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
Vvi4g1494 . Acco04g2145 . Accr8g00600 . Adu03g03049 Aed5g2118 . Aev03g2904 . Ahy13g3078 . Aip03g03482 . . Alju06g2119 Amo13g3757 . . . . Arst3g04015 . Bach2g00025 . Bisa08g2455 . . . . Cca09g02252 . . Dere03g0370 Dod04g2526 . . Enph6g0317 . Glsi02g0343 . . . . . . . . . . . . . . . . . . . . . Lapu3g03427 . Lasa7g04512 . . . . Lele21g1506 Lele22g1495 Lele23g0506 Lele24g1446 . Lja4g0605 . Mal7g4730 . Mepo2g04408 . Mesa13g00714 . Mibi09g0615 . Mtr8g3274 . Phac2g04080 . Phco4g03083 . Prci4g2391 . . . Pste3g01582 . . Pte2g02602 . . Pumo6g00681 . Pvu2g2789 . Rops2g00794 . Seca12g06276 . Spst3g01316 Ssu5g2853 . Sto3g3186 . . Tpr3g0829 . Trre7g05181 . Tsu02g00666 . Vian1g03656 . Vifa6g03217 . . . Viun3g00859 . Vivi5g04458 . .
Vvi4g1495 . . . . Adu10g01764 . . . Aev03g2905 . Ahy13g3077 Ahy20g1993 Aip03g03481 Aip10g02338 . . Amo13g3756 . . . Arst3g04014 . . . . . . . . . Cca09g02253 . . . Dod04g2527 Dod09g1805 . . . . . . . . . . . . . . Lal17g0734 . . . . . . . . . Lapu9g01140 . Lasa5g03340 . . . . . . . . . Lja1g4517 . Mal2g1518 . Mepo3g06816 . Mesa9g04336 . . . Mtr3g3338 . . . Phco7g01707 . . . . . . . . Pte1g02101 . . Pumo10g01654 . Pvu9g1543 . Rops10g01015 . Seca4g01978 . Spst9g01763 . Ssu5g2854 . . . Tpr3g3138 . Trre5g04294 . Tsu07g01333 . Vian4g01082 . Vifa2g03164 . Vimu10g01763 . Viun9g01806 . Vivi3g02471 . . .
Vvi4g1496 . . . . . . . . . . . . . . . . . . Apr1g0461 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1497 . . . . Adu10g01766 . . . . . . Ahy20g1994 . Aip10g02339 . . . . . . Arst10g02261 . . . . . . . . . . . . . . Dod09g1806 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo3g07006 . . . . . . . . . Phco7g01708 . . . . . Pste2g03715 . . . . . Pumo10g01655 . Pvu9g1544 . Rops10g01014 . . . Spst9g01765 . . . . . . . Trre5g04640 . . . Vian4g01081 . . . Vimu10g01762 . Viun9g01805 . . . . .
Vvi4g1498 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1499 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1500 . . . . . Adu03g03046 . . . . Ahy13g3075 . Aip03g03479 . . . Amo13g3754 . . . . Arst3g04013 . Bach2g00023 . . . . . . . . . . Dod04g2528 . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03428 . Lasa7g04517 . . . . . . . . . Lja4g3040 . . . Mepo2g04409 . Mesa13g00713 . . . . . . . Phco4g03084 . . . . . Pste3g01579 . . . . . Pumo6g00679 . Pvu2g2790 . Rops2g00791 . Seca12g06279 . Spst3g01313 . . . . . . . Trre7g05183 . . . Vian1g03658 . Vifa6g03220 . Vimu11g04177 . Viun3g00857 . Vivi5g04460 . .
Vvi4g1501 . . . . . . Aed5g2119 . . . . . . . . . . . . . . . . . . . . . . . Cca09g02254 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g4731 . . . . . . . Mtr8g3275 . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g2855 . . Sto4g0299 . Tpr3g0828 . . . . . . . . . . . . . . . .
Vvi4g1502 . . . . . . Aed5g2120 . Aev03g2908 . Ahy13g3074 . Aip03g03478 . . . . . . . . . . . . . . . . . Cca09g02255 . . . Dod04g2529 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g04518 . . . . . . . . . Lja4g0604 . Mal5g3212 . Mepo2g04410 . Mesa13g00712 . . . Mtr8g2291 . . . Phco4g03085 . . . . . Pste3g01577 . . . . . Pumo6g00678 . Pvu2g2791 . Rops2g00790 . Seca12g06280 . Spst3g01312 Ssu5g2856 . . . . Tpr4g4403 . Trre7g05184 . Tsu04g02692 . Vian1g03659 . Vifa6g03226 . Vimu11g04178 . Viun3g00856 . Vivi5g04462 . .
