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
Vvi4g1034 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03560 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1035 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g03479 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01456 . Lasa3g02077 . . . . . . . . . Lja1g3001 . . . Mepo3g02266 . Mesa25g01949 . . . . . Phac8g00766 . Phco3g02689 . . . . . Pste5g01163 . . . . . Pumo5g00144 . Pvu8g0539 . Rops8g00962 . Seca2g00846 . Spst1g01176 . . . . . . . Trre13g02349 . . . Vian2g00516 . Vifa5g01656 . Vimu6g00660 . Viun5g00748 . Vivi6g02998 . . .
Vvi4g1036 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01454 . . . . . . . . . . . Lja1g2998 . . . . . . . . . . . . . Phco3g02691 . . . . . Pste5g01159 . . . . . Pumo5g00143 . Pvu8g0537 . Rops8g00960 . Seca2g00844 . Spst1g01178 . . . . . . . . . . . . . . . . . Viun5g00746 . . . . .
Vvi4g1037 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03563 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01453 . Lasa3g02079 . . . . . . . . . Lja1g2997 . . . Mepo3g02268 . Mesa25g01947 . . . . . Phac8g00763 . Phco3g02692 . . . . . Pste5g01157 . . . . . . . Pvu8g0536 . Rops8g00958 . Seca2g00843 . Spst1g01179 . . . . . . . Trre13g02347 . . . . . Vifa5g01659 . Vimu6g00662 . Viun5g00745 . Vivi6g03000 . . .
Vvi4g1038 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03564 Bva04g03480 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01452 . Lasa3g02080 . . . . . . . . . Lja1g2996 . . . Mepo3g02270 . Mesa25g01946 . . . . . Phac8g00762 . Phco3g02693 . . . . . Pste5g01156 . . . . . Pumo5g00141 . Pvu8g0535 . Rops8g00957 . Seca2g00842 . Spst1g01180 . . . . . . . Trre13g02346 . . . Vian2g00514 . Vifa5g01660 . Vimu6g00663 . Viun5g00744 . Vivi6g03001 . . .
Vvi4g1039 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03565 Bva04g03481 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01451 . Lasa3g02081 . . . . . . . . . Lja1g2995 . . . Mepo3g02271 . Mesa25g01945 . . . . . . . Phco3g02694 . . . . . Pste5g01153 . . . . . Pumo5g00140 . Pvu8g0534 . Rops8g00956 . Seca2g00841 . Spst1g01181 . . . . . . . Trre13g02344 . . . Vian2g00513 . Vifa5g01662 . Vimu6g00664 . Viun5g00742 . Vivi6g03007 . . .
Vvi4g1040 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g03482 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01450 . Lasa3g02082 . . . . . . . . . Lja1g2994 . . . Mepo3g02272 . Mesa25g01944 . . . . . . . Phco3g02696 . . . . . Pste5g01151 . Pte7g01084 . . . Pumo5g00139 . Pvu8g0533 . Rops8g00955 . . . Spst1g01182 . . . . . . . Trre13g02342 . . . Vian2g00512 . Vifa5g01663 . Vimu6g00666 . Viun5g00741 . Vivi6g03008 . . .
Vvi4g1041 Acco09g1949 . Accr7g00221 . . . . . . . . . . . . . . . . . . . . . Bisa10g1418 . Bva13g03566 Bva04g03483 . . . . Dere12g1076 . . . Enph11g0233 . Glsi06g0718 . . . . . . . . . . . . . . . . . . . . . Lapu1g01449 . Lasa3g02083 . Lele41g1235 Lele42g1191 Lele43g0161 Lele44g0162 . . . . Lja1g2992 . . . Mepo3g02273 . Mesa25g01943 . Mibi11g1722 . . . . . . . Prci13g0275 . . . Pste5g01147 . . Pte8g00609 . . Pumo5g00137 . Pvu8g0532 . Rops8g00954 . Seca2g00837 . Spst1g01184 . . . . . . . Trre13g02340 . . . Vian2g00510 . Vifa5g01664 . Vimu6g00667 . Viun5g00740 . Vivi6g03009 . . .
Vvi4g1042 . . . . Adu01g00012 . . . . . . . . . . . . . . . Arst1g00021 . . . . . Bva08g00635 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g01572 . Lasa4g02467 . . . . . . . . . . Lja4g3312 . Mal5g3564 Mepo1g01946 . Mesa29g02068 . . . . Mtr8g2601 . . Phco8g00576 . . . . Psa4g2085 . . . Pte12g00367 . . Pumo4g02010 . Pvu3g2537 . Rops2g03493 . Seca12g02532 . Spst3g03985 . . . . . . Tpr4g4072 Trre15g03923 . . Tsu04g03286 Vian1g01691 . Vifa4g02563 . Vimu11g00511 . Viun3g03784 . Vivi1g02918 . . .
