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
Vvi3g0643 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00214 Bva14g00284 . . . . . . . . . . . . . . . . . . . . . . Lal9g0167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0188 . . . . . . . . . . . . . . . . . .
Vvi3g0644 . . . . . . . . . Aev05g1278 . Ahy15g1342 . Aip05g01410 . . . Amo15g0196 . . . . . . . . . . . . . . . . . Dod02g1438 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0645 . . . . . Adu03g00460 Aed1g1946 . Aev04g3334 . Ahy13g0683 . Aip03g00720 . . . . . Apr5g0288 . . Arst3g00607 . . . . Bva13g00213 Bva14g00282 Car06g03759 . Cca02g02560 . . . Dod03g3131 . . . . . . . Gma11g01091 . . . . . Lal1g0236 . . Lal13g0430 Lal12g0414 Lal24g0340 Lan13g0245 . . Lan13g0245 Lan13g0245 Lan13g0245 . Lapu11g00741 . Lasa7g02035 . . . . . . . . Lja3g0526 . Mal7g2527 . . Mepo2g02305 . Mesa13g02804 . . Mtr4g2079 . . Phac11g00701 . Phco9g00528 . . Psa7g3269 . . Pste1g01889 . . . . . Pumo11g01789 . Pvu11g0477 . Rops3g00581 . Seca4g03539 . Spst2g02504 Ssu7g0432 . Sto2g0692 . Tpr3g2285 . . Trre7g02887 Tsu02g02370 . . Vian5g01480 . . . Vimu5g02323 . Viun11g02411 . Vivi5g02822 Vra8g2463 .
Vvi3g0646 . . . . . . . . . Aev05g0527 . Ahy15g0777 . Aip05g00785 . . . . . . . . . . . . . . . . . . . . . Dod02g0585 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g01639 . Lasa4g02381 . . . . . . . . . . . . . Mepo1g02023 . . . . . . . Phac3g03977 . Phco8g00496 . . . . . Pste7g01449 . . . . . Pumo4g02098 . Pvu3g2601 . Rops2g03380 . Seca12g02661 . . . . . . . . . Trre15g04033 . . . Vian1g01759 . Vifa4g02480 . Vimu11g00614 . Viun3g03695 . Vivi1g02996 . .
Vvi3g0647 . Acco01g2007 . Accr1g01710 . Adu03g00465 . Aed9g0122 . . Ahy13g0684 . Aip03g00722 . . Alju02g2037 Amo13g0701 . . . . Arst7g02323 . . . Bisa01g3934 . Bva14g00281 . . Cca04g00453 Cca07g00155 . Dere06g0231 . . . Enph12g0544 . Glsi01g0248 Gma04g00123 . Gma11g01089 Gma12g00401 Gso4g0117 . Gso4g0117 Gso4g0117 . . . . . . . . . . . . . Lapu11g00743 Lasa5g04671 Lasa7g02041 . . . . Lele45g1253 Lele46g1345 . Lele48g0163 . . . . Mepo3g07717 Mepo2g02308 . . . Mibi01g1893 . . . Phac11g00699 Phco7g00171 Phco9g00526 . Prci14g0283 Psa7g3263 . . . . . . . . Pumo10g00692 Pvu9g0254 Pvu11g0475 . Rops3g00580 . Seca4g03533 Spst9g00162 Spst2g02507 Ssu3g2829 . . Sto10g0186 . . Trre5g05852 Trre7g02874 . . . Vian5g01482 . . Vimu10g03609 Vimu5g02325 . Viun11g02413 Vivi3g00836 . Vra2g0424 .
Vvi3g0648 . . . . . . . . . . . . . . . . . . Apr5g0289 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0649 . . . . . . . . Aev04g3336 . Ahy13g0688 . Aip03g00727 . . . Amo13g0710 . . . . . . . . . . Bva14g00279 Car06g03761 . . Cca07g00151 . . Dod03g3133 . . . . . . Gma06g00116 . . . . . . . . . . . . . . . . . . . . Lasa5g04675 . . . . . . . . . Lja3g0523 . Mal7g2531 . . . . . . . Mtr4g2085 . . . Phco7g00169 . . . . . . . . . . . . . Pvu9g0251 . Rops10g02584 . Seca4g00237 . Spst9g00160 . . . Sto2g0693 . Tpr3g2288 . Trre5g05853 . Tsu02g02375 . . . Vifa2g04668 . . . . . Vivi3g00847 . . Vra5g1759
Vvi3g0650 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0651 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00210 Bva14g00278 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g0522 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0182 . . . . . . . . . . . . . . . . . .