Vvi4g1503 . . . . . . . . . Aev08g0593 . Ahy20g1995 . Aip10g02340 . . . Amo20g2540 . . . . . . . . . . . . . . . . . Dod09g1808 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4516 . Mal2g1517 . . . . . . . Mtr3g3339 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g3188 . Tpr3g3139 . . . Tsu07g01332 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1494 Chr4 22411631 22436675 -
Acco Acco04g2145 Chr04 37310379 37315688 -
Accr Accr8g00600 Chr8 9454437 9459617 +
Adu Adu03g03049 Chr03 114387499 114391931 +
Aed Aed5g2118 Chr5 23483087 23487348 -
Aev Aev03g2904 Chr03 28368993 28372488 -
Ahy Ahy13g3078 Chr13 123663003 123667587 +
Aip Aip03g03482 Chr03 113738990 113743567 +
Alju Alju06g2119 Chr06 47230542 47235901 -
Amo Amo13g3757 Chr13 126826343 126830475 +
Arst Arst3g04015 Chr3 113102494 113106876 +
Bach Bach2g00025 Chr2 363514 368439 +
Bisa Bisa08g2455 Chr08 58236452 58241719 +
Cca Cca09g02252 Chr09 47752935 47757723 -
Dere Dere03g0370 Chr03 7348490 7354099 -
Dod Dod04g2526 Chr04 49095739 49101871 -
Enph Enph6g0317 Chr6 6487352 6493100 -
Glsi Glsi02g0343 Chr02 2195561 2200351 -
Lapu Lapu3g03427 Chr3 57510399 57514451 -
Lasa Lasa7g04512 Chr7 665625026 665630201 -
Lele Lele21g1506 Chr21 23334111 23339982 -
Lele Lele22g1495 Chr22 20679096 20684239 -
Lele Lele23g0506 Chr23 3710565 3715711 +
Lele Lele24g1446 Chr24 20395233 20400306 -
Lja Lja4g0605 Chr4 4992191 4996309 +
Mal Mal7g4730 Chr7 115607095 115612090 -
Mepo Mepo2g04408 Chr2 52607763 52613141 -
Mesa Mesa13g00714 Chr13 8450368 8456500 +
Mibi Mibi09g0615 Chr09 8015777 8021248 +
Mtr Mtr8g3274 Chr8 43218074 43223481 -
Phac Phac2g04080 Chr2 40062278 40066753 -
Phco Phco4g03083 Chr4 51815493 51819206 -
Prci Prci4g2391 Chr4 36680398 36688119 -
Pste Pste3g01582 Chr3 9925960 9935137 +
Pte Pte2g02602 Chr2 45086221 45088766 +
Pumo Pumo6g00681 Chr6 8553542 8557689 +
Pvu Pvu2g2789 Chr2 43647509 43651778 -
Rops Rops2g00794 Chr2 11354744 11359014 +
Seca Seca12g06276 Chr12 154649177 154650304 -
Spst Spst3g01316 Chr3 16625640 16634097 +
Ssu Ssu5g2853 Chr5 74819049 74822919 -
Sto Sto3g3186 Chr3 36680668 36685732 -
Tpr Tpr3g0829 Chr3 7835851 7841291 +
Trre Trre7g05181 Chr7 58382325 58386901 -
Tsu Tsu02g00666 Chr02 5645225 5650062 +
Vian Vian1g03656 Chr1 59347973 59358041 -
Vifa Vifa6g03217 Chr6 1066271238 1066276481 -
Viun Viun3g00859 Chr3 5275317 5279469 +
Vivi Vivi5g04458 Chr5 142425178 142430564 -
Vvi Vvi4g1495 Chr4 22447767 22448279 +
Adu Adu10g01764 Chr10 81595690 81596490 -
Aev Aev03g2905 Chr03 28373999 28374565 -
Ahy Ahy13g3077 Chr13 123660937 123662004 +
Ahy Ahy20g1993 Chr20 113133291 113134090 -
Aip Aip03g03481 Chr03 113737022 113738082 +
Aip Aip10g02338 Chr10 105977784 105979154 -
Amo Amo13g3756 Chr13 126824247 126825120 +