Vvi4g1043 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03567 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01448 . Lasa3g02084 . . . . . . . . . Lja1g2991 . . . Mepo3g02274 . Mesa25g01942 . . . . . . . . . . . . . Pste5g01144 . . . . . Pumo5g00136 . Pvu8g0531 . Rops8g00953 . Seca2g00836 . Spst1g01185 . . . . . . . Trre13g02339 . . . Vian2g00509 . Vifa5g01666 . Vimu6g00668 . Viun5g00739 . Vivi6g03012 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1034 Chr4 17142754 17149732 +
Bva Bva13g03560 Chr13 24046010 24049784 -
Vvi Vvi4g1035 Chr4 17152043 17154262 +
Bva Bva04g03479 Chr04 27518397 27519889 -
Lapu Lapu1g01456 Chr1 27386714 27390772 +
Lasa Lasa3g02077 Chr3 523609700 523610833 -
Lja Lja1g3001 Chr1 36401444 36403479 +
Mepo Mepo3g02266 Chr3 32375350 32377642 -
Mesa Mesa25g01949 Chr25 24104808 24106635 +
Phac Phac8g00766 Chr8 5016723 5019980 +
Phco Phco3g02689 Chr3 53409806 53413773 -
Pste Pste5g01163 Chr5 7552116 7553977 +
Pumo Pumo5g00144 Chr5 4348678 4357856 +
Pvu Pvu8g0539 Chr8 4719152 4722223 +
Rops Rops8g00962 Chr8 20686834 20688106 +
Seca Seca2g00846 Chr2 12921985 12923743 +
Spst Spst1g01176 Chr1 14077960 14080243 -
Trre Trre13g02349 Chr13 21237552 21239355 +
Vian Vian2g00516 Chr2 6227608 6228198 +
Vifa Vifa5g01656 Chr5 487689170 487690251 -
Vimu Vimu6g00660 Chr6 7751018 7751536 -
Viun Viun5g00748 Chr5 4664794 4667336 +
Vivi Vivi6g02998 Chr6 117348234 117349845 -
Vvi Vvi4g1036 Chr4 17179632 17199910 +
Lapu Lapu1g01454 Chr1 27374012 27379302 -
Lja Lja1g2998 Chr1 36383063 36388296 -
Phco Phco3g02691 Chr3 53423583 53428314 +
Pste Pste5g01159 Chr5 7537894 7540841 -
Pumo Pumo5g00143 Chr5 4340227 4345752 -
Pvu Pvu8g0537 Chr8 4703159 4707933 -
Rops Rops8g00960 Chr8 20668151 20673158 -
Seca Seca2g00844 Chr2 12908077 12913262 -
Spst Spst1g01178 Chr1 14087809 14092499 +
Viun Viun5g00746 Chr5 4653563 4656857 -
Vvi Vvi4g1037 Chr4 17200954 17201610 +
Bva Bva13g03563 Chr13 24052031 24052672 +
Lapu Lapu1g01453 Chr1 27372063 27372944 -
Lasa Lasa3g02079 Chr3 523965657 523966283 +
Lja Lja1g2997 Chr1 36381174 36382110 -
Mepo Mepo3g02268 Chr3 32390695 32391536 +
Mesa Mesa25g01947 Chr25 24090101 24090730 -
Phac Phac8g00763 Chr8 5000251 5001889 -
Phco Phco3g02692 Chr3 53429864 53430451 +
Pste Pste5g01157 Chr5 7533530 7534135 -
Pvu Pvu8g0536 Chr8 4701315 4701902 -
Rops Rops8g00958 Chr8 20666277 20667021 -
Seca Seca2g00843 Chr2 12903104 12903727 -
Spst Spst1g01179 Chr1 14094295 14094882 +
Trre Trre13g02347 Chr13 21220323 21220946 -
Vifa Vifa5g01659 Chr5 489058561 489059181 +
Vimu Vimu6g00662 Chr6 7761242 7769367 +
Viun Viun5g00745 Chr5 4652662 4653460 -
Vivi Vivi6g03000 Chr6 117369401 117370180 +
Vvi Vvi4g1038 Chr4 17206605 17210598 -
Bva Bva13g03564 Chr13 24052972 24058663 -
Bva Bva04g03480 Chr04 27521115 27527138 -
Lapu Lapu1g01452 Chr1 27364021 27370715 +
Lasa Lasa3g02080 Chr3 523976781 523981692 -
