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
Vvi1g0691 . . Accr8g00808 . . . . Aed7g1913 . Aev03g2756 . Ahy13g4062 . Aip03g04507 Alju06g1885 . . Amo13g5133 . . Arst3g05432 . . . Bisa08g2660 . . . Car06g00850 . . Cca01g00154 . . . Dod04g0525 Enph6g0159 . Glsi02g0147 . . . Gma08g01205 Gma18g00116 . . . . . . . . . . . . . . . . . . . . . . Lele23g0676 . . . . . . Lja4g0780 . Mal7g4506 Mepo2g04185 . Mesa13g00928 . Mibi09g0793 . . Mtr8g3079 . . Phco4g02890 . Prci4g2155 . . . Pste3g01969 . . . . . Pumo6g00876 . Pvu2g2660 . Rops2g00988 . Seca12g06080 . Spst3g01511 . . . . . . Tpr3g1020 Trre7g04896 . . Tsu02g00887 Vian1g03481 . . . Vimu11g03952 . Viun3g01078 . . . . .
Vvi1g0692 . . . . Adu10g00798 . . Aed7g1914 . . . . . . . . . . . . Arst10g01037 . . . . . . . Car05g02078 . . Cca01g00155 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g00129 . Lasa5g02682 . . . . . . . . . . . . . Mepo3g06282 . Mesa9g03767 . . . . . . . Phco2g02919 . . . . . Pste7g02347 . . . . . Pumo1g00397 . Pvu1g2643 . Rops11g03788 . Seca6g01823 . Spst1g01947 . . . . . . . Trre5g03220 . . . Vian2g03130 . . . Vimu6g01577 . Viun1g03387 . Vivi3g03258 . . Vra2g1452
Vvi1g0693 . Acco13g0549 . Accr12g00490 Adu03g04114 Adu03g02132 . Aed7g1915 . Aev03g2757 . Ahy13g4063 . Aip03g04508 . Alju13g1631 . Amo13g5134 . . Arst3g05433 Arst3g02827 . Bach2g02198 . Bisa02g1216 . . Car06g00849 . . Cca01g00156 . Dere14g0659 . Dod04g0523 . Enph5g0445 . Glsi13g1355 . . Gma08g01206 Gma18g00117 . . . . . . . . . . . . . . . . Lapu3g03267 . Lasa7g04276 Lasa5g02135 . . . . Lele17g1093 Lele18g0445 Lele19g0464 Lele20g0986 . Lja4g0779 . Mal7g4507 Mepo2g04186 Mepo3g05788 Mesa13g00927 Mesa9g03207 . Mibi13g0543 . Mtr8g3080 . Phac9g02863 Phco4g02891 Phco7g02034 . . . Psa7g1358 Pste3g01967 Pste2g00528 . . . Pte1g01988 Pumo6g00873 Pumo10g01954 Pvu2g2661 Pvu9g1774 Rops2g00984 Rops10g00724 Seca12g06081 Seca4g02954 Spst3g01509 Spst9g02042 . Ssu9g1749 . . . Tpr3g1019 Trre7g04898 Trre5g02785 . Tsu02g00886 Vian1g03482 Vian4g00917 Vifa2g02519 Vifa2g01952 Vimu11g03953 Vimu10g01341 Viun3g01076 Viun9g01385 Vivi5g05183 Vivi3g03990 . Vra2g1453
Vvi1g0694 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0695 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0696 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0697 . . . . Adu03g04115 . . Aed5g1940 . Aev03g2758 . Ahy13g4064 . Aip03g04509 . . . Amo13g5135 . . Arst3g05434 . Bach2g00184 . . . . . Car06g00848 . . Cca09g02078 . . . Dod04g0522 . . . . . . Gma08g01207 . . . . . . . . . . . . . . . . . Lapu3g03268 . Lasa7g04277 . . . . . . . . . . Lja4g0778 . Mal7g4508 Mepo2g04187 . Mesa13g00925 . . . . Mtr8g3082 . . Phco4g02892 . . . . Psa7g1356 Pste3g01964 . . . . . Pumo6g00872 . Pvu2g2662 . Rops2g00982 . Seca12g06083 . Spst3g01508 . . Ssu5g2652 . . . Tpr3g1018 Trre7g04901 . . Tsu02g00884 Vian1g03483 . Vifa6g02968 . Vimu11g03955 . Viun3g01074 . Vivi5g05181 . . Vra7g2056
