0359 Chr1 21139349 21142287 -
Pste Pste3g01744 Chr3 11255408 11259436 +
Pte Pte17g00263 Chr17 3530861 3536844 +
Pte Pte15g01592 Chr15 13555969 13558739 +
Pumo Pumo4g02873 Chr4 54942558 54944845 +
Pvu Pvu5g0492 Chr5 5389344 5392551 +
Rops Rops7g01819 Chr7 28841642 28845372 -
Seca Seca4g06814 Chr4 142294079 142297251 -
Spst Spst5g01725 Chr5 52704755 52707286 -
Ssu Ssu8g1496 Chr8 30300403 30303268 -
Sto Sto4g1893 Chr4 19826808 19830523 -
Tpr Tpr7g3124 Chr7 38690480 38695589 +
Trre Trre11g03497 Chr11 47646121 47649865 -
Tsu Tsu06g01412 Chr06 13777322 13781567 -
Vian Vian11g01378 Chr11 23004929 23007716 +
Vifa Vifa1g04408 Chr1 685951471 685953997 +
Vimu Vimu4g01586 Chr4 17023524 17026080 +
Viun Viun1g00862 Chr1 11226940 11230535 -
Vra Vra5g2250 Chr5 28668648 28671715 +
Vvi Vvi19g1413 Chr19 23412509 23414089 +
Apr Apr5g0807 Chr5 11608999 11611304 +
Bva Bva09g01168 Chr09 6244324 6245802 -
Bva Bva07g01397 Chr07 14312825 14314713 +
Vvi Vvi19g1414 Chr19 23424895 23432590 +
Bva Bva09g01172 Chr09 6264890 6266401 +
Bva Bva07g01395 Chr07 14306950 14307561 -
Mtr Mtr8g1448 Chr8 18045361 18047006 -
Tpr Tpr7g1442 Chr7 15812439 15814545 +
Tsu Tsu08g01639 Chr08 19548652 19550283 -
Vvi Vvi19g1415 Chr19 23462691 23463891 +
Aed Aed1g0249 Chr1 4213253 4215202 -
Ahy Ahy18g1945 Chr18 100599051 100601847 +
Aip Aip08g02227 Chr08 92887733 92895285 +
Apr Apr2g0684 Chr2 8458128 8467731 +
Bva Bva09g01174 Chr09 6276582 6278099 +
Bva Bva07g01394 Chr07 14299931 14301191 -
Cca Cca10g01477 Chr10 23113790 23115508 +
Dod Dod10g0610 Chr10 19363925 19365759 -
Gma Gma08g01496 Chr08 13070203 13072176 -
Gma Gma15g02514 Chr15 52881956 52883679 +
Gso Gso8g1352 Chr8 12890890 12892859 -
Gso Gso8g1352 Chr8 12890890 12892859 -
Lal Lal20g0515 Chr20 4409187 4410961 +
Lja Lja3g3988 Chr3 78705793 78707454 +
Mal Mal4g2047 Chr4 45217857 45219562 +
Mtr Mtr2g2188 Chr2 32722751 32724835 -
Psa Psa1g0360 Chr1 21749487 21751275 +
Ssu Ssu8g1498 Chr8 30405527 30406234 +
Tpr Tpr7g3121 Chr7 38658714 38660944 -
Tsu Tsu06g01419 Chr06 13925835 13927764 +
Vra Vra5g2249 Chr5 28649186 28651119 -
Vvi Vvi19g1416 Chr19 23474521 23476323 -
Aed Aed1g0248 Chr1 4207489 4209982 +
Aev Aev10g0677 Chr10 7973799 7977712 +
Ahy Ahy18g1947 Chr18 101051659 101055914 +
Aip Aip08g02236 Chr08 93314797 93318974 +
Amo Amo18g2639 Chr18 110325813 110329904 +
Apr Apr2g0685 Chr2 8489092 8493023 -
Bva Bva09g01175 Chr09 6279977 6284123 -
Bva Bva07g01393 Chr07 14292071 14295363 +
Cca Cca10g01478 Chr10 23174656 23178545 +
Dod Dod10g0609 Chr10 19338802 19342834 +
Gma Gma08g01495 Chr08 13055948 13060218 +
Gma Gma15g02515 Chr15 52889634 52893838 -
Gso Gso8g1351 Chr8 12876607 12881163 +
Gso Gso8g1351 Chr8 12876607 12881163 +
Lal Lal20g0516 Chr20 4412300 4416682 -
Lja Lja3g3991 Chr3 78728850 78732512 -
Mal Mal4g2048 Chr4 45244666 45249145 -
Mtr Mtr2g2186 Chr2 32692555 32696784 +
Psa Psa1g0361 Chr1 21851061 21854982 -
Ssu Ssu8g1499 Chr8 30423664 30427575 -
Sto Sto4g1899 Chr4 19903035 19906065 -
Sto Sto7g0007 Chr7 94653 98022 -
Tpr Tpr7g3120 Chr7 38651811 38656844 +
Tsu Tsu06g01420 Chr06 13950632 13955886 -
Vra Vra5g2248 Chr5 28640996 28644455 +
Vvi Vvi19g1417 Chr19 23481816 23482025 +
Vvi Vvi19g1418 Chr19 23489167 23489397 -
Vvi Vvi19g1419 Chr19 23490155 23490538 -