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
Vvi16g0679 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0680 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0681 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0682 Acco01g0401 Acco02g2583 Accr1g00212 Accr2g01209 . . Aed8g1979 Aed7g0471 . . . Ahy15g0956 Aip05g03701 Aip05g00984 Alju02g3503 Alju01g2616 . . . Apr6g0811 Arst5g02625 . Bach1g01277 . Bisa01g0619 Bisa03g1681 Bva03g01531 . . . Cca02g01701 Cca08g00514 Dere06g1488 Dere01g1161 . . Enph12g0998 . Glsi01g1689 Glsi12g1319 Gma10g01730 . . . Gso10g1614 . . . Lal1g0790 Lal2g0792 Lal9g0759 . . . . . . . . . . . . . Lele45g0276 Lele46g0300 Lele47g1110 Lele48g1173 Lele05g2017 Lele06g1855 Lele07g2060 Lele08g1855 Lja2g2481 Lja2g0066 . Mal6g3135 Mepo7g01059 . Mesa22g02567 . Mibi01g3265 Mibi02g2391 . Mtr6g1683 . . Phco5g00557 Phco6g02015 Prci14g1991 Prci1g1494 . . Pste9g01276 Pste4g00459 . Pte9g00259 . Pte9g00259 Pumo6g02728 . Pvu4g1352 Pvu7g1146 Rops5g00697 Rops6g01572 Seca10g04284 . Spst4g03051 Spst10g00315 Ssu7g1447 . Sto10g2598 Sto8g2935 . Tpr2g4497 Trre11g01558 . . Tsu06g03313 Vian8g01193 Vian3g01174 Vifa1g03952 . . . Viun4g02375 Viun7g02421 Vivi2g05658 . Vra8g1711 Vra1g0900
Vvi16g0683 . . . . . . . . . . . . . . . . . . Apr5g0717 . . . . . . . Bva03g01529 . . . . . . . . . . . . . . . . . . . . . Lal1g0004 . . . . . Lan13g0006 . . . . . . . Lasa7g00805 . . . . . . . . . . . . . . . . . . . . . Phac11g00013 . Phco9g00045 . . . . . Pste1g00051 . . Pte17g00015 . . . . Pvu11g0008 . . . . . Spst11g00280 . . . Sto10g2596 . . . . . . . . . . . Vimu5g02878 . . . . . . .
Vvi16g0684 . . . . . . . Aed7g0473 Aev05g3023 . Ahy15g3395 . Aip05g03704 . . . . . . Apr6g0809 Arst5g02623 . . . . . . Bva04g01055 . . . Cca08g00517 . . Dod02g3172 . . . . . Gma16g01668 . . . Gso16g1638 . . . . Lal2g0790 Lal9g0761 . . . . . . . . . . . Lasa1g02293 . . . . . . . . . Lja2g2479 . . Mal6g3133 Mepo7g01060 . Mesa22g02565 . . . . Mtr6g1681 . . Phco5g00559 . . . . . Pste9g01274 . . . . . Pumo6g02726 . Pvu4g1350 . Rops5g00699 . Seca10g04282 . Spst4g03053 . . . . Sto8g2956 . Tpr2g4495 Trre11g01554 . . Tsu06g03308 Vian8g01191 . Vifa1g03960 . Vimu8g01909 . Viun4g02370 . Vivi2g05656 . . Vra1g0903