Vvi3g0652 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aed Aed1g1946 Chr1 16577195 16578151 +
Cca Cca02g02560 Chr02 46746589 46748218 -
Ssu Ssu7g0432 Chr7 8155693 8157009 +
Vra Vra8g2463 Chr8 42650565 42651890 -
Vvi Vvi3g0643 Chr3 5542203 5542640 +
Bva Bva13g00214 Chr13 1031887 1033622 -
Bva Bva14g00284 Chr14 1456980 1457195 -
Lal Lal9g0167 Chr9 1036506 1039222 -
Sto Sto10g0188 Chr10 1537932 1538372 -
Vvi Vvi3g0644 Chr3 5548699 5553677 +
Aev Aev05g1278 Chr05 8975942 8979130 -
Ahy Ahy15g1342 Chr15 22248121 22253244 -
Aip Aip05g01410 Chr05 21427294 21431636 -
Amo Amo15g0196 Chr15 7226908 7232061 -
Dod Dod02g1438 Chr02 17156675 17161666 -
Vvi Vvi3g0645 Chr3 5554460 5560379 -
Adu Adu03g00460 Chr03 4178654 4181498 -
Aed Aed1g1946 Chr1 16577195 16578151 +
Aev Aev04g3334 Chr04 32214879 32218108 -
Ahy Ahy13g0683 Chr13 7078352 7081169 -
Aip Aip03g00720 Chr03 6929635 6932570 -
Apr Apr5g0288 Chr5 2548872 2552359 -
Arst Arst3g00607 Chr3 4184769 4187502 -
Bva Bva13g00213 Chr13 1027164 1030565 +
Bva Bva14g00282 Chr14 1448892 1451450 +
Car Car06g03759 Chr06 69195816 69200250 -
Cca Cca02g02560 Chr02 46746589 46748218 -
Dod Dod03g3131 Chr03 63883520 63887309 -
Gma Gma11g01091 Chr11 9198858 9202395 +
Lal Lal1g0236 Chr1 1405942 1410730 +
Lal Lal13g0430 Chr13 2692533 2695692 -
Lal Lal12g0414 Chr12 2936987 2939499 -
Lal Lal24g0340 Chr24 2391326 2394925 -
Lan Lan13g0245 Chr13 1527093 1532529 +
Lan Lan13g0245 Chr13 1527093 1532529 +
Lan Lan13g0245 Chr13 1527093 1532529 +
Lan Lan13g0245 Chr13 1527093 1532529 +
Lapu Lapu11g00741 Chr11 10381845 10385318 -
Lasa Lasa7g02035 Chr7 484318760 484322696 -
Lja Lja3g0526 Chr3 5261871 5266312 +
Mal Mal7g2527 Chr7 86631318 86636168 -
Mepo Mepo2g02305 Chr2 32794748 32799653 -
Mesa Mesa13g02804 Chr13 32894890 32899410 +
Mtr Mtr4g2079 Chr4 34330646 34335361 -
Phac Phac11g00701 Chr11 4548311 4551852 +
Phco Phco9g00528 Chr9 3826817 3830006 +
Psa Psa7g3269 Chr7 247080322 247084717 +
Pste Pste1g01889 Chr1 5843219 5847655 +
Pumo Pumo11g01789 Chr11 49694624 49698478 -
Pvu Pvu11g0477 Chr11 4012735 4016992 +
Rops Rops3g00581 Chr3 7225437 7229222 +
Seca Seca4g03539 Chr4 61562668 61567194 +
Spst Spst2g02504 Chr2 24647049 24650687 -
Ssu Ssu7g0432 Chr7 8155693 8157009 +
Sto Sto2g0692 Chr2 5878208 5881266 -
Tpr Tpr3g2285 Chr3 21485190 21489323 -
Trre Trre7g02887 Chr7 25298051 25302079 +
Tsu Tsu02g02370 Chr02 24192247 24196483 -
Vian Vian5g01480 Chr5 37359759 37362829 -
Vimu Vimu5g02323 Chr5 34139958 34143124 -
Viun Viun11g02411 Chr11 37911375 37914820 -
Vivi Vivi5g02822 Chr5 115129754 115139991 -
Vra Vra8g2463 Chr8 42650565 42651890 -
Vvi Vvi3g0646 Chr3 5563779 5567120 +
