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
Vvi18g1506 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma16g01464 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2603 . . . . . . . . . . . . . . . . . .
Vvi18g1507 . . . . . . Aed7g0689 . . . Ahy19g0020 . Aip09g00090 . . . . . . . . . . . . . . . Car04g01093 . Cca08g00790 . . . . . . . . . Gma10g02119 Gma20g01594 . . Gso10g1982 Gso10g1982 . . . . . . . Lal9g0854 . . . . . . . . . . . . . . . . . . . . Mal1g2197 . . . . . . . Mtr1g3604 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu9g0030 . . Sto8g2604 Tpr1g0880 . . . Tsu01g04271 . . . . . . . . . . . Vra1g1636 .
Vvi18g1508 . . . . Adu05g03535 . . . . . . . . . . . . . . Apr6g1350 . . Bach1g00009 . . . . . . . . . . . . . . . . . . Gma06g02747 . . . . . . . . . . Lal2g1012 . . . . . . . . . Lasa1g02630 . . . . . . . . . . Lja2g2820 . . Mepo5g04188 . Mesa22g01689 . . . . . . . . . . . Psa6g4349 . Pste9g00946 . . . . . Pumo6g02312 . Pvu4g0950 . Rops5g01147 . Seca10g03548 . Spst4g03424 . . . . Sto8g2608 . . Trre11g01118 . . . Vian8g00835 . . . Vimu8g02718 . Viun4g01774 . . . . .
Vvi18g1509 . . . . . . . . . . . . . . . . . . . Apr6g1349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal2g1011 . . . . . . . . . . . . . . . . . . . . Lja2g2819 . . . . . . . . . . . . . . . . . . Pste9g00948 . . . . . . . Pvu4g0952 . . . . . Spst4g03421 . . . . Sto8g2609 . . . . . . . . . . . . . . . . . .
Vvi18g1510 . . . . Adu05g03533 . . . . . . . . . . . . . . Apr6g1347 Arst5g04534 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal1g0887 Lal2g1010 . . . . . . . . . Lasa1g02623 . . . . . . . . . Lja5g0760 Lja2g2814 . . Mepo5g04208 . . . . . . . . . . . . . . . Pste9g00949 . . Pte9g00459 . . Pumo6g02314 . Pvu4g0954 . Rops5g01137 . Seca10g03551 . . . . . . Sto8g2610 . . Trre11g01132 . . . Vian8g00838 . . . Vimu8g02714 . Viun4g01777 . . . . .
Vvi18g1511 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1512 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1513 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1514 . . . . Adu09g03096 . . . Aev09g2108 . Ahy19g2777 . Aip09g03243 . . . Amo19g3530 . . . Arst9g04150 . . . . . . . Car04g01096 . . . . . . . . . . . Gma10g02122 Gma20g01591 . . Gso10g1985 Gso10g1985 . . Lal13g0081 Lal12g0098 Lal24g0082 Lal1g0876 . . Lan20g0097 Lan20g0097 Lan20g0097 Lan20g0097 . . Lapu7g01926 . Lasa6g03933 . . . . . . . . . Lja5g0750 . Mal1g2193 . Mepo4g04125 . Mesa1g04486 . . . Mtr1g3619 . Phac7g01270 . Phco6g02322 . . . Psa6g4351 . Pste4g02522 . Pte16g00384 . . . Pumo3g01161 . Pvu7g0857 . . . Seca10g03567 . Spst10g00816 . . . . . Tpr1g0877 . Trre1g05213 . Tsu01g04274 . Vian3g00746 . Vifa3g02753 . Vimu3g02886 . Viun7g03073 . Vivi1g04565 . . .