Vvi16g0685 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0686 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0687 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0688 Acco01g0398 Acco02g2589 Accr1g00209 Accr2g01203 . Adu09g01809 Aed8g1983 Aed7g0475 Aev05g3021 Aev05g0912 Ahy15g3396 . Aip05g03706 Aip05g00978 . Alju01g2620 . . . Apr6g0807 Arst5g02621 Arst9g02391 . . . Bisa03g1686 . Bva04g01057 . . Cca02g01704 Cca08g00519 Dere06g1485 Dere01g1157 Dod02g3170 Dod02g1020 Enph12g0995 Enph2g1856 Glsi01g1685 Glsi12g1315 Gma10g01734 . . . Gso10g1616 . . . . Lal2g0788 Lal9g0763 . . . . . . . . . . Lapu8g01696 . Lasa6g02737 . . . . . . . . . . . Mal6g3113 . Mepo4g03123 . . . Mibi02g2395 . Mtr6g1663 . . Phco5g00562 Phco6g02018 Prci14g1999 Prci1g1489 . . Pste9g01272 Pste4g00452 Pte16g00190 Pte9g00260 . Pte9g00260 Pumo6g02724 Pumo3g01685 Pvu4g1347 Pvu7g1143 Rops5g00702 Rops6g01570 Seca10g04280 . Spst4g01675 Spst10g00318 Ssu7g1444 . Sto10g2595 Sto8g2966 . Tpr2g4493 Trre11g01540 Trre1g03467 . Tsu06g03303 Vian8g01189 Vian3g01171 Vifa1g03972 Vifa3g01657 . Vimu3g02371 Viun4g02368 Viun7g02424 Vivi2g05652 Vivi1g06088 Vra8g1713 Vra1g0905
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev05g0912 Chr05 6423884 6427075 -
Aip Aip05g00978 Chr05 13810838 13844714 +
Dod Dod02g1020 Chr02 12840602 12847121 -
Spst Spst4g01675 Chr4 56473730 56477349 -
Ahy Ahy15g0956 Chr15 14457296 14460342 +
Aip Aip05g00984 Chr05 13941248 13943653 +
Spst Spst4g01675 Chr4 56473730 56477349 -
Vvi Vvi16g0679 Chr16 13817178 13819671 -
Vvi Vvi16g0680 Chr16 13821011 13822836 +
Vvi Vvi16g0681 Chr16 13836388 13836806 +
Vvi Vvi16g0682 Chr16 13851275 13853563 -
Acco Acco01g0401 Chr01 4758313 4762421 +
Acco Acco02g2583 Chr02 24394826 24397258 -
Accr Accr1g00212 Chr1 3860963 3863407 +
Accr Accr2g01209 Chr2 40406168 40410387 +
Aed Aed8g1979 Chr8 24297901 24304040 -
Aed Aed7g0471 Chr7 3357614 3360064 -
Ahy Ahy15g0956 Chr15 14457296 14460342 +
Aip Aip05g03701 Chr05 144997387 144998689 -
Aip Aip05g00984 Chr05 13941248 13943653 +
Alju Alju02g3503 Chr02 53469371 53473337 -
Alju Alju01g2616 Chr01 25473127 25475559 -
Apr Apr6g0811 Chr6 12612817 12618241 +
Arst Arst5g02625 Chr5 80537270 80540253 +
Bach Bach1g01277 Chr1 26181753 26184191 +
Bisa Bisa01g0619 Chr01 9516178 9520210 -
Bisa Bisa03g1681 Chr03 22924561 22926864 -
Bva Bva03g01531 Chr03 14395240 14399639 +
Cca Cca02g01701 Chr02 35976137 35980793 -
Cca Cca08g00514 Chr08 8293900 8297594 -
Dere Dere06g1488 Chr06 27925409 27927832 +
Dere Dere01g1161 Chr01 23486910 23489201 +
Enph Enph12g0998 Chr12 16528036 16534084 +
Glsi Glsi01g1689 Chr01 78006161 78008596 +
Glsi Glsi12g1319 Chr12 30682203 30684650 +
Gma Gma10g01730 Chr10 44473899 44476369 -
Gso Gso10g1614 Chr10 42670250 42672804 -