Lja Lja1g2996 Chr1 36373891 36380289 +
Mepo Mepo3g02270 Chr3 32405259 32410992 -
Mesa Mesa25g01946 Chr25 24065706 24071020 +
Phac Phac8g00762 Chr8 4992813 4999123 +
Phco Phco3g02693 Chr3 53432398 53437997 -
Pste Pste5g01156 Chr5 7526537 7532953 +
Pumo Pumo5g00141 Chr5 4330810 4337103 +
Pvu Pvu8g0535 Chr8 4693583 4699810 +
Rops Rops8g00957 Chr8 20657466 20664139 +
Seca Seca2g00842 Chr2 12894614 12902228 +
Spst Spst1g01180 Chr1 14096794 14102900 -
Trre Trre13g02346 Chr13 21213377 21218033 +
Vian Vian2g00514 Chr2 6208805 6214285 +
Vifa Vifa5g01660 Chr5 489062177 489067257 -
Vimu Vimu6g00663 Chr6 7764000 7769182 -
Viun Viun5g00744 Chr5 4645189 4651284 +
Vivi Vivi6g03001 Chr6 117372064 117377458 -
Vvi Vvi4g1039 Chr4 17227541 17235520 +
Bva Bva13g03565 Chr13 24061375 24065032 +
Bva Bva04g03481 Chr04 27528264 27532427 +
Lapu Lapu1g01451 Chr1 27355283 27360577 -
Lasa Lasa3g02081 Chr3 524113269 524118237 +
Lja Lja1g2995 Chr1 36363720 36368777 -
Mepo Mepo3g02271 Chr3 32414564 32420285 +
Mesa Mesa25g01945 Chr25 24053992 24059153 -
Phco Phco3g02694 Chr3 53441227 53446002 +
Pste Pste5g01153 Chr5 7516405 7521286 -
Pumo Pumo5g00140 Chr5 4323592 4328177 -
Pvu Pvu8g0534 Chr8 4684666 4690687 -
Rops Rops8g00956 Chr8 20621739 20628016 -
Seca Seca2g00841 Chr2 12657869 12664416 -
Spst Spst1g01181 Chr1 14105301 14110508 +
Trre Trre13g02344 Chr13 21198937 21204869 -
Vian Vian2g00513 Chr2 6185480 6190176 -
Vifa Vifa5g01662 Chr5 489088420 489092999 +
Vimu Vimu6g00664 Chr6 7775808 7780463 +
Viun Viun5g00742 Chr5 4634413 4639609 -
Vivi Vivi6g03007 Chr6 117445675 117450413 +
Vvi Vvi4g1040 Chr4 17238038 17244736 -
Bva Bva04g03482 Chr04 27533730 27540074 -
Lapu Lapu1g01450 Chr1 27349319 27354466 +
Lasa Lasa3g02082 Chr3 524183833 524186858 -
Lja Lja1g2994 Chr1 36357474 36363166 +
Mepo Mepo3g02272 Chr3 32425301 32430685 -
Mesa Mesa25g01944 Chr25 24046687 24051800 +
Phco Phco3g02696 Chr3 53447344 53452970 -
Pste Pste5g01151 Chr5 7503896 7510562 +
Pte Pte7g01084 Chr7 35403211 35404918 -
Pumo Pumo5g00139 Chr5 4315850 4322210 +
Pvu Pvu8g0533 Chr8 4678614 4684051 +
Rops Rops8g00955 Chr8 20615523 20620557 +
Spst Spst1g01182 Chr1 14112404 14117947 -
Trre Trre13g02342 Chr13 21189207 21192405 +
Vian Vian2g00512 Chr2 6177461 6183459 +
Vifa Vifa5g01663 Chr5 489094421 489097592 -
Vimu Vimu6g00666 Chr6 7787144 7788750 -
Viun Viun5g00741 Chr5 4628743 4633013 +
Vivi Vivi6g03008 Chr6 117451554 117454945 -
Vvi Vvi4g1041 Chr4 17250608 17259009 -
Acco Acco09g1949 Chr09 36420773 36426714 -
Accr Accr7g00221 Chr7 2864303 2865520 +
Bisa Bisa10g1418 Chr10 37707366 37709121 -
Bva Bva13g03566 Chr13 24066142 24068017 -
Bva Bva04g03483 Chr04 27543273 27543563 -
Dere Dere12g1076 Chr12 20724651 20726585 +
Enph Enph11g0233 Chr11 9273083 9274300 +
Glsi Glsi06g0718 Chr06 7036830 7047305 -
Lapu Lapu1g01449 Chr1 27342377 27344420 +
Lasa Lasa3g02083 Chr3 524197071 524198604 -
