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
Vvi1g0821 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0822 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0823 Acco11g1014 . Accr9g01271 . Adu05g01479 . Aed6g0312 . Aev05g0002 . Ahy15g1432 . Aip05g01508 . Alju09g1044 . . . Apr7g1630 . Arst5g01890 . . . Bisa11g2279 . Bva08g01316 Bva11g01132 Car02g00588 . Cca06g00813 . Dere09g1570 . Dod02g1465 . Enph13g0156 . Glsi05g0852 . Gma02g00307 Gma01g00292 . . Gso2g0287 Gso2g0287 . . . . . . Lal16g0544 . . . . . . . Lapu2g01579 . Lasa2g00449 . Lele49g1046 Lele50g1136 Lele51g1063 Lele52g1103 . . . . Lja2g0981 . Mal6g0139 . Mepo5g01590 . Mesa17g01784 . Mibi12g0854 . Mtr5g1413 . . . Phco4g01453 . Prci10g1717 . Psa2g2420 . Pste1g02017 . Pte14g00242 . . . . . Pvu2g0744 . Rops1g00863 . Seca10g01493 . Spst2g01425 . Ssu2g1771 . . Sto6g4333 Tpr2g1735 . Trre9g02206 . Tsu05g01475 . . . Vifa1g04678 . Vimu7g03716 . Viun2g01219 . Vivi2g01355 . . .
Vvi1g0824 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0825 . . . . . Adu03g03767 . Aed7g1647 . Aev03g0553 . Ahy13g3697 . Aip03g04137 . . . Amo13g4675 . Apr3g0801 . . . . . . Bva08g01315 Bva11g01131 . Car07g01970 . Cca11g00674 . . . Dod04g0054 . . . . . . Gma08g02704 . . . . . . . . . . . . . . . . . . . . Lasa4g01762 . . . . . . . . . Lja4g2811 . Mal5g2862 . Mepo1g02632 . Mesa29g02825 . . . Mtr8g1965 . . . . . . . Psa4g2917 . Pste7g00683 . . . . . . . Pvu3g0539 . Rops2g02717 . Seca12g03685 . Spst3g02547 . Ssu5g1067 . . . Tpr4g4770 . Trre15g02061 . Tsu04g02831 . . . Vifa4g01802 . Vimu11g03246 . Viun3g03258 . . . .
Vvi1g0826 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0827 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0828 . . . . . . . . . . . . . . . . . . Apr7g1629 . . . . . . . . Bva11g01130 Car02g00589 . . . . . . . . . . . Gma02g00306 . . . Gso2g0286 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g0144 . . . . . . . Mtr5g1415 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1109 . Tpr2g1736 . . . Tsu05g01476 . . . . . . . . . . . . .
Vvi1g0829 . Acco12g0680 . Accr10g01343 . Adu03g03769 . . . Aev03g0550 . Ahy13g3698 . Aip03g04138 . Alju12g1414 . Amo13g3448 . Apr3g0802 . . . . . Bisa01g1602 Bva08g01313 Bva11g01129 . Car07g01971 . . . Dere13g1207 . Dod04g0051 . Enph14g1117 . Glsi09g1071 . . Gma08g02705 Gma18g01241 . . . . . . . . . . . . . . . . . . . Lasa4g01760 . . . . . Lele54g0937 . Lele56g0503 . Lja4g2813 . . . . . Mesa29g02826 . Mibi10g1345 . . . . . Phco8g02871 . Prci5g1702 . Psa4g2916 . Pste7g00685 . . . Pte12g01259 . . . Pvu3g0540 . Rops2g02718 . Seca12g03688 . Spst3g02546 . . Sto11g1108 . . . . Trre15g02062 . . . . . Vifa4g01801 . Vimu11g03248 . Viun3g03260 . . . .