Aev Aev05g0527 Chr05 3648339 3651055 -
Ahy Ahy15g0777 Chr15 10619592 10623959 +
Aip Aip05g00785 Chr05 10231011 10235442 +
Dod Dod02g0585 Chr02 7591843 7592946 -
Lapu Lapu3g01639 Chr3 21249301 21253528 +
Lasa Lasa4g02381 Chr4 466364006 466366454 -
Mepo Mepo1g02023 Chr1 20841316 20844631 +
Phac Phac3g03977 Chr3 39400775 39404939 +
Phco Phco8g00496 Chr8 4717465 4720198 -
Pste Pste7g01449 Chr7 13280159 13283884 +
Pumo Pumo4g02098 Chr4 29905994 29907121 +
Pvu Pvu3g2601 Chr3 48066808 48070488 +
Rops Rops2g03380 Chr2 62171550 62175390 -
Seca Seca12g02661 Chr12 45487846 45490856 +
Trre Trre15g04033 Chr15 50854678 50857625 +
Vian Vian1g01759 Chr1 20603119 20605950 +
Vifa Vifa4g02480 Chr4 746937815 746940221 -
Vimu Vimu11g00614 Chr11 6619076 6621858 +
Viun Viun3g03695 Chr3 43881141 43884636 -
Vivi Vivi1g02996 Chr1 65637739 65640731 +
Vvi Vvi3g0647 Chr3 5571743 5572737 -
Acco Acco01g2007 Chr01 35953809 35955017 -
Accr Accr1g01710 Chr1 47064119 47065338 -
Adu Adu03g00465 Chr03 4233589 4234811 -
Aed Aed9g0122 Chr9 855936 857789 +
Ahy Ahy13g0684 Chr13 7095201 7106556 +
Aip Aip03g00722 Chr03 6954538 6955838 +
Alju Alju02g2037 Chr02 19713229 19714421 +
Amo Amo13g0701 Chr13 8622277 8623582 -
Arst Arst7g02323 Chr7 54664352 54666285 +
Bisa Bisa01g3934 Chr01 94771647 94774570 -
Bva Bva14g00281 Chr14 1446794 1448282 +
Cca Cca04g00453 Chr04 4483910 4485601 +
Cca Cca07g00155 Chr07 1946294 1948076 -
Dere Dere06g0231 Chr06 3332238 3333897 +
Enph Enph12g0544 Chr12 11963083 11965158 -
Glsi Glsi01g0248 Chr01 2007039 2007982 +
Gma Gma04g00123 Chr04 1049704 1051702 +
Gma Gma11g01089 Chr11 9180706 9182041 +
Gma Gma12g00401 Chr12 3286564 3289650 +
Gso Gso4g0117 Chr4 1032090 1033966 +
Gso Gso4g0117 Chr4 1032090 1033966 +
Gso Gso4g0117 Chr4 1032090 1033966 +
Lapu Lapu11g00743 Chr11 10397466 10398473 -
Lasa Lasa5g04671 Chr5 686047947 686048924 +
Lasa Lasa7g02041 Chr7 485481706 485482665 -
Lele Lele45g1253 Chr45 22494938 22497581 -
Lele Lele46g1345 Chr46 20528378 20529749 -
Lele Lele48g0163 Chr48 1854904 1855691 +
Mepo Mepo3g07717 Chr3 90483356 90484688 +
Mepo Mepo2g02308 Chr2 32822410 32824044 -
Mibi Mibi01g1893 Chr01 27776255 27777757 +
Phac Phac11g00699 Chr11 4532469 4533786 +
Phco Phco7g00171 Chr7 1110487 1111891 +
Phco Phco9g00526 Chr9 3812657 3813646 +
Prci Prci14g0283 Chr14 2184972 2187082 +
Psa Psa7g3263 Chr7 246696177 246697924 +
Pumo Pumo10g00692 Chr10 8932608 8933993 -
Pvu Pvu9g0254 Chr9 5762911 5764611 +
Pvu Pvu11g0475 Chr11 3996135 3997473 +
Rops Rops3g00580 Chr3 7209960 7211133 +
Seca Seca4g03533 Chr4 61467265 61468416 +
Spst Spst9g00162 Chr9 1430660 1432042 +
Spst Spst2g02507 Chr2 24662923 24663909 -