Lele Lele41g1235 Chr41 21227351 21231920 -
Lele Lele42g1191 Chr42 24165023 24166240 -
Lele Lele43g0161 Chr43 1506254 1511871 +
Lele Lele44g0162 Chr44 1013127 1016123 +
Lja Lja1g2992 Chr1 36347698 36349739 +
Mepo Mepo3g02273 Chr3 32434598 32436828 -
Mesa Mesa25g01943 Chr25 24041010 24042894 +
Mibi Mibi11g1722 Chr11 38314354 38315571 -
Prci Prci13g0275 Chr13 1847821 1850923 +
Pste Pste5g01147 Chr5 7482471 7483566 +
Pte Pte8g00609 Chr8 28635119 28637186 -
Pumo Pumo5g00137 Chr5 4302113 4303823 +
Pvu Pvu8g0532 Chr8 4642461 4644215 +
Rops Rops8g00954 Chr8 20610753 20612030 +
Seca Seca2g00837 Chr2 12590953 12592110 +
Spst Spst1g01184 Chr1 14141482 14142997 -
Trre Trre13g02340 Chr13 21183344 21185225 +
Vian Vian2g00510 Chr2 6144389 6145615 +
Vifa Vifa5g01664 Chr5 489114732 489116452 -
Vimu Vimu6g00667 Chr6 7810976 7812456 -
Viun Viun5g00740 Chr5 4625416 4626920 +
Vivi Vivi6g03009 Chr6 117462825 117464696 -
Vvi Vvi4g1042 Chr4 17262981 17265558 +
Adu Adu01g00012 Chr01 341616 345163 -
Arst Arst1g00021 Chr1 341864 345215 -
Bva Bva08g00635 Chr08 3304969 3307745 -
Lapu Lapu3g01572 Chr3 19163717 19168508 -
Lasa Lasa4g02467 Chr4 479500482 479502850 +
Lja Lja4g3312 Chr4 62580502 62584202 +
Mal Mal5g3564 Chr5 101642803 101645637 +
Mepo Mepo1g01946 Chr1 19664553 19668760 -
Mesa Mesa29g02068 Chr29 28083325 28086966 -
Mtr Mtr8g2601 Chr8 36546337 36550403 +
Phco Phco8g00576 Chr8 5734401 5737973 +
Psa Psa4g2085 Chr4 162287978 162290839 +
Pte Pte12g00367 Chr12 3046778 3049102 -
Pumo Pumo4g02010 Chr4 27507613 27515605 -
Pvu Pvu3g2537 Chr3 47221081 47224985 -
Rops Rops2g03493 Chr2 64585678 64591482 +
Seca Seca12g02532 Chr12 39909636 39913599 -
Spst Spst3g03985 Chr3 90369384 90372804 +
Tpr Tpr4g4072 Chr4 47511724 47514931 -
Trre Trre15g03923 Chr15 49157585 49160220 -
Tsu Tsu04g03286 Chr04 41959184 41962579 -
Vian Vian1g01691 Chr1 19519825 19523698 -
Vifa Vifa4g02563 Chr4 775798404 775800693 +
Vimu Vimu11g00511 Chr11 5519333 5523182 -
Viun Viun3g03784 Chr3 45014994 45018459 +
Vivi Vivi1g02918 Chr1 63674123 63676467 -
Vvi Vvi4g1043 Chr4 17272103 17283647 +
Bva Bva13g03567 Chr13 24068203 24073214 +
Lapu Lapu1g01448 Chr1 27336504 27341281 -
Lasa Lasa3g02084 Chr3 524283725 524287890 +
Lja Lja1g2991 Chr1 36341511 36346430 -
Mepo Mepo3g02274 Chr3 32441070 32446405 +
Mesa Mesa25g01942 Chr25 24033575 24037741 -
Pste Pste5g01144 Chr5 7476782 7481687 -
Pumo Pumo5g00136 Chr5 4296011 4300621 -
Pvu Pvu8g0531 Chr8 4636639 4641376 -
Rops Rops8g00953 Chr8 20590159 20596640 -
Seca Seca2g00836 Chr2 12580394 12581720 -
Spst Spst1g01185 Chr1 14143986 14149024 +
Trre Trre13g02339 Chr13 21176291 21180574 -
Vian Vian2g00509 Chr2 6139316 6143401 -
Vifa Vifa5g01666 Chr5 489966766 489981260 +
Vimu Vimu6g00668 Chr6 7812835 7817055 +
Viun Viun5g00739 Chr5 4620713 4624979 -
Vivi Vivi6g03012 Chr6 117496946 117500727 +
Lja Lja1g2992 Chr1 36347698 36349739 +