Vvi1g0698 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0699 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0700 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0691 Chr1 6955433 6957962 -
Accr Accr8g00808 Chr8 14444690 14449715 +
Aed Aed7g1913 Chr7 22188079 22190100 -
Aev Aev03g2756 Chr03 27429482 27432133 -
Ahy Ahy13g4062 Chr13 140066435 140069122 -
Aip Aip03g04507 Chr03 129355467 129358054 -
Alju Alju06g1885 Chr06 42435843 42448395 -
Amo Amo13g5133 Chr13 151021516 151027373 -
Arst Arst3g05432 Chr3 129041807 129044465 -
Bisa Bisa08g2660 Chr08 61714181 61719252 +
Car Car06g00850 Chr06 8340260 8344103 +
Cca Cca01g00154 Chr01 1510511 1516881 -
Dod Dod04g0525 Chr04 7501258 7506997 +
Enph Enph6g0159 Chr6 4876604 4886078 -
Glsi Glsi02g0147 Chr02 949220 952125 -
Gma Gma08g01205 Chr08 10255439 10262018 -
Gma Gma18g00116 Chr18 929086 931582 -
Lele Lele23g0676 Chr23 5208886 5214199 +
Lja Lja4g0780 Chr4 6473778 6482895 +
Mal Mal7g4506 Chr7 112974375 112978052 -
Mepo Mepo2g04185 Chr2 50695348 50699311 -
Mesa Mesa13g00928 Chr13 11003645 11006991 +
Mibi Mibi09g0793 Chr09 10699522 10705210 +
Mtr Mtr8g3079 Chr8 41393868 41397707 -
Phco Phco4g02890 Chr4 50104187 50106984 -
Prci Prci4g2155 Chr4 33958455 33963270 -
Pste Pste3g01969 Chr3 13410842 13417345 +
Pumo Pumo6g00876 Chr6 10922710 10926395 +
Pvu Pvu2g2660 Chr2 42470104 42472890 -
Rops Rops2g00988 Chr2 13828350 13832086 +
Seca Seca12g06080 Chr12 152668907 152673340 -
Spst Spst3g01511 Chr3 18552414 18554180 +
Tpr Tpr3g1020 Chr3 9312640 9316478 +
Trre Trre7g04896 Chr7 56172076 56175478 -
Tsu Tsu02g00887 Chr02 7445705 7449477 +
Vian Vian1g03481 Chr1 57361235 57363896 -
Vimu Vimu11g03952 Chr11 61417429 61417908 -
Viun Viun3g01078 Chr3 6754377 6757967 +
Vvi Vvi1g0692 Chr1 6964400 6976804 +
Adu Adu10g00798 Chr10 10785148 10792725 +
Aed Aed7g1914 Chr7 22204552 22211849 +
Arst Arst10g01037 Chr10 10431862 10439994 +
Car Car05g02078 Chr05 66023397 66030511 +
Cca Cca01g00155 Chr01 1519903 1527442 +
Lapu Lapu6g00129 Chr6 993800 1001961 +
Lasa Lasa5g02682 Chr5 497770166 497776939 +
Mepo Mepo3g06282 Chr3 76941872 76949578 +
Mesa Mesa9g03767 Chr9 69380450 69386467 +
Phco Phco2g02919 Chr2 58206238 58214869 -
Pste Pste7g02347 Chr7 22123236 22141344 -
Pumo Pumo1g00397 Chr1 5661728 5670253 -
Pvu Pvu1g2643 Chr1 51248990 51256103 -
Rops Rops11g03788 Chr11 71533052 71541322 +
Seca Seca6g01823 Chr6 74781847 74789849 +
Spst Spst1g01947 Chr1 27656089 27664229 +
Trre Trre5g03220 Chr5 28008892 28018157 +
Vian Vian2g03130 Chr2 51880401 51886993 -
Vimu Vimu6g01577 Chr6 14646744 14653439 +
Viun Viun1g03387 Chr1 41123524 41131128 -
Vivi Vivi3g03258 Chr3 55223802 55230653 -
Vra Vra2g1452 Chr2 22566413 22572794 +
Vvi Vvi1g0693 Chr1 6977775 6982566 -
Acco Acco13g0549 Chr13 3985612 3988483 -
Accr Accr12g00490 Chr12 4495658 4498518 -
Adu Adu03g04114 Chr03 130281291 130285369 -
Adu Adu03g02132 Chr03 41892569 41897593 -
Aed Aed7g1915 Chr7 22211970 22219583 -
Aev Aev03g2757 Chr03 27434443 27437519 -
