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
Vvi1g1301 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2480 . . . . . . . . . . . . . . . . . .
Vvi1g1302 . . Accr8g00830 . Adu10g00749 . . . . . . Ahy20g1039 . Aip10g01097 Alju06g1846 . . . . . . . . . Bisa08g2684 . Bva06g01781 Bva05g00019 . . . . Dere03g0127 . . Dod04g0556 Enph6g0137 . Glsi02g0122 . . . Gma08g00935 . . . . . . . . . . . . . . . . . . . Lasa5g02660 . Lele21g1324 Lele22g1322 Lele23g0703 Lele24g1281 . . . . . . . . Mepo3g06259 . Mesa9g03735 . Mibi09g0818 . Mtr3g2845 . . . Phco2g02939 . Prci4g2126 . Psa5g2189 . . . . . . . . . Pvu1g2661 . . . . . Spst1g01928 . . . Sto3g2937 . Tpr2g4725 . Trre5g03176 . . . . . . . Vimu6g01554 . . . . . . .
Vvi1g1303 . . . . . . . . . . . Ahy20g1030 . Aip10g01089 . . . . . . . . . . . . Bva06g01780 Bva05g00020 . . . . . . . Dod04g0557 . . . . . . Gma08g00936 Gma18g00101 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr3g2844 . . . . . . . Psa5g2190 . . . . . . . . . . . . . . . . . . . Sto3g2936 . Tpr2g4723 . . . . . . . . . . . . . . . . .
Vvi1g1304 . . . . . . . . . Aev03g2464 . Ahy13g4439 . Aip03g04924 . . . Amo13g5561 . . Arst10g00967 . . . . . . . . . . . . . . Dod04g0559 . . . . . . . Gma18g00100 . . . . . . . . . . . . . . . . Lapu6g00113 . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g02941 . . . . . Pste7g02363 . . . . . . . Pvu1g2662 . . . . . . . . . . . . . . . . . . . . . Vimu6g01551 . . . Vivi3g03296 . . .
Vvi1g1305 . . Accr8g00836 . Adu10g00742 . . . . . . Ahy20g1029 . Aip10g01087 Alju06g1813 . . Amo20g0959 . . Arst10g00952 . . . Bisa08g2686 . Bva06g01779 Bva05g00021 . . . . Dere03g0125 . . Dod04g0560 Enph6g0135 . Glsi02g0120 . . . Gma08g00937 Gma18g00099 . . . . . . . . . . . . . . . . Lapu6g00110 . Lasa5g02658 . Lele21g1322 Lele22g1319 Lele23g0705 Lele24g1278 . . . . . . . . Mepo3g06257 . Mesa9g03733 . Mibi09g0820 . Mtr3g2843 . . . Phco2g02942 . Prci4g2121 . Psa5g2194 . Pste7g02364 . . . . . Pumo1g00416 . Pvu1g2663 . Rops11g03761 . Seca6g01779 . Spst1g01927 . . . Sto3g2930 . Tpr2g4722 . . . . . Vian2g03151 . Vifa2g02493 . Vimu6g01550 . Viun1g03412 . Vivi3g03303 . . .
Vvi1g1306 . . . . Adu10g00741 . . . . . . Ahy20g1028 . Aip10g01086 . . . Amo20g0958 . . Arst10g00950 . . . . . Bva06g01778 . . . . . . . . Dod04g0563 . . . . . . . Gma18g00098 . . . . . . . . . . . . . . . . . . Lasa5g02657 . . . . . . . . . . . . . Mepo3g06256 . Mesa9g03732 . . . Mtr3g2842 . . . Phco2g02943 . . . Psa5g2195 . Pste7g02365 . . . . . Pumo1g00417 . Pvu1g2664 . Rops11g03760 . Seca6g01778 . Spst1g01926 . . . . . Tpr2g4721 . Trre5g03171 . . . Vian2g03152 . . . Vimu6g01549 . Viun1g03415 . Vivi3g03304 . . .
Vvi1g1307 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1308 . . . . . Adu06g02417 . . . . . . . . . . . . . . . Arst6g03104 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa3g00740 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu8g1544 . Rops8g02263 . Seca2g03040 . . . . . . . . . . . . . Vian2g01359 . Vifa5g00623 . Vimu6g03855 . Viun5g02196 . . . .
Vvi1g1309 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g4097 . . . . . . . Mtr8g2732 . . . . . . . Psa7g1885 . . . . . . . . . . . . . . . . . . . . . Tpr3g1374 . . . Tsu02g01281 . . . . . . . . . . . .
