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
Vvi17g0103 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0104 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal7g0874 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa1g0725 Psa7g0833 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0105 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal19g1021 . . . . . Lan1g1476 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0107 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0108 . . . . . . . . . . . . . . . . . . Apr6g0994 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0109 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g0125 . . . . . . . . . . . . . . . . . . .
Vvi17g0110 . . . . . . . . . . . . . . . . . . Apr1g0298 . . . . . . . Bva06g01509 . . . . . . . . . . . . . . Gma04g01900 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4316 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0111 . . . . . Adu08g02808 Aed7g0327 . Aev08g2400 . Ahy18g2955 . Aip08g03355 . . . . . Apr1g0297 . . Arst8g03863 . Bach2g02264 . . . . . Car05g02643 Cca08g00347 . . . Dod09g0139 . . . . . Gma06g01510 . . . Gso6g1430 . . . . . . . . . . . . . . . . . . Lasa5g03551 . . . . . . . . . . . Mal2g1328 . Mepo3g06994 . Mesa9g04538 . . . Mtr3g3509 . Phac9g02761 . Phco7g01961 . . . . . Pste2g00281 . . Pte3g00160 . . Pumo10g01876 . Pvu9g1715 . Rops10g00807 . Seca4g01717 . Spst9g02129 . . . . . Tpr3g3327 . Trre5g04663 . Tsu07g01129 . Vian4g00959 . . . . . . . Vivi3g02176 Vra1g0724 .
Vvi17g0112 . . . . . Adu08g02809 Aed10g0802 Aed6g1334 Aev08g2399 . Ahy18g2956 . Aip08g03356 . . . . . Apr1g0296 . . Arst8g03864 . Bach2g02263 . . Bva04g00931 Bva05g00243 Car07g01161 Car05g02644 Cca03g00327 Cca11g01710 . . Dod09g0140 . . . . . Gma06g01511 Gma04g01899 Gma05g00458 Gma17g01213 Gso6g1431 Gso6g1431 Gso6g1431 Gso6g1431 . . Lal14g1455 . . . . . . . . . . . . Lasa5g03552 . . . . . . . . Lja1g4315 Lja4g2409 Mal5g3971 Mal2g1327 . Mepo3g06995 . Mesa9g04539 . . Mtr4g3684 Mtr3g3510 . Phac9g02762 . Phco7g01963 . . Psa4g1560 . . Pste2g00278 . . Pte3g00162 . . Pumo10g01877 . Pvu9g1716 . Rops10g00805 . Seca4g01716 . Spst9g02128 Ssu1g2372 Ssu6g1508 . . Tpr5g2739 Tpr3g3328 . Trre5g04662 Tsu04g02488 Tsu07g01128 . Vian4g00958 . . . Vimu10g01426 . . . Vivi3g02175 Vra5g0665 Vra7g1478
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu08g02809 Chr08 44660619 44661909 -
Arst Arst8g03864 Chr8 49064166 49065787 -
Bach Bach2g02263 Chr2 29294485 29295814 +
Lasa Lasa5g03552 Chr5 574577604 574578913 -
Mepo Mepo3g06995 Chr3 83552124 83554446 -
Mesa Mesa9g04539 Chr9 79077660 79078991 -
Phac Phac9g02762 Chr9 26532715 26535220 -
Phco Phco7g01963 Chr7 33127651 33128918 -
Pste Pste2g00278 Chr2 2008813 2010106 +
Pte Pte3g00162 Chr3 1555594 1557586 -
Pumo Pumo10g01877 Chr10 24789022 24791168 -
Pvu Pvu9g1716 Chr9 24254449 24256504 -
Rops Rops10g00805 Chr10 18621097 18622699 +
Seca Seca4g01716 Chr4 27833040 27835349 +
Spst Spst9g02128 Chr9 45553155 45554409 +
Trre Trre5g04662 Chr5 48651876 48653176 +
Vian Vian4g00958 Chr4 14102413 14103658 +
Vimu Vimu10g01426 Chr10 15156917 15158160 +
Vivi Vivi3g02175 Chr3 35945635 35947755 +
Psa Psa7g0833 Chr7 60542282 60545484 +
Vvi Vvi17g0103 Chr17 895127 901496 -
Vvi Vvi17g0104 Chr17 904847 908446 -
Lal Lal7g0874 Chr7 15293022 15296263 +
Psa Psa1g0725 Chr1 47056268 47058531 -
Psa Psa7g0833 Chr7 60542282 60545484 +
Vvi Vvi17g0105 Chr17 914313 918405 +
Lal Lal19g1021 Chr19 14064344 14067950 -
Lan Lan1g1476 Chr1 24766246 24785431 +
Vvi Vvi17g0106 Chr17 921482 922189 +
Vvi Vvi17g0107 Chr17 922916 925015 -
Vvi Vvi17g0108 Chr17 928898 931439 -
Apr Apr6g0994 Chr6 14570450 14574438 -
Vvi Vvi17g0109 Chr17 938976 939343 +
Sto Sto4g0125 Chr4 1006644 1006949 -
Vvi Vvi17g0110 Chr17 942042 942287 +
Apr Apr1g0298 Chr1 3502844 3504802 -