Arst Arst3g04014 Chr3 113099743 113100607 +
Cca Cca09g02253 Chr09 47759020 47759756 -
Dod Dod04g2527 Chr04 49103762 49105003 -
Dod Dod09g1805 Chr09 39633814 39634752 -
Lal Lal17g0734 Chr17 5201337 5201879 -
Lapu Lapu9g01140 Chr9 24904206 24904994 +
Lasa Lasa5g03340 Chr5 555873956 555874495 -
Lja Lja1g4517 Chr1 58847296 58848065 +
Mal Mal2g1518 Chr2 18182720 18183256 +
Mepo Mepo3g06816 Chr3 81920839 81921591 -
Mesa Mesa9g04336 Chr9 76448012 76448548 -
Mtr Mtr3g3338 Chr3 47321840 47322623 -
Phco Phco7g01707 Chr7 17097328 17097864 -
Pte Pte1g02101 Chr1 42243129 42244200 +
Pumo Pumo10g01654 Chr10 21745448 21746332 -
Pvu Pvu9g1543 Chr9 21818623 21819159 -
Rops Rops10g01015 Chr10 21706955 21707670 +
Seca Seca4g01978 Chr4 33324157 33324702 +
Spst Spst9g01763 Chr9 19504179 19504715 -
Ssu Ssu5g2854 Chr5 74833920 74834453 -
Tpr Tpr3g3138 Chr3 34616511 34617186 -
Trre Trre5g04294 Chr5 45014739 45015275 -
Tsu Tsu07g01333 Chr07 11673374 11674130 +
Vian Vian4g01082 Chr4 17412654 17413193 +
Vifa Vifa2g03164 Chr2 910118242 910118781 +
Vimu Vimu10g01763 Chr10 24695892 24708751 +
Viun Viun9g01806 Chr9 27571830 27572722 +
Vivi Vivi3g02471 Chr3 41371020 41373539 +
Vvi Vvi4g1496 Chr4 22455992 22458543 +
Apr Apr1g0461 Chr1 5699833 5703962 -
Vvi Vvi4g1497 Chr4 22463343 22470471 +
Adu Adu10g01766 Chr10 81603445 81606698 -
Ahy Ahy20g1994 Chr20 113138191 113141162 -
Aip Aip10g02339 Chr10 105984388 105987597 -
Arst Arst10g02261 Chr10 80541111 80544087 -
Dod Dod09g1806 Chr09 39635737 39638017 -
Mepo Mepo3g07006 Chr3 83668217 83672654 +
Phco Phco7g01708 Chr7 17098848 17101921 -
Pste Pste2g03715 Chr2 40976614 40980240 -
Pumo Pumo10g01655 Chr10 21747140 21750903 -
Pvu Pvu9g1544 Chr9 21819916 21823441 -
Rops Rops10g01014 Chr10 21702351 21705292 +
Spst Spst9g01765 Chr9 19506690 19509077 -
Trre Trre5g04640 Chr5 48381707 48391431 -
Vian Vian4g01081 Chr4 17404128 17411610 +
Vimu Vimu10g01762 Chr10 24691883 24694873 +
Viun Viun9g01805 Chr9 27568229 27571234 +
Vvi Vvi4g1498 Chr4 22475544 22477808 +
Vvi Vvi4g1499 Chr4 22479236 22484946 +
Vvi Vvi4g1500 Chr4 22516462 22518881 +
Adu Adu03g03046 Chr03 114256775 114259458 -
Ahy Ahy13g3075 Chr13 123531135 123536376 -
Aip Aip03g03479 Chr03 113604948 113609279 -
Amo Amo13g3754 Chr13 126702906 126716626 -
Arst Arst3g04013 Chr3 112971808 112974299 -
Bach Bach2g00023 Chr2 353526 356304 -
Dod Dod04g2528 Chr04 49121122 49129777 +
Lapu Lapu3g03428 Chr3 57534370 57566514 +
Lasa Lasa7g04517 Chr7 665791085 665794416 +
Lja Lja4g3040 Chr4 57327971 57333796 -
Mepo Mepo2g04409 Chr2 52619226 52624512 +
Mesa Mesa13g00713 Chr13 8436899 8443866 -
Phco Phco4g03084 Chr4 51823843 51828764 +
Pste Pste3g01579 Chr3 9888233 9900102 -
Pumo Pumo6g00679 Chr6 8537103 8541204 -
Pvu Pvu2g2790 Chr2 43658526 43663752 +
