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
Vvi1g0801 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0802 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0803 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0804 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0805 . . . . . . Aed6g0308 . . Aev03g0556 . Ahy13g3691 . Aip03g04133 . . . Amo13g4669 Apr7g1633 Apr3g0799 Arst3g04927 . . . . . Bva08g01320 Bva11g01135 . Car07g01966 Cca06g00818 . . . . Dod04g0057 . . . . Gma02g00310 Gma01g00288 . . Gso2g0290 Gso2g0290 . . . . . . Lal16g0542 . . . . . . . Lapu2g01583 . . . . . . . . . . . Lja2g0977 Lja4g2809 Mal6g0135 Mal5g2856 . . . . . . Mtr5g1408 Mtr8g1969 . . Phco4g01448 . . . . Psa4g2884 Pste1g01983 . . . . . Pumo8g01217 . Pvu2g0739 . . . . . Spst2g01421 . Ssu2g1775 . Sto11g1115 Sto6g4330 Tpr2g1731 Tpr4g4763 . . Tsu05g01472 Tsu04g02839 Vian10g01170 . Vifa1g04659 . Vimu7g03711 . Viun2g01226 . Vivi2g01348 . . .
Vvi1g0806 . . . . . . . . . Aev03g0555 . Ahy13g3692 . Aip03g04134 . . . Amo13g4670 Apr7g1632 Apr3g0800 . . . . . . Bva08g01319 . . Car07g01967 . . . . . Dod04g0056 . . . . Gma02g00309 . Gma08g02701 Gma18g01245 Gso2g0289 . Gso2g0289 Gso2g0289 . . . . . Lal15g0489 . . . . . . . . . . . . . . . . . . . Lja4g2810 . Mal5g2857 . . . . . . . Mtr8g1968 . . . Phco7g01254 . . . Psa4g2887 . . . . . . . . . Pvu9g1296 . . . . . . . . Sto11g1114 Sto6g4331 . Tpr4g4764 . . . Tsu04g02838 . . . . . . . . . . . .
Vvi1g0807 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa4g2892 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0808 Acco11g1015 Acco13g0627 Accr9g01270 Accr12g00569 Adu05g01474 . Aed6g0310 Aed7g1646 Aev05g0004 Aev03g0554 Ahy15g1428 Ahy13g3695 Aip05g01502 Aip03g04135 Alju09g1045 Alju13g1560 Amo15g0134 Amo13g4672 . . Arst5g01886 Arst3g04930 . Bach2g02120 Bisa11g2278 Bisa02g1321 . Bva11g01134 . Car07g01969 Cca06g00815 Cca11g00676 Dere09g1568 Dere14g0560 Dod02g1463 . Enph13g0157 Enph5g0499 Glsi05g0855 Glsi13g1278 . Gma01g00290 Gma08g02703 Gma18g01242 . . . . . . . . Lal16g0543 . . . . . . . Lapu2g01582 Lapu9g00739 Lasa2g00455 Lasa5g02221 Lele49g1044 Lele50g1135 Lele51g1062 Lele52g1102 Lele17g1027 Lele18g0508 Lele19g0529 Lele20g0925 Lja2g0979 . Mal6g0136 Mal5g2861 Mepo5g01587 Mepo3g05863 Mesa17g01781 Mesa9g03328 Mibi12g0857 Mibi13g0619 Mtr5g1410 Mtr8g1966 . Phac9g02981 Phco4g01451 Phco7g02144 Prci10g1716 . . Psa4g2918 Pste1g02001 Pste2g00842 Pte14g00244 . Pte3g00251 . Pumo8g01215 Pumo10g02048 Pvu2g0741 Pvu9g1853 Rops1g00861 Rops10g00644 Seca10g01489 Seca4g03089 Spst3g02550 Spst9g02221 Ssu2g1773 Ssu5g1070 Sto11g1113 . Tpr2g1733 Tpr4g4769 Trre9g02202 Trre5g02672 Tsu05g01473 Tsu04g02836 Vian10g01168 Vian4g00842 Vifa1g04668 Vifa2g02047 Vimu7g03714 Vimu10g01214 Viun2g01222 Viun9g01193 Vivi2g01351 Vivi3g03884 . .