Vvi1g0830 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0821 Chr1 8549309 8549700 +
Vvi Vvi1g0822 Chr1 8618823 8619317 +
Vvi Vvi1g0823 Chr1 8666041 8668201 +
Acco Acco11g1014 Chr11 22277684 22280132 -
Accr Accr9g01271 Chr9 16778565 16780919 +
Adu Adu05g01479 Chr05 24442318 24442998 +
Aed Aed6g0312 Chr6 2725565 2728041 +
Aev Aev05g0002 Chr05 9961 12126 -
Ahy Ahy15g1432 Chr15 26043696 26046278 +
Aip Aip05g01508 Chr05 25031732 25033866 +
Alju Alju09g1044 Chr09 32790262 32792595 -
Apr Apr7g1630 Chr7 23467673 23469959 -
Arst Arst5g01890 Chr5 24489982 24490932 +
Bisa Bisa11g2279 Chr11 46853950 46856895 +
Bva Bva08g01316 Chr08 6890600 6893129 -
Bva Bva11g01132 Chr11 12495684 12498101 -
Car Car02g00588 Chr02 7032124 7035214 +
Cca Cca06g00813 Chr06 21135530 21138085 -
Dere Dere09g1570 Chr09 20003194 20006060 +
Dod Dod02g1465 Chr02 17480162 17482611 +
Enph Enph13g0156 Chr13 7290390 7293209 -
Glsi Glsi05g0852 Chr05 58885982 58888104 -
Gma Gma02g00307 Chr02 3213755 3216056 -
Gma Gma01g00292 Chr01 3305533 3307832 +
Gso Gso2g0287 Chr2 3113989 3116619 -
Gso Gso2g0287 Chr2 3113989 3116619 -
Lal Lal16g0544 Chr16 3488941 3492017 +
Lapu Lapu2g01579 Chr2 29317904 29320952 -
Lasa Lasa2g00449 Chr2 64246294 64248855 -
Lele Lele49g1046 Chr49 6736746 6737821 +
Lele Lele50g1136 Chr50 7550382 7552638 +
Lele Lele51g1063 Chr51 6849069 6853611 +
Lele Lele52g1103 Chr52 7491190 7493426 +
Lja Lja2g0981 Chr2 9215298 9218002 +
Mal Mal6g0139 Chr6 1978562 1981243 +
Mepo Mepo5g01590 Chr5 16863828 16864208 +
Mesa Mesa17g01784 Chr17 25308961 25309497 +
Mibi Mibi12g0854 Chr12 22424169 22424828 -
Mtr Mtr5g1413 Chr5 14809960 14813325 +
Phco Phco4g01453 Chr4 12823761 12826267 +
Prci Prci10g1717 Chr10 12677612 12680577 +
Psa Psa2g2420 Chr2 277308926 277312607 -
Pste Pste1g02017 Chr1 6307102 6309534 +
Pte Pte14g00242 Chr14 10186629 10188740 -
Pvu Pvu2g0744 Chr2 10065666 10068407 +
Rops Rops1g00863 Chr1 20957437 20960231 +
Seca Seca10g01493 Chr10 16130089 16131407 +
Spst Spst2g01425 Chr2 12971219 12973839 +
Ssu Ssu2g1771 Chr2 68335392 68336117 -
Sto Sto6g4333 Chr6 46011396 46012118 +
Tpr Tpr2g1735 Chr2 20517325 20520436 +
Trre Trre9g02206 Chr9 23987722 23990295 +
Tsu Tsu05g01475 Chr05 14128429 14131268 +
Vifa Vifa1g04678 Chr1 731094428 731096865 +
Vimu Vimu7g03716 Chr7 32504692 32507036 +
Viun Viun2g01219 Chr2 22894407 22896731 -
Vivi Vivi2g01355 Chr2 57786796 57789671 +
Vvi Vvi1g0824 Chr1 8670276 8674878 +
Vvi Vvi1g0825 Chr1 8677962 8680594 +
Adu Adu03g03767 Chr03 126333385 126336817 +
Aed Aed7g1647 Chr7 19756759 19763677 +
Aev Aev03g0553 Chr03 4049985 4052916 -
Ahy Ahy13g3697 Chr13 135724375 135729425 +
Aip Aip03g04137 Chr03 125194608 125204503 +
Amo Amo13g4675 Chr13 144423984 144429058 +
Apr Apr3g0801 Chr3 20987667 20992176 +
Bva Bva08g01315 Chr08 6886417 6889919 -
Bva Bva11g01131 Chr11 12491522 12494744 -
Car Car07g01970 Chr07 22868666 22878887 +
Cca Cca11g00674 Chr11 11200258 11205912 -
Dod Dod04g0054 Chr04 627960 628947 -
Gma Gma08g02704 Chr08 42392355 42398683 -