Rops Rops2g00791 Chr2 11327887 11332348 -
Seca Seca12g06279 Chr12 154681511 154686579 +
Spst Spst3g01313 Chr3 16552398 16557291 -
Trre Trre7g05183 Chr7 58416826 58420270 +
Vian Vian1g03658 Chr1 59378974 59383774 +
Vifa Vifa6g03220 Chr6 1066889684 1066892054 +
Vimu Vimu11g04177 Chr11 63358217 63363377 +
Viun Viun3g00857 Chr3 5256708 5261090 -
Vivi Vivi5g04460 Chr5 142492617 142496122 +
Vvi Vvi4g1501 Chr4 22531684 22533280 -
Aed Aed5g2119 Chr5 23490332 23494507 +
Cca Cca09g02254 Chr09 47768564 47775460 +
Mal Mal7g4731 Chr7 115620474 115624766 +
Mtr Mtr8g3275 Chr8 43230808 43236855 +
Ssu Ssu5g2855 Chr5 74848953 74857322 +
Sto Sto4g0299 Chr4 2315882 2319121 -
Tpr Tpr3g0828 Chr3 7822299 7827891 -
Vvi Vvi4g1502 Chr4 22551652 22554070 +
Aed Aed5g2120 Chr5 23497200 23499550 +
Aev Aev03g2908 Chr03 28425555 28430215 +
Ahy Ahy13g3074 Chr13 123522729 123525716 -
Aip Aip03g03478 Chr03 113596040 113598727 -
Cca Cca09g02255 Chr09 47778313 47781759 +
Dod Dod04g2529 Chr04 49135314 49139916 +
Lasa Lasa7g04518 Chr7 665913877 665916196 +
Lja Lja4g0604 Chr4 4987299 4990119 -
Mal Mal5g3212 Chr5 94343200 94355257 +
Mepo Mepo2g04410 Chr2 52626129 52628964 +
Mesa Mesa13g00712 Chr13 8428238 8431103 -
Mtr Mtr8g2291 Chr8 33264338 33276807 +
Phco Phco4g03085 Chr4 51829930 51833257 +
Pste Pste3g01577 Chr3 9870605 9873781 -
Pumo Pumo6g00678 Chr6 8534296 8537052 -
Pvu Pvu2g2791 Chr2 43665743 43669830 +
Rops Rops2g00790 Chr2 11321744 11324511 -
Seca Seca12g06280 Chr12 154698006 154701191 +
Spst Spst3g01312 Chr3 16546683 16551160 -
Ssu Ssu5g2856 Chr5 74870709 74874028 +
Tpr Tpr4g4403 Chr4 51394846 51407846 -
Trre Trre7g05184 Chr7 58447918 58452120 +
Tsu Tsu04g02692 Chr04 30687821 30688367 -
Vian Vian1g03659 Chr1 59388161 59391501 +
Vifa Vifa6g03226 Chr6 1068648037 1068652121 -
Vimu Vimu11g04178 Chr11 63366930 63370056 +
Viun Viun3g00856 Chr3 5251490 5254523 -
Vivi Vivi5g04462 Chr5 142522292 142524984 +
Vvi Vvi4g1503 Chr4 22564618 22596179 -
Aev Aev08g0593 Chr08 3393272 3401999 +
Ahy Ahy20g1995 Chr20 113142034 113147835 -
Aip Aip10g02340 Chr10 105988490 105993547 -
Amo Amo20g2540 Chr20 119228018 119233755 -
Dod Dod09g1808 Chr09 39644244 39645010 -
Lja Lja1g4516 Chr1 58833710 58843638 +
Mal Mal2g1517 Chr2 18170640 18179814 +
Mtr Mtr3g3339 Chr3 47327637 47338689 -
Sto Sto3g3188 Chr3 36694985 36703713 -
Tpr Tpr3g3139 Chr3 34619811 34628672 -
Tsu Tsu07g01332 Chr07 11662654 11671493 +
Lja Lja4g3040 Chr4 57327971 57333796 -
Arst Arst10g02261 Chr10 80541111 80544087 -
Phco Phco7g01708 Chr7 17098848 17101921 -
Pste Pste2g03715 Chr2 40976614 40980240 -
Pumo Pumo10g01655 Chr10 21747140 21750903 -
Rops Rops10g01014 Chr10 21702351 21705292 +
Vian Vian4g01081 Chr4 17404128 17411610 +
Viun Viun9g01805 Chr9 27568229 27571234 +