Bva Bva06g01509 Chr06 10903496 10905755 -
Gma Gma04g01900 Chr04 49269521 49271832 -
Lja Lja1g4316 Chr1 55686477 55688787 -
Vvi Vvi17g0111 Chr17 942499 942936 +
Adu Adu08g02808 Chr08 44657400 44659582 +
Aed Aed7g0327 Chr7 2365879 2366730 -
Aev Aev08g2400 Chr08 23024711 23026715 -
Ahy Ahy18g2955 Chr18 134617957 134620299 +
Aip Aip08g03355 Chr08 124823883 124826412 +
Apr Apr1g0297 Chr1 3490045 3492753 -
Arst Arst8g03863 Chr8 49061107 49063269 +
Bach Bach2g02264 Chr2 29296145 29298259 -
Car Car05g02643 Chr05 71430973 71433362 +
Cca Cca08g00347 Chr08 5165095 5166992 -
Dod Dod09g0139 Chr09 2077811 2080551 +
Gma Gma06g01510 Chr06 14536994 14539351 +
Gso Gso6g1430 Chr6 14251703 14254092 +
Lasa Lasa5g03551 Chr5 574574621 574576597 +
Mal Mal2g1328 Chr2 16022545 16024494 -
Mepo Mepo3g06994 Chr3 83549475 83551832 +
Mesa Mesa9g04538 Chr9 79074836 79076788 +
Mtr Mtr3g3509 Chr3 48928983 48931372 +
Phac Phac9g02761 Chr9 26521714 26524396 +
Phco Phco7g01961 Chr7 33091626 33093617 +
Pste Pste2g00281 Chr2 2032962 2035233 -
Pte Pte3g00160 Chr3 1548029 1550011 +
Pumo Pumo10g01876 Chr10 24785952 24786339 +
Pvu Pvu9g1715 Chr9 24249336 24251303 +
Rops Rops10g00807 Chr10 18665963 18667699 -
Seca Seca4g01717 Chr4 27844209 27846179 -
Spst Spst9g02129 Chr9 45558067 45560405 -
Tpr Tpr3g3327 Chr3 36682061 36684647 +
Trre Trre5g04663 Chr5 48654098 48656071 -
Tsu Tsu07g01129 Chr07 9643150 9645536 -
Vian Vian4g00959 Chr4 14106705 14108669 -
Vivi Vivi3g02176 Chr3 35947911 35950304 -
Vra Vra1g0724 Chr1 8501908 8510354 -
Vvi Vvi17g0112 Chr17 944033 945347 -
Adu Adu08g02809 Chr08 44660619 44661909 -
Aed Aed10g0802 Chr10 6643729 6645440 -
Aed Aed6g1334 Chr6 18034791 18036100 -
Aev Aev08g2399 Chr08 23022368 23023676 +
Ahy Ahy18g2956 Chr18 134621161 134622772 -
Aip Aip08g03356 Chr08 124827405 124828696 -
Apr Apr1g0296 Chr1 3480018 3481825 +
Arst Arst8g03864 Chr8 49064166 49065787 -
Bach Bach2g02263 Chr2 29294485 29295814 +
Bva Bva04g00931 Chr04 6099875 6102637 -
Bva Bva05g00243 Chr05 1185211 1186500 -
Car Car07g01161 Chr07 10432595 10435007 +
Car Car05g02644 Chr05 71433877 71435917 -
Cca Cca03g00327 Chr03 5110660 5113000 -
Cca Cca11g01710 Chr11 41518295 41520572 -
Dod Dod09g0140 Chr09 2081481 2083110 -
Gma Gma06g01511 Chr06 14542617 14544755 -
Gma Gma04g01899 Chr04 49265414 49267597 +
Gma Gma05g00458 Chr05 4360563 4361843 +
Gma Gma17g01213 Chr17 10660753 10661534 +
Gso Gso6g1431 Chr6 14257343 14259566 -
Gso Gso6g1431 Chr6 14257343 14259566 -
Gso Gso6g1431 Chr6 14257343 14259566 -
Gso Gso6g1431 Chr6 14257343 14259566 -
Lal Lal14g1455 Chr14 15664863 15667094 -
Lasa Lasa5g03552 Chr5 574577604 574578913 -
Lja Lja1g4315 Chr1 55668834 55671031 +
Lja Lja4g2409 Chr4 27086368 27088025 +
Mal Mal5g3971 Chr5 109278147 109279508 -
Mal Mal2g1327 Chr2 16020330 16021657 +
Mepo Mepo3g06995 Chr3 83552124 83554446 -
Mesa Mesa9g04539 Chr9 79077660 79078991 -
Mtr Mtr4g3684 Chr4 50602656 50604609 -
Mtr Mtr3g3510 Chr3 48931689 48933716 -
Phac Phac9g02762 Chr9 26532715 26535220 -
Phco Phco7g01963 Chr7 33127651 33128918 -
Psa Psa4g1560 Chr4 109048812 109053165 +
Pste Pste2g00278 Chr2 2008813 2010106 +
Pte Pte3g00162 Chr3 1555594 1557586 -
Pumo Pumo10g01877 Chr10 24789022 24791168 -
Pvu Pvu9g1716 Chr9 24254449 24256504 -
Rops Rops10g00805 Chr10 18621097 18622699 +
Seca Seca4g01716 Chr4 27833040 27835349 +
Spst Spst9g02128 Chr9 45553155 45554409 +
Ssu Ssu1g2372 Chr1 66218859 66220116 +
Ssu Ssu6g1508 Chr6 24755831 24757120 +
Tpr Tpr5g2739 Chr5 49533846 49536168 -
Tpr Tpr3g3328 Chr3 36685018 36687161 -
Trre Trre5g04662 Chr5 48651876 48653176 +
Tsu Tsu04g02488 Chr04 28093993 28095361 -
Tsu Tsu07g01128 Chr07 9640815 9642733 +
Vian Vian4g00958 Chr4 14102413 14103658 +
Vimu Vimu10g01426 Chr10 15156917 15158160 +
Vivi Vivi3g02175 Chr3 35945635 35947755 +
Vra Vra5g0665 Chr5 10493899 10496170 -
Vra Vra7g1478 Chr7 32110824 32112841 -