Lal Lal1g0790 Chr1 5364154 5366640 -
Lal Lal2g0792 Chr2 5088781 5091270 +
Lal Lal9g0759 Chr9 5325022 5327624 -
Lele Lele45g0276 Chr45 2250543 2252978 +
Lele Lele46g0300 Chr46 1990160 1992607 +
Lele Lele47g1110 Chr47 16733490 16735925 -
Lele Lele48g1173 Chr48 16268320 16270755 -
Lele Lele05g2017 Chr05 14384678 14387110 -
Lele Lele06g1855 Chr06 13039770 13042202 -
Lele Lele07g2060 Chr07 13845512 13847944 -
Lele Lele08g1855 Chr08 12903846 12906278 -
Lja Lja2g2481 Chr2 31644728 31647620 +
Lja Lja2g0066 Chr2 508767 511728 +
Mal Mal6g3135 Chr6 91576198 91578723 +
Mepo Mepo7g01059 Chr7 16131401 16134637 -
Mesa Mesa22g02567 Chr22 67864625 67866979 +
Mibi Mibi01g3265 Chr01 57742724 57745189 -
Mibi Mibi02g2391 Chr02 27825912 27828494 -
Mtr Mtr6g1683 Chr6 31269960 31273121 +
Phco Phco5g00557 Chr5 5212255 5214687 -
Phco Phco6g02015 Chr6 39873773 39875923 -
Prci Prci14g1991 Chr14 27448584 27454607 -
Prci Prci1g1494 Chr1 33770683 33775934 +
Pste Pste9g01276 Chr9 11221698 11226178 +
Pste Pste4g00459 Chr4 3490697 3492808 +
Pte Pte9g00259 Chr9 2935128 2939140 -
Pte Pte9g00259 Chr9 2935128 2939140 -
Pumo Pumo6g02728 Chr6 65564962 65568058 +
Pvu Pvu4g1352 Chr4 40335823 40342441 +
Pvu Pvu7g1146 Chr7 14414246 14420229 +
Rops Rops5g00697 Chr5 12324194 12327151 -
Rops Rops6g01572 Chr6 32700412 32702577 +
Seca Seca10g04284 Chr10 97090723 97092981 +
Spst Spst4g03051 Chr4 69869545 69871983 -
Spst Spst10g00315 Chr10 3149952 3152102 -
Ssu Ssu7g1447 Chr7 30952000 30956208 +
Sto Sto10g2598 Chr10 36264467 36266575 +
Sto Sto8g2935 Chr8 21614972 21619236 -
Tpr Tpr2g4497 Chr2 49493927 49497243 +
Trre Trre11g01558 Chr11 15202908 15205451 +
Tsu Tsu06g03313 Chr06 43986163 43989046 +
Vian Vian8g01193 Chr8 30588129 30592455 +
Vian Vian3g01174 Chr3 13028325 13030475 +
Vifa Vifa1g03952 Chr1 607042940 607045483 -
Viun Viun4g02375 Chr4 39181582 39186915 +
Viun Viun7g02421 Chr7 28249208 28254476 -
Vivi Vivi2g05658 Chr2 184841128 184844105 +
Vra Vra8g1711 Chr8 34258017 34262751 -
Vra Vra1g0900 Chr1 10459057 10464490 -
Vvi Vvi16g0683 Chr16 13936477 13955129 +
Apr Apr5g0717 Chr5 9762507 9768903 -
Bva Bva03g01529 Chr03 14378818 14383677 -
Lal Lal1g0004 Chr1 81848 120096 +
Lan Lan13g0006 Chr13 35646 36599 +
Lasa Lasa7g00805 Chr7 66744389 66752094 +
Phac Phac11g00013 Chr11 152237 159264 +
Phco Phco9g00045 Chr9 306668 314198 +
Pste Pste1g00051 Chr1 254700 279588 +
Pte Pte17g00015 Chr17 236997 245047 -
Pvu Pvu11g0008 Chr11 48751 55397 +
Spst Spst11g00280 Chr11 9849649 9863342 -