Ahy Ahy13g4063 Chr13 140069966 140074028 -
Aip Aip03g04508 Chr03 129359454 129362853 -
Alju Alju13g1631 Chr13 34525633 34530331 +
Amo Amo13g5134 Chr13 151028839 151031977 -
Arst Arst3g05433 Chr3 129045333 129049193 -
Arst Arst3g02827 Chr3 42184036 42189015 -
Bach Bach2g02198 Chr2 28875708 28879320 +
Bisa Bisa02g1216 Chr02 20353548 20356683 -
Car Car06g00849 Chr06 8332331 8335834 +
Cca Cca01g00156 Chr01 1527587 1531960 -
Dere Dere14g0659 Chr14 7054861 7057895 +
Dod Dod04g0523 Chr04 7482329 7486707 +
Enph Enph5g0445 Chr5 3502162 3508381 -
Glsi Glsi13g1355 Chr13 30813724 30817027 +
Gma Gma08g01206 Chr08 10262041 10265867 -
Gma Gma18g00117 Chr18 936606 940474 -
Lapu Lapu3g03267 Chr3 55936370 55941453 -
Lasa Lasa7g04276 Chr7 650620753 650623700 -
Lasa Lasa5g02135 Chr5 453786008 453789835 -
Lele Lele17g1093 Chr17 21337496 21340129 +
Lele Lele18g0445 Chr18 2610913 2613540 -
Lele Lele19g0464 Chr19 2649033 2651647 -
Lele Lele20g0986 Chr20 15876415 15879043 +
Lja Lja4g0779 Chr4 6467447 6471471 +
Mal Mal7g4507 Chr7 112980159 112983512 -
Mepo Mepo2g04186 Chr2 50700537 50704225 -
Mepo Mepo3g05788 Chr3 72055466 72059861 -
Mesa Mesa13g00927 Chr13 10994498 10997098 +
Mesa Mesa9g03207 Chr9 62623517 62627072 -
Mibi Mibi13g0543 Chr13 7260891 7263786 -
Mtr Mtr8g3080 Chr8 41398936 41402788 -
Phac Phac9g02863 Chr9 27419699 27424436 -
Phco Phco4g02891 Chr4 50109234 50113437 -
Phco Phco7g02034 Chr7 35058516 35063438 -
Psa Psa7g1358 Chr7 98962052 98965972 +
Pste Pste3g01967 Chr3 13402446 13407199 +
Pste Pste2g00528 Chr2 4891424 4896093 -
Pte Pte1g01988 Chr1 41094749 41097011 +
Pumo Pumo6g00873 Chr6 10897211 10902218 +
Pumo Pumo10g01954 Chr10 25724851 25731632 -
Pvu Pvu2g2661 Chr2 42475348 42480510 -
Pvu Pvu9g1774 Chr9 25041313 25045303 -
Rops Rops2g00984 Chr2 13796174 13806613 +
Rops Rops10g00724 Chr10 17568022 17572447 +
Seca Seca12g06081 Chr12 152674870 152679768 -
Seca Seca4g02954 Chr4 50674926 50678910 -
Spst Spst3g01509 Chr3 18537058 18541720 +
Spst Spst9g02042 Chr9 40997401 40999662 +
Ssu Ssu9g1749 Chr9 54767869 54769496 +
Tpr Tpr3g1019 Chr3 9306654 9310795 +
Trre Trre7g04898 Chr7 56178987 56182043 -
Trre Trre5g02785 Chr5 22214679 22219198 +
Tsu Tsu02g00886 Chr02 7439940 7443930 +
Vian Vian1g03482 Chr1 57372694 57379274 -
Vian Vian4g00917 Chr4 13041778 13044996 +
Vifa Vifa2g02519 Chr2 665046211 665049585 -
Vifa Vifa2g01952 Chr2 504391127 504394195 -
Vimu Vimu11g03953 Chr11 61425555 61430068 -
Vimu Vimu10g01341 Chr10 14079823 14083055 +
Viun Viun3g01076 Chr3 6742862 6746984 +
Viun Viun9g01385 Chr9 14362184 14365551 +
Vivi Vivi5g05183 Chr5 153022720 153026221 +
Vivi Vivi3g03990 Chr3 69155440 69159438 +
Vra Vra2g1453 Chr2 22573971 22578041 -
Vvi Vvi1g0694 Chr1 6985452 6985913 -
Vvi Vvi1g0695 Chr1 6986007 6986240 -
Vvi Vvi1g0696 Chr1 6988614 6988973 +
Vvi Vvi1g0697 Chr1 6989249 6993277 +
Adu Adu03g04115 Chr03 130289223 130293558 -
Aed Aed5g1940 Chr5 22413062 22418351 +
Aev Aev03g2758 Chr03 27439464 27442436 +