Ssu Ssu3g2829 Chr3 82770542 82772322 -
Sto Sto10g0186 Chr10 1531971 1532627 +
Trre Trre5g05852 Chr5 58187882 58189120 -
Trre Trre7g02874 Chr7 25118453 25119422 +
Vian Vian5g01482 Chr5 37376393 37377358 -
Vimu Vimu10g03609 Chr10 45462327 45463855 -
Vimu Vimu5g02325 Chr5 34152384 34153351 -
Viun Viun11g02413 Chr11 37930663 37931881 -
Vivi Vivi3g00836 Chr3 13619332 13621888 -
Vra Vra2g0424 Chr2 3295645 3296993 +
Vvi Vvi3g0648 Chr3 5578054 5578682 +
Apr Apr5g0289 Chr5 2559244 2559812 +
Vvi Vvi3g0649 Chr3 5579675 5580589 -
Aev Aev04g3336 Chr04 32229566 32230524 -
Ahy Ahy13g0688 Chr13 7181078 7182297 -
Aip Aip03g00727 Chr03 7003282 7004496 -
Amo Amo13g0710 Chr13 8734573 8735794 -
Bva Bva14g00279 Chr14 1440766 1441936 +
Car Car06g03761 Chr06 69226231 69227515 -
Cca Cca07g00151 Chr07 1892004 1893464 +
Dod Dod03g3133 Chr03 63898134 63899641 -
Gma Gma06g00116 Chr06 1014978 1016240 +
Lasa Lasa5g04675 Chr5 686314592 686315521 -
Lja Lja3g0523 Chr3 5233374 5234905 +
Mal Mal7g2531 Chr7 86674521 86675530 -
Mtr Mtr4g2085 Chr4 34372176 34373452 -
Phco Phco7g00169 Chr7 1096543 1097584 +
Pvu Pvu9g0251 Chr9 5738386 5739739 +
Rops Rops10g02584 Chr10 44815742 44817445 -
Seca Seca4g00237 Chr4 3768049 3769645 +
Spst Spst9g00160 Chr9 1419395 1420460 +
Sto Sto2g0693 Chr2 5885725 5900423 -
Tpr Tpr3g2288 Chr3 21520362 21521585 -
Trre Trre5g05853 Chr5 58205502 58206447 -
Tsu Tsu02g02375 Chr02 24268520 24269733 -
Vifa Vifa2g04668 Chr2 1377481771 1377482722 +
Vivi Vivi3g00847 Chr3 13946804 13948071 -
Vra Vra5g1759 Chr5 23731502 23733030 -
Vvi Vvi3g0650 Chr3 5584650 5585205 +
Vvi Vvi3g0651 Chr3 5590957 5591517 +
Bva Bva13g00210 Chr13 1017375 1018390 -
Bva Bva14g00278 Chr14 1438812 1439654 -
Lja Lja3g0522 Chr3 5226053 5227614 -
Sto Sto10g0182 Chr10 1478550 1480119 -
Vvi Vvi3g0652 Chr3 5602123 5602594 +
Aev Aev05g0527 Chr05 3648339 3651055 -
Ahy Ahy15g0777 Chr15 10619592 10623959 +
Aip Aip05g00785 Chr05 10231011 10235442 +
Dod Dod02g0585 Chr02 7591843 7592946 -
Lapu Lapu3g01639 Chr3 21249301 21253528 +
Lasa Lasa4g02381 Chr4 466364006 466366454 -
Mepo Mepo1g02023 Chr1 20841316 20844631 +
Phac Phac3g03977 Chr3 39400775 39404939 +
Phco Phco8g00496 Chr8 4717465 4720198 -
Pste Pste7g01449 Chr7 13280159 13283884 +
Pumo Pumo4g02098 Chr4 29905994 29907121 +
Pvu Pvu3g2601 Chr3 48066808 48070488 +
Rops Rops2g03380 Chr2 62171550 62175390 -
Seca Seca12g02661 Chr12 45487846 45490856 +
Trre Trre15g04033 Chr15 50854678 50857625 +
Vian Vian1g01759 Chr1 20603119 20605950 +
Vifa Vifa4g02480 Chr4 746937815 746940221 -
Vimu Vimu11g00614 Chr11 6619076 6621858 +
Viun Viun3g03695 Chr3 43881141 43884636 -
Vivi Vivi1g02996 Chr1 65637739 65640731 +