Sto Sto10g2596 Chr10 36238789 36245066 -
Vimu Vimu5g02878 Chr5 37890386 37890856 -
Vvi Vvi16g0684 Chr16 13956454 13962522 -
Aed Aed7g0473 Chr7 3371174 3374935 -
Aev Aev05g3023 Chr05 30825109 30828488 +
Ahy Ahy15g3395 Chr15 156446112 156450216 -
Aip Aip05g03704 Chr05 145025993 145030105 -
Apr Apr6g0809 Chr6 12585634 12589695 +
Arst Arst5g02623 Chr5 80514213 80518321 +
Bva Bva04g01055 Chr04 6947769 6951316 -
Cca Cca08g00517 Chr08 8381793 8397540 +
Dod Dod02g3172 Chr02 66684120 66688306 +
Gma Gma16g01668 Chr16 37713326 37717582 +
Gso Gso16g1638 Chr16 37070304 37074646 +
Lal Lal2g0790 Chr2 5074033 5077815 +
Lal Lal9g0761 Chr9 5337858 5342458 -
Lasa Lasa1g02293 Chr1 257105584 257107419 -
Lja Lja2g2479 Chr2 31493829 31498148 +
Mal Mal6g3133 Chr6 91535686 91538071 +
Mepo Mepo7g01060 Chr7 16159927 16165185 -
Mesa Mesa22g02565 Chr22 67830047 67834610 +
Mtr Mtr6g1681 Chr6 31223753 31228809 +
Phco Phco5g00559 Chr5 5242249 5245718 -
Pste Pste9g01274 Chr9 11174168 11179157 +
Pumo Pumo6g02726 Chr6 65526967 65531358 +
Pvu Pvu4g1350 Chr4 40304896 40308690 +
Rops Rops5g00699 Chr5 12369611 12374791 -
Seca Seca10g04282 Chr10 96966103 96970340 +
Spst Spst4g03053 Chr4 69891335 69895553 -
Sto Sto8g2956 Chr8 21850859 21855449 -
Tpr Tpr2g4495 Chr2 49461377 49466466 +
Trre Trre11g01554 Chr11 15104887 15108868 +
Tsu Tsu06g03308 Chr06 43917483 43922091 +
Vian Vian8g01191 Chr8 30555151 30558883 +
Vifa Vifa1g03960 Chr1 608509934 608513918 -
Vimu Vimu8g01909 Chr8 24717082 24720796 -
Viun Viun4g02370 Chr4 39153383 39157555 +
Vivi Vivi2g05656 Chr2 184796729 184801038 +
Vra Vra1g0903 Chr1 10520302 10524416 -
Vvi Vvi16g0685 Chr16 13978509 13986616 -
Vvi Vvi16g0686 Chr16 13992714 13993159 +
Vvi Vvi16g0687 Chr16 14002483 14003391 +
Vvi Vvi16g0688 Chr16 14008369 14015993 -
Acco Acco01g0398 Chr01 4730991 4733772 +
Acco Acco02g2589 Chr02 24455541 24459278 -
Accr Accr1g00209 Chr1 3821448 3824218 +
Accr Accr2g01203 Chr2 40319831 40323592 +
Adu Adu09g01809 Chr09 88240779 88247303 -
Aed Aed8g1983 Chr8 24327687 24333637 -
Aed Aed7g0475 Chr7 3381434 3386080 -
Aev Aev05g3021 Chr05 30813474 30817113 +
Aev Aev05g0912 Chr05 6423884 6427075 -
Ahy Ahy15g3396 Chr15 156459542 156463949 -
Aip Aip05g03706 Chr05 145038344 145042723 -
Aip Aip05g00978 Chr05 13810838 13844714 +
Alju Alju01g2620 Chr01 25540030 25543764 -
Apr Apr6g0807 Chr6 12564164 12570828 +
Arst Arst5g02621 Chr5 80485697 80490056 +
Arst Arst9g02391 Chr9 86130642 86136835 -
Bisa Bisa03g1686 Chr03 22968048 22971414 -
Bva Bva04g01057 Chr04 6959270 6963984 -