Vvi18g1515 . . . . Adu05g03525 . . . Aev09g2109 . Ahy19g2778 . Aip09g03244 . . . . . . Apr6g1328 Arst5g04522 . Bach1g00229 . . . . . Car04g01097 . . . . . . . . . . . Gma10g02123 . Gma16g01466 . Gso10g1986 . Gso10g1986 . . . . . Lal2g1001 Lal9g0881 . . . . . . . . . . . . . . . . . . Lja5g0749 . Mal1g2192 . . . . . . . Mtr1g3620 . . . . . . . Psa6g4352 . Pste9g00966 . . Pte9g00450 . . Pumo6g02335 . Pvu4g0967 . Rops5g01130 . . . Spst4g03406 . . . . . Tpr1g0876 . . . Tsu01g04275 . . . . . Vimu8g02697 . Viun4g01795 . Vivi4g06005 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal9g0854 Chr9 6292980 6294119 -
Vvi Vvi18g1506 Chr18 18980852 18985143 -
Gma Gma16g01464 Chr16 33781347 33785268 -
Sto Sto8g2603 Chr8 18266909 18274970 -
Vvi Vvi18g1507 Chr18 18987760 19001645 -
Aed Aed7g0689 Chr7 5105720 5106408 -
Ahy Ahy19g0020 Chr19 204934 206490 -
Aip Aip09g00090 Chr09 737563 745216 -
Car Car04g01093 Chr04 11082092 11087523 +
Cca Cca08g00790 Chr08 15911942 15917967 -
Gma Gma10g02119 Chr10 48682740 48689931 +
Gma Gma20g01594 Chr20 43046133 43052897 -
Gso Gso10g1982 Chr10 46811566 46818788 +
Gso Gso10g1982 Chr10 46811566 46818788 +
Lal Lal9g0854 Chr9 6292980 6294119 -
Mal Mal1g2197 Chr1 28944424 28950688 -
Mtr Mtr1g3604 Chr1 47758687 47765414 +
Ssu Ssu9g0030 Chr9 4172075 4172743 -
Sto Sto8g2604 Chr8 18281265 18286731 -
Tpr Tpr1g0880 Chr1 7475948 7481768 -
Tsu Tsu01g04271 Chr01 50506312 50512415 +
Vra Vra1g1636 Chr1 29321351 29322856 -
Vvi Vvi18g1508 Chr18 19024068 19025935 +
Adu Adu05g03535 Chr05 107910982 107913850 +
Apr Apr6g1350 Chr6 19478530 19483492 -
Bach Bach1g00009 Chr1 124235 134197 +
Gma Gma06g02747 Chr06 51241944 51247082 -
Lal Lal2g1012 Chr2 6918162 6925225 -
Lasa Lasa1g02630 Chr1 507720148 507723632 -
Lja Lja2g2820 Chr2 44207469 44212451 -
Mepo Mepo5g04188 Chr5 53836514 53841874 +
Mesa Mesa22g01689 Chr22 36162640 36166426 +
Psa Psa6g4349 Chr6 383057967 383061995 -
Pste Pste9g00946 Chr9 5897228 5898248 +
Pumo Pumo6g02312 Chr6 45267299 45273717 +
Pvu Pvu4g0950 Chr4 20867260 20873238 +
Rops Rops5g01147 Chr5 24020556 24025751 -
Seca Seca10g03548 Chr10 65682549 65686971 +
Spst Spst4g03424 Chr4 74618571 74623947 -
Sto Sto8g2608 Chr8 18302591 18302950 +
Trre Trre11g01118 Chr11 10649925 10651226 +
Vian Vian8g00835 Chr8 18967223 18969694 +
Vimu Vimu8g02718 Chr8 38423116 38427636 -
Viun Viun4g01774 Chr4 31770952 31775937 +
Vvi Vvi18g1509 Chr18 19026978 19032208 -
Apr Apr6g1349 Chr6 19458104 19466310 +
Lal Lal2g1011 Chr2 6912912 6916871 +
Lja Lja2g2819 Chr2 44201770 44206124 +
Pste Pste9g00948 Chr9 5912118 5913330 -
Pvu Pvu4g0952 Chr4 20889373 20891968 -
Spst Spst4g03421 Chr4 74595822 74604067 +
Sto Sto8g2609 Chr8 18307401 18311071 -
Vvi Vvi18g1510 Chr18 19035020 19046829 -
Adu Adu05g03533 Chr05 107902402 107906436 +
Apr Apr6g1347 Chr6 19427942 19438355 +
Arst Arst5g04534 Chr5 106580769 106584820 +
Lal Lal1g0887 Chr1 6316049 6327614 +
Lal Lal2g1010 Chr2 6902704 6911304 +
Lasa Lasa1g02623 Chr1 505711467 505715464 +
Lja Lja5g0760 Chr5 7019695 7026410 -
Lja Lja2g2814 Chr2 44016282 44027392 +
Mepo Mepo5g04208 Chr5 54074397 54102915 -
Pste Pste9g00949 Chr9 5915911 5923109 -
Pte Pte9g00459 Chr9 5607754 5608722 -
Pumo Pumo6g02314 Chr6 45285479 45304517 -
Pvu Pvu4g0954 Chr4 20913324 20921454 -
Rops Rops5g01137 Chr5 23511014 23533106 +
Seca Seca10g03551 Chr10 65785119 65802576 -