Vvi1g1310 . . . . . . . . . . . Ahy20g1022 . Aip10g01078 . . . Amo20g0954 . . . . . . . . Bva06g01777 . . . . . . . . Dod04g0565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr3g2839 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr2g4719 . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Psa Psa7g1885 Chr7 138285873 138289062 -
Vvi Vvi1g1301 Chr1 19179040 19180059 +
Sto Sto6g2480 Chr6 31734400 31748104 -
Vvi Vvi1g1302 Chr1 19181762 19183289 -
Accr Accr8g00830 Chr8 16699556 16702111 -
Adu Adu10g00749 Chr10 9646979 9651711 +
Ahy Ahy20g1039 Chr20 15808065 15810356 +
Aip Aip10g01097 Chr10 15068443 15070756 +
Alju Alju06g1846 Chr06 39192764 39195384 +
Bisa Bisa08g2684 Chr08 62109099 62110694 -
Bva Bva06g01781 Chr06 12307624 12309596 +
Bva Bva05g00019 Chr05 91265 93432 -
Dere Dere03g0127 Chr03 4755980 4758278 +
Dod Dod04g0556 Chr04 7950471 7952246 -
Enph Enph6g0137 Chr6 4606944 4609674 +
Glsi Glsi02g0122 Chr02 831296 832903 +
Gma Gma08g00935 Chr08 7882689 7885043 -
Lasa Lasa5g02660 Chr5 496064780 496066263 +
Lele Lele21g1324 Chr21 21642925 21645194 +
Lele Lele22g1322 Chr22 18937895 18940053 +
Lele Lele23g0703 Chr23 5486924 5489208 -
Lele Lele24g1281 Chr24 18792890 18799302 +
Mepo Mepo3g06259 Chr3 76724895 76727150 +
Mesa Mesa9g03735 Chr9 69033419 69034957 +
Mibi Mibi09g0818 Chr09 11629676 11632162 -
Mtr Mtr3g2845 Chr3 42421940 42424156 +
Phco Phco2g02939 Chr2 58336822 58338284 -
Prci Prci4g2126 Chr4 33519809 33522506 +
Psa Psa5g2189 Chr5 172899780 172902279 -
Pvu Pvu1g2661 Chr1 51374629 51376661 -
Spst Spst1g01928 Chr1 27537689 27539703 -
Sto Sto3g2937 Chr3 34067382 34069314 +
Tpr Tpr2g4725 Chr2 52624548 52627105 +
Trre Trre5g03176 Chr5 27355063 27356685 +
Vimu Vimu6g01554 Chr6 14539464 14541282 +
Vvi Vvi1g1303 Chr1 19185519 19190522 -
Ahy Ahy20g1030 Chr20 15586126 15593296 +
Aip Aip10g01089 Chr10 14849509 14856795 +
Bva Bva06g01780 Chr06 12301934 12307381 +
Bva Bva05g00020 Chr05 93609 98700 -
Dod Dod04g0557 Chr04 7955430 7961778 -
Gma Gma08g00936 Chr08 7888200 7893781 -
Gma Gma18g00101 Chr18 795734 801229 +
Mtr Mtr3g2844 Chr3 42413360 42419284 +
Psa Psa5g2190 Chr5 172941577 172947219 -
Sto Sto3g2936 Chr3 34038633 34047094 +
Tpr Tpr2g4723 Chr2 52606222 52612515 +
Vvi Vvi1g1304 Chr1 19198426 19200080 +
Aev Aev03g2464 Chr03 25737107 25738444 +
Ahy Ahy13g4439 Chr13 144489566 144491489 +
Aip Aip03g04924 Chr03 133835635 133837187 +
Amo Amo13g5561 Chr13 157214464 157216225 -
Arst Arst10g00967 Chr10 9297094 9298820 +
Dod Dod04g0559 Chr04 7974485 7979557 +
Gma Gma18g00100 Chr18 788195 790691 -
Lapu Lapu6g00113 Chr6 874800 877134 +
Phco Phco2g02941 Chr2 58347401 58349858 +
Pste Pste7g02363 Chr7 22329642 22330908 -
Pvu Pvu1g2662 Chr1 51383049 51385926 +
Vimu Vimu6g01551 Chr6 14527311 14529268 -
Vivi Vivi3g03296 Chr3 55784477 55786802 -
Vvi Vvi1g1305 Chr1 19206465 19214328 +
Accr Accr8g00836 Chr8 18389289 18393311 +
Adu Adu10g00742 Chr10 9427799 9435185 -
Ahy Ahy20g1029 Chr20 15453851 15457470 -
Aip Aip10g01087 Chr10 14704971 14708622 -
Alju Alju06g1813 Chr06 38384630 38388603 -
Amo Amo20g0959 Chr20 16178045 16181743 -
Arst Arst10g00952 Chr10 9074602 9077859 -
Bisa Bisa08g2686 Chr08 62136259 62140353 +
Bva Bva06g01779 Chr06 12295911 12299347 -
Bva Bva05g00021 Chr05 104710 108194 +
Dere Dere03g0125 Chr03 4729685 4733777 -
Dod Dod04g0560 Chr04 7991852 7996622 +
Enph Enph6g0135 Chr6 4546587 4550796 -