Vvi1g0809 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0810 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0801 Chr1 8121188 8123308 +
Vvi Vvi1g0802 Chr1 8136495 8136776 +
Vvi Vvi1g0803 Chr1 8170639 8175052 +
Vvi Vvi1g0804 Chr1 8176721 8182376 -
Vvi Vvi1g0805 Chr1 8197152 8201664 +
Aed Aed6g0308 Chr6 2693448 2696019 -
Aev Aev03g0556 Chr03 4087505 4089706 -
Ahy Ahy13g3691 Chr13 135596816 135600383 +
Aip Aip03g04133 Chr03 125116654 125119326 +
Amo Amo13g4669 Chr13 144301055 144304886 +
Apr Apr7g1633 Chr7 23504384 23508616 -
Apr Apr3g0799 Chr3 20918968 20924298 +
Arst Arst3g04927 Chr3 125023798 125027261 +
Bva Bva08g01320 Chr08 6912304 6915283 -
Bva Bva11g01135 Chr11 12513206 12517316 -
Car Car07g01966 Chr07 22748427 22752632 +
Cca Cca06g00818 Chr06 21200496 21202755 +
Dod Dod04g0057 Chr04 670268 676131 -
Gma Gma02g00310 Chr02 3250422 3254579 -
Gma Gma01g00288 Chr01 3249580 3253116 -
Gso Gso2g0290 Chr2 3151388 3156164 -
Gso Gso2g0290 Chr2 3151388 3156164 -
Lal Lal16g0542 Chr16 3471542 3474434 +
Lapu Lapu2g01583 Chr2 29375471 29380664 +
Lja Lja2g0977 Chr2 9168366 9170881 +
Lja Lja4g2809 Chr4 46865638 46880475 +
Mal Mal6g0135 Chr6 1917086 1921987 +
Mal Mal5g2856 Chr5 84826536 84833221 +
Mtr Mtr5g1408 Chr5 14750836 14755115 +
Mtr Mtr8g1969 Chr8 29610484 29613652 -
Phco Phco4g01448 Chr4 12738710 12739549 +
Psa Psa4g2884 Chr4 230486864 230489702 +
Pste Pste1g01983 Chr1 6185069 6188501 -
Pumo Pumo8g01217 Chr8 43787710 43790838 +
Pvu Pvu2g0739 Chr2 9756279 9760846 -
Spst Spst2g01421 Chr2 12923445 12926993 -
Ssu Ssu2g1775 Chr2 68457648 68460274 +
Sto Sto11g1115 Chr11 11203159 11204408 -
Sto Sto6g4330 Chr6 45982466 45985152 +
Tpr Tpr2g1731 Chr2 20466913 20472672 +
Tpr Tpr4g4763 Chr4 56172379 56177968 +
Tsu Tsu05g01472 Chr05 14038622 14045234 +
Tsu Tsu04g02839 Chr04 34057685 34063414 -
Vian Vian10g01170 Chr10 19238536 19241911 +
Vifa Vifa1g04659 Chr1 728751917 728755063 +
Vimu Vimu7g03711 Chr7 32410207 32411013 -
Viun Viun2g01226 Chr2 22950462 22954111 +
Vivi Vivi2g01348 Chr2 57521578 57525038 +
Vvi Vvi1g0806 Chr1 8209643 8211609 +
Aev Aev03g0555 Chr03 4064008 4066568 -
Ahy Ahy13g3692 Chr13 135654417 135658815 +
Aip Aip03g04134 Chr03 125138383 125142073 +
Amo Amo13g4670 Chr13 144329703 144333778 +
Apr Apr7g1632 Chr7 23484192 23486949 -
Apr Apr3g0800 Chr3 20974622 20977193 +
Bva Bva08g01319 Chr08 6900691 6902541 -
Car Car07g01967 Chr07 22782249 22784944 +
Dod Dod04g0056 Chr04 645984 649138 -
Gma Gma02g00309 Chr02 3231211 3233821 -
Gma Gma08g02701 Chr08 42317771 42322115 +
Gma Gma18g01245 Chr18 20316725 20317670 +
Gso Gso2g0289 Chr2 3131579 3134656 -
Gso Gso2g0289 Chr2 3131579 3134656 -
Gso Gso2g0289 Chr2 3131579 3134656 -
Lal Lal15g0489 Chr15 3348335 3351289 +
Lja Lja4g2810 Chr4 47138435 47140863 +
Mal Mal5g2857 Chr5 84867228 84869307 +
Mtr Mtr8g1968 Chr8 29587692 29590127 -
Phco Phco7g01254 Chr7 11127911 11129245 -
Psa Psa4g2887 Chr4 231037094 231039921 +
