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
Vvi1g0111 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0112 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal16g0788 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0113 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0114 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0115 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0116 . . . . . . . . . . . . . . . . . . . . Arst5g04126 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02900 . . . . . . . . . . . . . Mepo2g02995 . Mesa13g02063 . . . . . Phac2g01558 . Phco4g01883 . . . . Psa7g3047 Pste3g04058 . . . . . . . Pvu2g1029 . . . . . Spst3g02313 . . . . . . . Trre7g01972 . . . . . . . Vimu11g02232 . . . Vivi2g02809 . . .
Vvi1g0117 . . . . . Adu04g01085 . . . . . . . . . . . . . . . Arst4g01516 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa1g01679 . . . . . . . . . . . . . Mepo6g01558 . . . . . . . Phac9g04026 . Phco7g02878 . . . . . Pste2g03263 . . . . . Pumo2g01466 . Pvu9g2511 . Rops11g01622 . Seca6g03922 . Spst9g03009 . . . . . . . Trre3g02046 . . . Vian4g00189 . Vifa1g09174 . Vimu10g00270 . Viun9g00240 . Vivi4g02575 . .
Vvi1g0118 . . Accr5g00068 . . Adu04g01087 . . . . . . . . Alju03g0074 . . . . Apr3g2137 . Arst4g01517 . . Bisa07g2963 . . . Car06g01238 . . Cca09g01632 Dere02g3130 . . . Enph4g0054 . Glsi11g3368 . . . Gma08g00828 . . . . . . . . . . . . . . . . . Lapu3g02705 Lapu9g00537 Lasa7g03770 Lasa1g01681 Lele13g0055 Lele14g0051 . . . . . . . Lja4g4202 . . Mepo2g03677 Mepo6g01559 Mesa13g01489 Mesa5g03043 Mibi06g0077 . . . . Phac9g04023 Phco4g02189 Phco7g02876 Prci3g1329 . . . Pste3g02372 Pste2g03268 . . . . Pumo6g01419 Pumo2g01469 Pvu2g1940 Pvu9g2510 Rops2g01541 Rops11g01624 Seca12g05454 Seca6g03921 . Spst9g03007 . Ssu5g2135 Sto13g0105 . . . Trre7g04290 Trre3g02053 . . Vian1g02829 Vian4g00191 Vifa6g01953 Vifa1g09169 Vimu11g01590 Vimu10g00271 Viun3g02022 Viun9g00242 Vivi5g04731 . . .
Vvi1g0119 . . . . . Adu04g01091 . . . . . . . . . . . . . . . Arst4g01520 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo6g01562 . Mesa5g03039 . . . . . . . . . . . . . Pste2g03272 . . . . . Pumo2g01471 . Pvu9g2508 . Rops11g01626 . Seca6g03919 . Spst9g03005 . . Sto13g0106 . . . . Trre3g02054 . . . . . . . . . . . . . .
