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
Vvi19g0210 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0211 . . . . . . . Aed5g1203 . Aev04g2425 . Ahy13g1929 . Aip03g02146 . . . . . Apr5g0137 . . . . . . Bva09g00890 Bva07g01722 . . . Cca04g01454 . . . . . . . . Gma06g02155 . . . Gso6g1984 . . . Lal9g0531 . . . Lal1g0582 . Lan8g1373 . . . Lan8g1373 . . . . . . . . . . . . . . Lja3g4851 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1750 . Sto4g2827 . . . . . . . . . . . . . . . . . .
Vvi19g0212 . . . . . . . Aed5g1202 . . . . . . . . . . . Apr5g0136 . . . . . . Bva09g00889 Bva07g01724 . . . Cca04g01453 . . . . . . . . Gma06g02156 . . . Gso6g1986 . . . Lal9g0530 . Lal2g0594 . Lal1g0579 . Lan8g1374 . Lan8g1374 . Lan8g1374 . . . . . . . . . . . . . Lja3g3773 Lja3g4849 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1751 Sto7g0226 Sto4g2828 . . . . . . . . . . . . . . . . . Vra2g1200
Vvi19g0213 . . . . . . . Aed5g1201 . . . Ahy13g1927 . Aip03g02143 . . . . . Apr5g0135 . . . . . . . Bva07g01725 . . . Cca04g01452 . . . . . . . . Gma06g02157 . . . Gso6g1987 . . . Lal9g0528 . . . . . Lan8g1375 . . . . . . . . . . . . . . . . . . Lja3g4848 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1752 . Sto4g2829 . . . . . . . . . . . . . . . . . Vra2g1199
Vvi19g0214 . . . . . . Aed1g0572 . Aev10g1342 . Ahy18g1392 . Aip08g01489 . . . Amo18g1644 . . . . . . . . . . Bva07g01727 Car01g02020 . Cca10g01131 . . . Dod10g0966 . . . . . . . . Gma13g02427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1176 . Sto7g0228 . . . . . . . . . . . . . . . . . Vra5g2842 .
Vvi19g0215 . . . . . . . Aed5g1200 . Aev04g2420 . Ahy13g1925 . Aip03g02142 . . . . . Apr5g0134 . . . . . . Bva09g00888 Bva09g00888 . . . Cca04g01451 . . . . . . . . Gma06g02158 . . . Gso6g1988 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g4846 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1753 . . . . . . . . . . . . . . . . . . . Vra2g1196
Vvi19g0216 Acco06g2116 . Accr5g01012 . Adu10g00245 . . Aed5g1199 . . . Ahy13g1924 . Aip03g02141 Alju03g1297 . . . Apr2g0417 Apr5g0132 Arst10g00316 . Bach7g00583 . Bisa07g1148 . Bva09g00887 Bva07g01728 . . . Cca04g01450 Dere02g2701 . . . Enph4g0748 . Glsi11g2340 . Gma06g02159 . . Gma13g02430 Gso6g1990 . . Gso6g1990 Lal9g0526 . Lal2g0593 Lal20g0345 . Lal11g1443 Lan8g1377 . Lan8g1377 Lan8g1377 . Lan8g1377 Lapu6g01277 . Lasa1g00471 . Lele13g0793 Lele14g0683 Lele15g1686 Lele16g1724 . . . . Lja3g3774 Lja3g4845 Mal4g1475 . Mepo6g00469 . Mesa5g04186 . Mibi06g1024 . Mtr2g2601 . Phac6g02617 . Phco11g00437 . Prci3g1052 . . . . . . Pte2g00838 . . Pumo2g00803 . Pvu6g1900 . Rops11g00596 . Seca6g04864 . Spst6g00798 . . Ssu3g1754 Sto7g0229 Sto4g2831 Tpr7g3503 . Trre3g00498 . Tsu02g04350 . Vian6g01753 . Vifa1g10433 . Vimu2g00686 . Viun6g02754 . Vivi5g03329 . . Vra2g1197
Vvi19g0217 . . . . Adu08g02049 . Aed1g0574 . . . . . . . . . . . . Apr5g0131 Arst8g02823 . . . . . Bva09g00886 Bva07g01729 . Car07g02200 Cca10g01129 . . . . . . . . . . . . . . . . . Lal9g0525 . . . Lal1g0576 . Lan8g1378 . . . Lan8g1378 . . . . . . . . . . . . . Lja3g3775 Lja3g4842 . . . . . . . . . Mtr8g1655 . . . . . . . . . . . . . . Pumo4g03412 . Pvu5g0774 . . . Seca4g09566 . . . Ssu8g1174 . . . . . . . . . . . Vifa1g03068 . . . Viun5g02572 . Vivi3g02312 . Vra5g2843 .
Vvi19g0218 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g00885 Bva09g00885 . . . . . . . . . . . . . . . . . . . . . Lal1g1631 . . . . . . . . . . . . . . . . . . . . . . Lja3g3776 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g2834 . . . . . . . . . . . . . . . . . .