Sto Sto8g2610 Chr8 18313878 18319749 -
Trre Trre11g01132 Chr11 10799939 10805485 -
Vian Vian8g00838 Chr8 19086375 19089622 -
Vimu Vimu8g02714 Chr8 38338541 38344300 +
Viun Viun4g01777 Chr4 31810958 31822313 -
Vvi Vvi18g1511 Chr18 19067450 19068738 -
Vvi Vvi18g1512 Chr18 19069739 19072327 -
Vvi Vvi18g1513 Chr18 19072733 19073722 -
Vvi Vvi18g1514 Chr18 19082422 19085264 +
Adu Adu09g03096 Chr09 118748734 118750352 -
Aev Aev09g2108 Chr09 24160558 24161961 +
Ahy Ahy19g2777 Chr19 149494378 149496221 +
Aip Aip09g03243 Chr09 138263171 138265103 +
Amo Amo19g3530 Chr19 149314149 149316078 +
Arst Arst9g04150 Chr9 116632685 116634386 -
Car Car04g01096 Chr04 11122467 11124906 +
Gma Gma10g02122 Chr10 48737084 48739068 +
Gma Gma20g01591 Chr20 42993220 42995215 -
Gso Gso10g1985 Chr10 46864728 46866610 +
Gso Gso10g1985 Chr10 46864728 46866610 +
Lal Lal13g0081 Chr13 529110 531211 -
Lal Lal12g0098 Chr12 657554 659269 -
Lal Lal24g0082 Chr24 529890 537564 -
Lal Lal1g0876 Chr1 6189015 6205023 +
Lan Lan20g0097 Chr20 565779 567881 -
Lan Lan20g0097 Chr20 565779 567881 -
Lan Lan20g0097 Chr20 565779 567881 -
Lan Lan20g0097 Chr20 565779 567881 -
Lapu Lapu7g01926 Chr7 35273636 35276136 +
Lasa Lasa6g03933 Chr6 604957455 604958809 +
Lja Lja5g0750 Chr5 6884058 6886090 -
Mal Mal1g2193 Chr1 28877378 28885524 -
Mepo Mepo4g04125 Chr4 51017427 51019368 +
Mesa Mesa1g04486 Chr1 70609833 70637663 +
Mtr Mtr1g3619 Chr1 47849911 47851926 +
Phac Phac7g01270 Chr7 8460019 8462007 -
Phco Phco6g02322 Chr6 44434112 44437391 +
Psa Psa6g4351 Chr6 383180873 383182326 +
Pste Pste4g02522 Chr4 17798157 17800116 +
Pte Pte16g00384 Chr16 5477140 5479181 -
Pumo Pumo3g01161 Chr3 18770086 18771707 -
Pvu Pvu7g0857 Chr7 8224620 8226439 -
Seca Seca10g03567 Chr10 66669932 66671643 +
Spst Spst10g00816 Chr10 8641587 8643037 +
Tpr Tpr1g0877 Chr1 7447044 7448808 -
Trre Trre1g05213 Chr1 58163514 58165178 +
Tsu Tsu01g04274 Chr01 50546128 50548002 +
Vian Vian3g00746 Chr3 7809687 7810968 -
Vifa Vifa3g02753 Chr3 762493575 762494822 +
Vimu Vimu3g02886 Chr3 43013952 43015201 +
Viun Viun7g03073 Chr7 33471409 33473120 +
Vivi Vivi1g04565 Chr1 97457585 97459191 -
Vvi Vvi18g1515 Chr18 19093145 19097968 -
Adu Adu05g03525 Chr05 107827917 107829731 +
Aev Aev09g2109 Chr09 24162680 24164560 -
Ahy Ahy19g2778 Chr19 149497173 149499909 -
Aip Aip09g03244 Chr09 138266003 138268620 -
Apr Apr6g1328 Chr6 18974890 18978800 +
Arst Arst5g04522 Chr5 106504909 106508502 +
Bach Bach1g00229 Chr1 2744283 2746191 -
Car Car04g01097 Chr04 11125870 11128145 -
Gma Gma10g02123 Chr10 48740131 48742650 -
Gma Gma16g01466 Chr16 33895341 33899384 -
Gso Gso10g1986 Chr10 46867601 46872119 -
Gso Gso10g1986 Chr10 46867601 46872119 -
Lal Lal2g1001 Chr2 6833219 6837243 -
Lal Lal9g0881 Chr9 6605405 6609212 -
Lja Lja5g0749 Chr5 6878597 6882701 +
Mal Mal1g2192 Chr1 28873643 28876049 +
Mtr Mtr1g3620 Chr1 47854922 47859285 -
Psa Psa6g4352 Chr6 383198551 383201357 +
Pste Pste9g00966 Chr9 6175873 6180152 -
Pte Pte9g00450 Chr9 5438634 5443504 +
Pumo Pumo6g02335 Chr6 46043733 46047320 -
Pvu Pvu4g0967 Chr4 21901813 21906804 -
Rops Rops5g01130 Chr5 23331384 23338083 +
Spst Spst4g03406 Chr4 74401597 74404107 +
Tpr Tpr1g0876 Chr1 7439961 7443665 +
Tsu Tsu01g04275 Chr01 50552485 50556101 -
Vimu Vimu8g02697 Chr8 37808449 37810651 +
Viun Viun4g01795 Chr4 32061657 32065426 -
Vivi Vivi4g06005 Chr4 197282295 197285472 -