Vvi1g0120 . . . . . Adu04g01098 . . . . . . . . . . . . . . . Arst4g01525 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g00531 . Lasa1g01684 . . . . . . . . . . . . . Mepo6g01564 . Mesa5g03036 . . . . . Phac9g04018 . Phco7g02872 . . . . . Pste2g03274 . . . . . Pumo2g01473 . Pvu9g2506 . Rops11g01628 . Seca6g03915 . Spst9g03003 . . . . . . . Trre3g02056 . . . Vian4g00194 . Vifa1g09159 . Vimu10g00276 . Viun9g00245 . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0111 Chr1 1064600 1070361 -
Vvi Vvi1g0112 Chr1 1072360 1078245 -
Lal Lal16g0788 Chr16 5113346 5124620 -
Vvi Vvi1g0113 Chr1 1079054 1081341 +
Vvi Vvi1g0114 Chr1 1081954 1082865 +
Vvi Vvi1g0115 Chr1 1083237 1084401 -
Vvi Vvi1g0116 Chr1 1086726 1093016 -
Arst Arst5g04126 Chr5 103172474 103178280 -
Lasa Lasa7g02900 Chr7 557209101 557210335 -
Mepo Mepo2g02995 Chr2 39596235 39603270 -
Mesa Mesa13g02063 Chr13 24242347 24243910 +
Phac Phac2g01558 Chr2 15244286 15254220 +
Phco Phco4g01883 Chr4 37355564 37358036 +
Psa Psa7g3047 Chr7 222352964 222354580 +
Pste Pste3g04058 Chr3 35234333 35238106 -
Pvu Pvu2g1029 Chr2 19642779 19645344 +
Spst Spst3g02313 Chr3 66583401 66585061 +
Trre Trre7g01972 Chr7 15625672 15628006 +
Vimu Vimu11g02232 Chr11 38920675 38921991 +
Vivi Vivi2g02809 Chr2 124280996 124282226 +
Vvi Vvi1g0117 Chr1 1098524 1102566 -
Adu Adu04g01085 Chr04 20377132 20382006 -
Arst Arst4g01516 Chr4 20489748 20494002 -
Lasa Lasa1g01679 Chr1 151241746 151245098 -
Mepo Mepo6g01558 Chr6 17111556 17116424 -
Phac Phac9g04026 Chr9 38558578 38563601 +
Phco Phco7g02878 Chr7 47796618 47800531 +
Pste Pste2g03263 Chr2 32520773 32525234 -
Pumo Pumo2g01466 Chr2 21894970 21897094 -
Pvu Pvu9g2511 Chr9 35636789 35641765 +
Rops Rops11g01622 Chr11 24754113 24759336 -
Seca Seca6g03922 Chr6 106905872 106910696 +
Spst Spst9g03009 Chr9 64185871 64189923 +
Trre Trre3g02046 Chr3 18117968 18121849 -
Vian Vian4g00189 Chr4 1718236 1722196 -
Vifa Vifa1g09174 Chr1 1451436567 1451439878 +
Vimu Vimu10g00270 Chr10 1657895 1662053 -
Viun Viun9g00240 Chr9 1511324 1515273 -
Vivi Vivi4g02575 Chr4 124899327 124903294 +
Vvi Vvi1g0118 Chr1 1107739 1109759 +
Accr Accr5g00068 Chr5 1627897 1631239 +
Adu Adu04g01087 Chr04 20476670 20480038 +
Alju Alju03g0074 Chr03 1476924 1480122 +
Apr Apr3g2137 Chr3 37286907 37289798 -
Arst Arst4g01517 Chr4 20588888 20592483 +
Bisa Bisa07g2963 Chr07 63020557 63025495 +
Car Car06g01238 Chr06 12223788 12224871 +
Cca Cca09g01632 Chr09 40191473 40195975 -
Dere Dere02g3130 Chr02 37616435 37620602 +
Enph Enph4g0054 Chr4 1574834 1577957 -
Glsi Glsi11g3368 Chr11 54307886 54309847 -
Gma Gma08g00828 Chr08 6815715 6820512 -
Lapu Lapu3g02705 Chr3 49669773 49672737 +
Lapu Lapu9g00537 Chr9 6143048 6145165 -
Lasa Lasa7g03770 Chr7 613653999 613656092 -
Lasa Lasa1g01681 Chr1 151519711 151521677 +
Lele Lele13g0055 Chr13 607673 610539 +