Glsi Glsi02g0120 Chr02 813561 816945 -
Gma Gma08g00937 Chr08 7901978 7906260 +
Gma Gma18g00099 Chr18 777617 781581 -
Lapu Lapu6g00110 Chr6 847861 853233 -
Lasa Lasa5g02658 Chr5 495913277 495915868 -
Lele Lele21g1322 Chr21 21595188 21599250 -
Lele Lele22g1319 Chr22 18891546 18895939 -
Lele Lele23g0705 Chr23 5530291 5534391 +
Lele Lele24g1278 Chr24 18743044 18747262 -
Mepo Mepo3g06257 Chr3 76699526 76703263 -
Mesa Mesa9g03733 Chr9 69006156 69009602 -
Mibi Mibi09g0820 Chr09 11712838 11716929 +
Mtr Mtr3g2843 Chr3 42398155 42402740 -
Phco Phco2g02942 Chr2 58355150 58358870 +
Prci Prci4g2121 Chr4 33455524 33459840 -
Psa Psa5g2194 Chr5 173113912 173117391 +
Pste Pste7g02364 Chr7 22348977 22352846 +
Pumo Pumo1g00416 Chr1 5858980 5863138 +
Pvu Pvu1g2663 Chr1 51391199 51395335 +
Rops Rops11g03761 Chr11 71327887 71331822 -
Seca Seca6g01779 Chr6 73715402 73719970 -
Spst Spst1g01927 Chr1 27530039 27533650 -
Sto Sto3g2930 Chr3 34000338 34005760 -
Tpr Tpr2g4722 Chr2 52581743 52586639 -
Vian Vian2g03151 Chr2 52019541 52023260 +
Vifa Vifa2g02493 Chr2 654524403 654526894 -
Vimu Vimu6g01550 Chr6 14517687 14521400 -
Viun Viun1g03412 Chr1 41257545 41261744 +
Vivi Vivi3g03303 Chr3 55875219 55878434 +
Vvi Vvi1g1306 Chr1 19215455 19219755 -
Adu Adu10g00741 Chr10 9423759 9427481 +
Ahy Ahy20g1028 Chr20 15449642 15453956 +
Aip Aip10g01086 Chr10 14700825 14704588 +
Amo Amo20g0958 Chr20 16174049 16177676 +
Arst Arst10g00950 Chr10 9070560 9074659 +
Bva Bva06g01778 Chr06 12292518 12295910 +
Dod Dod04g0563 Chr04 8031884 8036276 -
Gma Gma18g00098 Chr18 772222 776622 +
Lasa Lasa5g02657 Chr5 495909455 495912338 +
Mepo Mepo3g06256 Chr3 76694945 76699361 +
Mesa Mesa9g03732 Chr9 69001282 69005190 +
Mtr Mtr3g2842 Chr3 42393253 42397896 +
Phco Phco2g02943 Chr2 58360087 58363885 -
Psa Psa5g2195 Chr5 173117647 173121137 -
Pste Pste7g02365 Chr7 22354009 22358104 -
Pumo Pumo1g00417 Chr1 5864212 5866426 -
Pvu Pvu1g2664 Chr1 51395968 51400202 -
Rops Rops11g03760 Chr11 71322491 71326703 +
Seca Seca6g01778 Chr6 73710052 73716997 +
Spst Spst1g01926 Chr1 27525020 27528822 +
Tpr Tpr2g4721 Chr2 52576928 52581637 +
Trre Trre5g03171 Chr5 27258948 27262142 +
Vian Vian2g03152 Chr2 52024494 52027870 -
Vimu Vimu6g01549 Chr6 14512968 14516425 +
Viun Viun1g03415 Chr1 41262347 41266791 -
Vivi Vivi3g03304 Chr3 55878704 55882139 -
Vvi Vvi1g1307 Chr1 19219004 19219813 +
Vvi Vvi1g1308 Chr1 19227005 19229788 +
Adu Adu06g02417 Chr06 98015154 98019185 -
Arst Arst6g03104 Chr6 97212040 97216054 -
Lasa Lasa3g00740 Chr3 86702796 86707025 +
Pvu Pvu8g1544 Chr8 30486972 30490730 +
Rops Rops8g02263 Chr8 52070260 52074448 +
Seca Seca2g03040 Chr2 90735624 90739607 +
Vian Vian2g01359 Chr2 27987886 27990875 +
Vifa Vifa5g00623 Chr5 156362482 156367498 +
Vimu Vimu6g03855 Chr6 37449208 37452214 -
Viun Viun5g02196 Chr5 28060190 28063876 +
Vvi Vvi1g1309 Chr1 19230763 19232355 +
Mal Mal7g4097 Chr7 107540357 107541976 +
Mtr Mtr8g2732 Chr8 37951646 37953759 +
Psa Psa7g1885 Chr7 138285873 138289062 -
Tpr Tpr3g1374 Chr3 12247458 12250331 -
Tsu Tsu02g01281 Chr02 10990338 10992947 -
Vvi Vvi1g1310 Chr1 19233585 19241276 +
Ahy Ahy20g1022 Chr20 15131258 15134630 -
Aip Aip10g01078 Chr10 14407131 14410591 -
Amo Amo20g0954 Chr20 15910108 15913683 -
Bva Bva06g01777 Chr06 12289022 12291634 +
Dod Dod04g0565 Chr04 8048936 8052003 -
Mtr Mtr3g2839 Chr3 42377252 42379915 +
Tpr Tpr2g4719 Chr2 52568594 52571511 +