Lasa Lasa4g01762 Chr4 345407272 345411700 -
Lja Lja4g2811 Chr4 47159437 47177539 +
Mal Mal5g2862 Chr5 84943473 84949594 +
Mepo Mepo1g02632 Chr1 27721383 27728515 +
Mesa Mesa29g02825 Chr29 39141571 39147865 +
Mtr Mtr8g1965 Chr8 29540158 29546707 -
Psa Psa4g2917 Chr4 234004688 234021134 -
Pste Pste7g00683 Chr7 6224699 6230351 +
Pvu Pvu3g0539 Chr3 6474748 6481244 +
Rops Rops2g02717 Chr2 45861857 45872189 +
Seca Seca12g03685 Chr12 94206671 94211498 +
Spst Spst3g02547 Chr3 73633745 73638952 -
Ssu Ssu5g1067 Chr5 33645771 33647399 -
Tpr Tpr4g4770 Chr4 56270220 56282862 +
Trre Trre15g02061 Chr15 16712768 16718750 +
Tsu Tsu04g02831 Chr04 33754100 33761487 -
Vifa Vifa4g01802 Chr4 511045244 511048402 -
Vimu Vimu11g03246 Chr11 52450607 52452229 +
Viun Viun3g03258 Chr3 39466929 39477349 +
Vvi Vvi1g0826 Chr1 8694804 8695590 -
Vvi Vvi1g0827 Chr1 8695847 8696159 -
Vvi Vvi1g0828 Chr1 8704047 8710492 +
Apr Apr7g1629 Chr7 23455467 23462474 -
Bva Bva11g01130 Chr11 12483094 12489625 -
Car Car02g00589 Chr02 7045334 7052272 +
Gma Gma02g00306 Chr02 3201841 3208358 -
Gso Gso2g0286 Chr2 3102150 3109022 -
Mal Mal6g0144 Chr6 2062939 2068471 +
Mtr Mtr5g1415 Chr5 14834886 14841078 +
Sto Sto11g1109 Chr11 11151951 11156612 -
Tpr Tpr2g1736 Chr2 20525748 20531847 +
Tsu Tsu05g01476 Chr05 14135171 14140998 +
Vvi Vvi1g0829 Chr1 8712472 8728580 -
Acco Acco12g0680 Chr12 6294730 6297759 -
Accr Accr10g01343 Chr10 36579613 36587681 +
Adu Adu03g03769 Chr03 126347709 126354015 -
Aev Aev03g0550 Chr03 4033641 4040820 +
Ahy Ahy13g3698 Chr13 135734304 135740715 -
Aip Aip03g04138 Chr03 125209398 125215595 -
Alju Alju12g1414 Chr12 35385936 35395919 +
Amo Amo13g3448 Chr13 116067558 116073921 -
Apr Apr3g0802 Chr3 21005737 21027426 -
Bisa Bisa01g1602 Chr01 27359421 27368085 -
Bva Bva08g01313 Chr08 6872303 6881945 +
Bva Bva11g01129 Chr11 12474792 12481613 +
Car Car07g01971 Chr07 22901651 22915801 -
Dere Dere13g1207 Chr13 16766929 16788536 -
Dod Dod04g0051 Chr04 604533 613630 +
Enph Enph14g1117 Chr14 12766160 12776859 -
Glsi Glsi09g1071 Chr09 7470219 7479011 -
Gma Gma08g02705 Chr08 42401929 42412316 -
Gma Gma18g01241 Chr18 20194592 20206220 +
Lasa Lasa4g01760 Chr4 345072765 345093581 +
Lele Lele54g0937 Chr54 15803352 15809901 +
Lele Lele56g0503 Chr56 3668249 3679380 -
Lja Lja4g2813 Chr4 47215575 47236010 -
Mesa Mesa29g02826 Chr29 39149756 39163384 -
Mibi Mibi10g1345 Chr10 34016427 34023638 +
Phco Phco8g02871 Chr8 42227233 42243234 +
Prci Prci5g1702 Chr5 35484004 35495291 +
Psa Psa4g2916 Chr4 233979892 234002641 +
Pste Pste7g00685 Chr7 6233856 6238986 -
Pte Pte12g01259 Chr12 34738064 34749059 -
Pvu Pvu3g0540 Chr3 6485301 6500275 -
Rops Rops2g02718 Chr2 45917434 45931501 -
Seca Seca12g03688 Chr12 94356612 94358880 -
Spst Spst3g02546 Chr3 73610025 73631923 +
Sto Sto11g1108 Chr11 11139271 11150857 +
Trre Trre15g02062 Chr15 16724563 16738746 -
Vifa Vifa4g01801 Chr4 511003460 511024282 +
Vimu Vimu11g03248 Chr11 52491104 52492725 -
Viun Viun3g03260 Chr3 39479665 39497887 -
Vvi Vvi1g0830 Chr1 8738934 8750115 -