Pvu Pvu9g1296 Chr9 18605290 18606609 -
Sto Sto11g1114 Chr11 11194452 11201036 -
Sto Sto6g4331 Chr6 45999975 46002003 +
Tpr Tpr4g4764 Chr4 56205155 56207814 +
Tsu Tsu04g02838 Chr04 34022172 34024772 -
Vvi Vvi1g0807 Chr1 8215666 8218166 -
Psa Psa4g2892 Chr4 231577850 231580276 -
Vvi Vvi1g0808 Chr1 8251599 8253586 +
Acco Acco11g1015 Chr11 22307977 22310003 -
Acco Acco13g0627 Chr13 4603436 4605453 +
Accr Accr9g01270 Chr9 16744737 16746755 +
Accr Accr12g00569 Chr12 5367371 5369388 +
Adu Adu05g01474 Chr05 24194543 24197664 +
Aed Aed6g0310 Chr6 2712734 2715705 +
Aed Aed7g1646 Chr7 19722300 19725432 -
Aev Aev05g0004 Chr05 26790 28826 -
Aev Aev03g0554 Chr03 4059165 4061160 -
Ahy Ahy15g1428 Chr15 25543433 25546473 +
Ahy Ahy13g3695 Chr13 135695081 135697977 +
Aip Aip05g01502 Chr05 24552393 24555548 +
Aip Aip03g04135 Chr03 125169796 125172509 +
Alju Alju09g1045 Chr09 32815237 32818210 -
Alju Alju13g1560 Chr13 33852941 33854970 -
Amo Amo15g0134 Chr15 5141548 5144557 -
Amo Amo13g4672 Chr13 144390976 144393571 +
Arst Arst5g01886 Chr5 24242250 24245285 +
Arst Arst3g04930 Chr3 125071442 125074537 +
Bach Bach2g02120 Chr2 28344840 28346907 -
Bisa Bisa11g2278 Chr11 46828323 46830170 +
Bisa Bisa02g1321 Chr02 22482990 22484993 +
Bva Bva11g01134 Chr11 12504427 12506689 -
Car Car07g01969 Chr07 22861552 22863969 +
Cca Cca06g00815 Chr06 21160505 21162485 -
Cca Cca11g00676 Chr11 11261214 11263549 +
Dere Dere09g1568 Chr09 19983412 19985430 +
Dere Dere14g0560 Chr14 5707584 5709606 -
Dod Dod02g1463 Chr02 17459873 17462781 +
Enph Enph13g0157 Chr13 7307140 7310323 -
Enph Enph5g0499 Chr5 4088823 4093128 +
Glsi Glsi05g0855 Chr05 58899758 58901617 -
Glsi Glsi13g1278 Chr13 30173716 30175730 -
Gma Gma01g00290 Chr01 3282407 3284403 +
Gma Gma08g02703 Chr08 42388641 42390798 +
Gma Gma18g01242 Chr18 20226731 20228955 -
Lal Lal16g0543 Chr16 3481001 3484093 +
Lapu Lapu2g01582 Chr2 29347636 29350808 -
Lapu Lapu9g00739 Chr9 9793073 9796001 +
Lasa Lasa2g00455 Chr2 64802788 64804790 -
Lasa Lasa5g02221 Chr5 462764869 462766880 +
Lele Lele49g1044 Chr49 6718150 6720150 +
Lele Lele50g1135 Chr50 7525322 7527317 +
Lele Lele51g1062 Chr51 6835657 6837658 +
Lele Lele52g1102 Chr52 7470835 7472830 +
Lele Lele17g1027 Chr17 20932767 20935282 -
Lele Lele18g0508 Chr18 3017755 3019925 +
Lele Lele19g0529 Chr19 3076682 3078520 +
Lele Lele20g0925 Chr20 15503625 15508818 -
Lja Lja2g0979 Chr2 9192698 9195244 +
Mal Mal6g0136 Chr6 1958442 1960428 +
Mal Mal5g2861 Chr5 84919835 84921250 +
Mepo Mepo5g01587 Chr5 16810496 16813189 +
Mepo Mepo3g05863 Chr3 72966317 72968990 +
Mesa Mesa17g01781 Chr17 25226776 25228617 +
Mesa Mesa9g03328 Chr9 64121260 64123298 +
Mibi Mibi12g0857 Chr12 22461701 22463670 -
Mibi Mibi13g0619 Chr13 8139202 8141025 +
Mtr Mtr5g1410 Chr5 14775448 14778389 +
Mtr Mtr8g1966 Chr8 29549409 29550944 -
Phac Phac9g02981 Chr9 29067195 29071569 +
Phco Phco4g01451 Chr4 12787068 12789055 +
Phco Phco7g02144 Chr7 38028618 38030659 +