Cca Cca02g01704 Chr02 36004701 36010982 -
Cca Cca08g00519 Chr08 8430137 8436060 -
Dere Dere06g1485 Chr06 27887618 27892492 +
Dere Dere01g1157 Chr01 23444217 23448491 +
Dod Dod02g3170 Chr02 66668396 66673190 +
Dod Dod02g1020 Chr02 12840602 12847121 -
Enph Enph12g0995 Chr12 16503450 16509077 +
Enph Enph2g1856 Chr2 18004448 18009093 -
Glsi Glsi01g1685 Chr01 77950245 77954601 +
Glsi Glsi12g1315 Chr12 30660086 30665847 +
Gma Gma10g01734 Chr10 44503251 44510813 -
Gso Gso10g1616 Chr10 42699229 42706469 -
Lal Lal2g0788 Chr2 5065424 5070704 +
Lal Lal9g0763 Chr9 5350412 5356304 -
Lapu Lapu8g01696 Chr8 34033724 34035579 +
Lasa Lasa6g02737 Chr6 515371677 515374288 +
Mal Mal6g3113 Chr6 90387318 90392813 +
Mepo Mepo4g03123 Chr4 40598758 40603565 +
Mibi Mibi02g2395 Chr02 27905450 27909372 -
Mtr Mtr6g1663 Chr6 30759002 30764462 +
Phco Phco5g00562 Chr5 5256224 5261413 -
Phco Phco6g02018 Chr6 39907592 39913467 -
Prci Prci14g1999 Chr14 27477726 27484318 -
Prci Prci1g1489 Chr1 33707682 33712676 +
Pste Pste9g01272 Chr9 11154787 11160509 +
Pste Pste4g00452 Chr4 3441544 3448480 +
Pte Pte16g00190 Chr16 2234692 2237907 -
Pte Pte9g00260 Chr9 2946217 2951852 -
Pte Pte9g00260 Chr9 2946217 2951852 -
Pumo Pumo6g02724 Chr6 65507693 65513847 +
Pumo Pumo3g01685 Chr3 25943886 25950131 +
Pvu Pvu4g1347 Chr4 40275694 40281744 +
Pvu Pvu7g1143 Chr7 14360489 14367811 +
Rops Rops5g00702 Chr5 12392631 12399257 -
Rops Rops6g01570 Chr6 32675152 32680958 +
Seca Seca10g04280 Chr10 96844045 96851477 +
Spst Spst4g01675 Chr4 56473730 56477349 -
Spst Spst10g00318 Chr10 3170002 3175688 -
Ssu Ssu7g1444 Chr7 30914346 30919352 +
Sto Sto10g2595 Chr10 36233589 36237608 +
Sto Sto8g2966 Chr8 21921411 21927229 -
Tpr Tpr2g4493 Chr2 49423403 49428374 +
Trre Trre11g01540 Chr11 15003976 15008139 +
Trre Trre1g03467 Chr1 31191082 31195126 +
Tsu Tsu06g03303 Chr06 43855017 43859550 +
Vian Vian8g01189 Chr8 30521729 30526983 +
Vian Vian3g01171 Chr3 12990650 12996749 +
Vifa Vifa1g03972 Chr1 610943448 610946139 -
Vifa Vifa3g01657 Chr3 428297436 428300368 -
Vimu Vimu3g02371 Chr3 38164775 38170210 -
Viun Viun4g02368 Chr4 39131730 39138413 +
Viun Viun7g02424 Chr7 28282839 28289366 -
Vivi Vivi2g05652 Chr2 184719849 184723314 +
Vivi Vivi1g06088 Chr1 135577438 135581042 -
Vra Vra8g1713 Chr8 34283328 34290272 -
Vra Vra1g0905 Chr1 10546658 10552781 -
Aed Aed8g1983 Chr8 24327687 24333637 -
Cca Cca02g01704 Chr02 36004701 36010982 -
Ssu Ssu7g1444 Chr7 30914346 30919352 +
Vra Vra8g1713 Chr8 34283328 34290272 -