Lele Lele14g0051 Chr14 762885 763262 +
Lja Lja4g4202 Chr4 75476903 75480103 -
Mepo Mepo2g03677 Chr2 46135210 46137509 -
Mepo Mepo6g01559 Chr6 17144935 17147318 +
Mesa Mesa13g01489 Chr13 17822754 17829033 +
Mesa Mesa5g03043 Chr5 55260414 55262448 -
Mibi Mibi06g0077 Chr06 1119138 1122006 +
Phac Phac9g04023 Chr9 38535514 38538249 -
Phco Phco4g02189 Chr4 42569129 42572011 +
Phco Phco7g02876 Chr7 47774652 47776761 -
Prci Prci3g1329 Chr3 21516432 21519823 -
Pste Pste3g02372 Chr3 16822213 16825709 -
Pste Pste2g03268 Chr2 32562249 32564785 +
Pumo Pumo6g01419 Chr6 19429540 19434533 +
Pumo Pumo2g01469 Chr2 21955376 21957718 +
Pvu Pvu2g1940 Chr2 34401266 34404115 +
Pvu Pvu9g2510 Chr9 35613938 35616600 -
Rops Rops2g01541 Chr2 22915729 22921336 +
Rops Rops11g01624 Chr11 24780238 24782802 +
Seca Seca12g05454 Chr12 145201935 145207291 -
Seca Seca6g03921 Chr6 106872569 106875428 -
Spst Spst9g03007 Chr9 64152277 64155215 -
Ssu Ssu5g2135 Chr5 61633538 61638389 -
Sto Sto13g0105 Chr13 874873 877388 -
Trre Trre7g04290 Chr7 50847356 50855217 -
Trre Trre3g02053 Chr3 18195361 18198429 +
Vian Vian1g02829 Chr1 44323157 44333951 +
Vian Vian4g00191 Chr4 1748197 1750293 +
Vifa Vifa6g01953 Chr6 724175559 724177684 +
Vifa Vifa1g09169 Chr1 1450618912 1450620982 -
Vimu Vimu11g01590 Chr11 19267590 19270451 -
Vimu Vimu10g00271 Chr10 1695875 1699560 +
Viun Viun3g02022 Chr3 16124318 16126898 -
Viun Viun9g00242 Chr9 1551729 1555453 +
Vivi Vivi5g04731 Chr5 146096770 146099515 +
Vvi Vvi1g0119 Chr1 1115322 1118841 +
Adu Adu04g01091 Chr04 20558445 20558937 +
Arst Arst4g01520 Chr4 20668913 20670898 +
Mepo Mepo6g01562 Chr6 17171517 17173490 +
Mesa Mesa5g03039 Chr5 55229720 55232397 -
Pste Pste2g03272 Chr2 32588655 32596510 +
Pumo Pumo2g01471 Chr2 21981745 21986295 +
Pvu Pvu9g2508 Chr9 35600954 35604007 -
Rops Rops11g01626 Chr11 24794160 24796510 +
Seca Seca6g03919 Chr6 106857867 106861662 -
Spst Spst9g03005 Chr9 64141008 64143525 -
Sto Sto13g0106 Chr13 887622 891856 +
Trre Trre3g02054 Chr3 18195460 18198429 +
Vvi Vvi1g0120 Chr1 1121664 1125058 -
Adu Adu04g01098 Chr04 20850399 20856036 -
Arst Arst4g01525 Chr4 20986669 20992506 -
Lapu Lapu9g00531 Chr9 6101189 6107109 +
Lasa Lasa1g01684 Chr1 151553991 151556916 -
Mepo Mepo6g01564 Chr6 17181576 17186654 -
Mesa Mesa5g03036 Chr5 55207884 55213607 +
Phac Phac9g04018 Chr9 38508525 38513969 +
Phco Phco7g02872 Chr7 47746839 47752008 +
Pste Pste2g03274 Chr2 32609500 32621879 -
Pumo Pumo2g01473 Chr2 21993466 22000631 -
Pvu Pvu9g2506 Chr9 35585847 35591101 +
Rops Rops11g01628 Chr11 24818333 24824267 -
Seca Seca6g03915 Chr6 106840553 106842120 +
Spst Spst9g03003 Chr9 64132852 64136710 +
Trre Trre3g02056 Chr3 18212306 18215275 -
Vian Vian4g00194 Chr4 1768124 1773491 -
Vifa Vifa1g09159 Chr1 1449353531 1449355932 +
Vimu Vimu10g00276 Chr10 1722433 1727595 -
Viun Viun9g00245 Chr9 1571770 1576343 -