Ahy Ahy13g4064 Chr13 140077230 140081677 -
Aip Aip03g04509 Chr03 129366560 129371174 -
Amo Amo13g5135 Chr13 151035635 151040104 -
Arst Arst3g05434 Chr3 129053664 129057654 -
Bach Bach2g00184 Chr2 2281659 2284588 -
Car Car06g00848 Chr06 8324127 8329009 -
Cca Cca09g02078 Chr09 45839694 45844909 +
Dod Dod04g0522 Chr04 7457069 7460325 -
Gma Gma08g01207 Chr08 10268656 10273329 +
Lapu Lapu3g03268 Chr3 55945848 55953003 +
Lasa Lasa7g04277 Chr7 650672891 650677979 +
Lja Lja4g0778 Chr4 6457741 6461910 -
Mal Mal7g4508 Chr7 112987431 112991673 +
Mepo Mepo2g04187 Chr2 50708045 50712970 +
Mesa Mesa13g00925 Chr13 10968108 10972418 -
Mtr Mtr8g3082 Chr8 41410878 41415771 +
Phco Phco4g02892 Chr4 50123923 50128159 +
Psa Psa7g1356 Chr7 98937664 98947064 -
Pste Pste3g01964 Chr3 13382557 13387329 -
Pumo Pumo6g00872 Chr6 10880886 10884599 -
Pvu Pvu2g2662 Chr2 42485690 42490676 +
Rops Rops2g00982 Chr2 13762572 13768388 -
Seca Seca12g06083 Chr12 152695297 152701690 +
Spst Spst3g01508 Chr3 18526118 18530534 -
Ssu Ssu5g2652 Chr5 71435436 71440633 +
Tpr Tpr3g1018 Chr3 9282889 9287871 -
Trre Trre7g04901 Chr7 56189831 56193138 +
Tsu Tsu02g00884 Chr02 7419122 7423965 -
Vian Vian1g03483 Chr1 57387771 57392375 +
Vifa Vifa6g02968 Chr6 981765279 981772595 +
Vimu Vimu11g03955 Chr11 61443417 61443794 +
Viun Viun3g01074 Chr3 6732058 6737606 -
Vivi Vivi5g05181 Chr5 153008105 153014545 -
Vra Vra7g2056 Chr7 40078976 40084168 +
Vvi Vvi1g0698 Chr1 7005787 7007375 -
Vvi Vvi1g0699 Chr1 7022625 7024610 -
Vvi Vvi1g0700 Chr1 7026596 7026715 +
Acco Acco13g0549 Chr13 3985612 3988483 -
Accr Accr12g00490 Chr12 4495658 4498518 -
Adu Adu03g02132 Chr03 41892569 41897593 -
Alju Alju13g1631 Chr13 34525633 34530331 +
Arst Arst3g02827 Chr3 42184036 42189015 -
Bach Bach2g02198 Chr2 28875708 28879320 +
Bisa Bisa02g1216 Chr02 20353548 20356683 -
Dere Dere14g0659 Chr14 7054861 7057895 +
Enph Enph5g0445 Chr5 3502162 3508381 -
Glsi Glsi13g1355 Chr13 30813724 30817027 +
Lasa Lasa5g02135 Chr5 453786008 453789835 -
Lele Lele17g1093 Chr17 21337496 21340129 +
Lele Lele18g0445 Chr18 2610913 2613540 -
Lele Lele19g0464 Chr19 2649033 2651647 -
Lele Lele20g0986 Chr20 15876415 15879043 +
Mepo Mepo3g05788 Chr3 72055466 72059861 -
Mesa Mesa9g03207 Chr9 62623517 62627072 -
Mibi Mibi13g0543 Chr13 7260891 7263786 -
Phac Phac9g02863 Chr9 27419699 27424436 -
Phco Phco7g02034 Chr7 35058516 35063438 -
Pste Pste2g00528 Chr2 4891424 4896093 -
Pte Pte1g01988 Chr1 41094749 41097011 +
Pumo Pumo10g01954 Chr10 25724851 25731632 -
Pvu Pvu9g1774 Chr9 25041313 25045303 -
Rops Rops10g00724 Chr10 17568022 17572447 +
Seca Seca4g02954 Chr4 50674926 50678910 -
Spst Spst9g02042 Chr9 40997401 40999662 +
Trre Trre5g02785 Chr5 22214679 22219198 +
Vian Vian4g00917 Chr4 13041778 13044996 +
Vifa Vifa2g01952 Chr2 504391127 504394195 -
Vimu Vimu10g01341 Chr10 14079823 14083055 +
Viun Viun9g01385 Chr9 14362184 14365551 +
Vivi Vivi3g03990 Chr3 69155440 69159438 +
Arst Arst3g05433 Chr3 129045333 129049193 -