Prci Prci10g1716 Chr10 12660028 12662503 +
Psa Psa4g2918 Chr4 234117937 234120820 -
Pste Pste1g02001 Chr1 6255760 6257591 +
Pste Pste2g00842 Chr2 9052527 9054712 +
Pte Pte14g00244 Chr14 10246371 10248857 -
Pte Pte3g00251 Chr3 2147942 2149947 +
Pumo Pumo8g01215 Chr8 43749537 43751039 -
Pumo Pumo10g02048 Chr10 27512418 27515063 +
Pvu Pvu2g0741 Chr2 9822329 9825223 +
Pvu Pvu9g1853 Chr9 26356444 26358912 +
Rops Rops1g00861 Chr1 20928044 20930995 +
Rops Rops10g00644 Chr10 15803936 15806095 -
Seca Seca10g01489 Chr10 16068291 16070986 +
Seca Seca4g03089 Chr4 53029143 53029532 +
Spst Spst3g02550 Chr3 73680044 73682025 -
Spst Spst9g02221 Chr9 49893892 49895939 +
Ssu Ssu2g1773 Chr2 68367438 68369440 -
Ssu Ssu5g1070 Chr5 33808086 33810031 +
Sto Sto11g1113 Chr11 11176227 11190378 -
Tpr Tpr2g1733 Chr2 20494658 20497512 +
Tpr Tpr4g4769 Chr4 56265297 56267331 +
Trre Trre9g02202 Chr9 23872284 23874294 +
Trre Trre5g02672 Chr5 21033339 21035387 -
Tsu Tsu05g01473 Chr05 14104203 14107220 +
Tsu Tsu04g02836 Chr04 33954045 33955130 -
Vian Vian10g01168 Chr10 19187387 19189373 -
Vian Vian4g00842 Chr4 11278532 11280515 -
Vifa Vifa1g04668 Chr1 729695507 729697485 +
Vifa Vifa2g02047 Chr2 532340747 532342797 +
Vimu Vimu7g03714 Chr7 32466009 32467997 +
Vimu Vimu10g01214 Chr10 12031268 12033251 -
Viun Viun2g01222 Chr2 22918122 22920954 -
Viun Viun9g01193 Chr9 10973666 10976083 -
Vivi Vivi2g01351 Chr2 57727341 57730167 +
Vivi Vivi3g03884 Chr3 67006496 67008852 -
Vvi Vvi1g0809 Chr1 8275280 8275770 -
Vvi Vvi1g0810 Chr1 8290725 8291027 +
Acco Acco13g0627 Chr13 4603436 4605453 +
Accr Accr12g00569 Chr12 5367371 5369388 +
Alju Alju13g1560 Chr13 33852941 33854970 -
Arst Arst3g04930 Chr3 125071442 125074537 +
Bach Bach2g02120 Chr2 28344840 28346907 -
Bisa Bisa02g1321 Chr02 22482990 22484993 +
Dere Dere14g0560 Chr14 5707584 5709606 -
Enph Enph5g0499 Chr5 4088823 4093128 +
Glsi Glsi13g1278 Chr13 30173716 30175730 -
Lapu Lapu9g00739 Chr9 9793073 9796001 +
Lasa Lasa5g02221 Chr5 462764869 462766880 +
Lele Lele17g1027 Chr17 20932767 20935282 -
Lele Lele18g0508 Chr18 3017755 3019925 +
Lele Lele19g0529 Chr19 3076682 3078520 +
Lele Lele20g0925 Chr20 15503625 15508818 -
Mepo Mepo3g05863 Chr3 72966317 72968990 +
Mesa Mesa9g03328 Chr9 64121260 64123298 +
Mibi Mibi13g0619 Chr13 8139202 8141025 +
Phac Phac9g02981 Chr9 29067195 29071569 +
Phco Phco7g02144 Chr7 38028618 38030659 +
Pste Pste2g00842 Chr2 9052527 9054712 +
Pte Pte3g00251 Chr3 2147942 2149947 +
Pumo Pumo10g02048 Chr10 27512418 27515063 +
Pvu Pvu9g1853 Chr9 26356444 26358912 +
Rops Rops10g00644 Chr10 15803936 15806095 -
Seca Seca4g03089 Chr4 53029143 53029532 +
Spst Spst9g02221 Chr9 49893892 49895939 +
Trre Trre5g02672 Chr5 21033339 21035387 -
Vian Vian4g00842 Chr4 11278532 11280515 -
Vifa Vifa2g02047 Chr2 532340747 532342797 +
Vimu Vimu10g01214 Chr10 12031268 12033251 -
Viun Viun9g01193 Chr9 10973666 10976083 -
Vivi Vivi3g03884 Chr3 67006496 67008852 -