Vvi19g0219 . . . . . . . Aed5g1197 . . . . . . . . . . . Apr5g0130 . . . . . . Bva09g00884 Bva09g00884 . . . Cca04g01449 . . . . . . . . . . . . . . . . Lal9g0524 . . . . . Lan8g1379 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1765 . . . . . . . . . . . . . . . . . . . Vra2g1195
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Acco Acco06g2116 Chr06 15979585 15980280 +
Accr Accr5g01012 Chr5 35811029 35811724 -
Adu Adu10g00245 Chr10 2997784 2999375 +
Alju Alju03g1297 Chr03 41559230 41559925 -
Arst Arst10g00316 Chr10 2633582 2634569 +
Bach Bach7g00583 Chr7 16322578 16323273 +
Bisa Bisa07g1148 Chr07 29400256 29400957 +
Dere Dere02g2701 Chr02 30408135 30408830 -
Enph Enph4g0748 Chr4 21246304 21247342 -
Glsi Glsi11g2340 Chr11 16390150 16390839 +
Lapu Lapu6g01277 Chr6 12652590 12653255 -
Lasa Lasa1g00471 Chr1 32148318 32148998 +
Lele Lele13g0793 Chr13 19764961 19765656 -
Lele Lele14g0683 Chr14 18133787 18134482 -
Lele Lele15g1686 Chr15 10033472 10034167 +
Lele Lele16g1724 Chr16 10021738 10022433 +
Mepo Mepo6g00469 Chr6 4823471 4824578 -
Mesa Mesa5g04186 Chr5 70673828 70674445 +
Mibi Mibi06g1024 Chr06 29973074 29974295 -
Phac Phac6g02617 Chr6 24130322 24132214 +
Phco Phco11g00437 Chr11 2945739 2946551 -
Prci Prci3g1052 Chr3 13577751 13579222 -
Pte Pte2g00838 Chr2 7471692 7473440 -
Pumo Pumo2g00803 Chr2 12222504 12224481 +
Pvu Pvu6g1900 Chr6 29213340 29215073 +
Rops Rops11g00596 Chr11 8395006 8396188 -
Seca Seca6g04864 Chr6 116025694 116026374 +
Spst Spst6g00798 Chr6 7229643 7230308 -
Trre Trre3g00498 Chr3 3369825 3370433 -
Vian Vian6g01753 Chr6 34976500 34977162 +
Vifa Vifa1g10433 Chr1 1744072419 1744073087 -
Vimu Vimu2g00686 Chr2 4141163 4141834 -
Viun Viun6g02754 Chr6 31398827 31399937 +
Vivi Vivi5g03329 Chr5 124335030 124335979 -
Vivi Vivi5g03329 Chr5 124335030 124335979 -
Vivi Vivi5g03329 Chr5 124335030 124335979 -
Vvi Vvi19g0210 Chr19 2307987 2308877 -
Vvi Vvi19g0211 Chr19 2309210 2312994 -
Aed Aed5g1203 Chr5 10705583 10714024 +
Aev Aev04g2425 Chr04 23788627 23794047 +
Ahy Ahy13g1929 Chr13 33177512 33195253 +
Aip Aip03g02146 Chr03 31975022 31978882 +
Apr Apr5g0137 Chr5 1216298 1223092 +
Bva Bva09g00890 Chr09 4596958 4607010 +
Bva Bva07g01722 Chr07 16026722 16031017 -
Cca Cca04g01454 Chr04 20004296 20016370 -
Gma Gma06g02155 Chr06 38594145 38604254 -
Gso Gso6g1984 Chr6 34789727 34799330 -
Lal Lal9g0531 Chr9 3566687 3570657 +
Lal Lal1g0582 Chr1 3727606 3733359 +
Lan Lan8g1373 Chr8 20597217 20602504 -
Lan Lan8g1373 Chr8 20597217 20602504 -
Lja Lja3g4851 Chr3 90575719 90579770 +
Ssu Ssu3g1750 Chr3 53392784 53397883 -
Sto Sto4g2827 Chr4 29060080 29063377 -
Vvi Vvi19g0212 Chr19 2325829 2327321 +
Aed Aed5g1202 Chr5 10673633 10675810 -
Apr Apr5g0136 Chr5 1205957 1207999 -
Bva Bva09g00889 Chr09 4588779 4590580 -
Bva Bva07g01724 Chr07 16044058 16045819 +
Cca Cca04g01453 Chr04 19963386 19965762 -
Gma Gma06g02156 Chr06 38720807 38722955 +
Gso Gso6g1986 Chr6 34905481 34908104 +
Lal Lal9g0530 Chr9 3554804 3556658 -
Lal Lal2g0594 Chr2 3559613 3561726 -
Lal Lal1g0579 Chr1 3713261 3715059 -
Lan Lan8g1374 Chr8 20643498 20645974 +
Lan Lan8g1374 Chr8 20643498 20645974 +
Lan Lan8g1374 Chr8 20643498 20645974 +
Lja Lja3g3773 Chr3 74404715 74406604 -
Lja Lja3g4849 Chr3 90531117 90533076 -
Ssu Ssu3g1751 Chr3 53503273 53505356 +
Sto Sto7g0226 Chr7 1619705 1621378 +
Sto Sto4g2828 Chr4 29079371 29080872 +
Vra Vra2g1200 Chr2 16357065 16359657 -
Vvi Vvi19g0213 Chr19 2328816 2354198 +
Aed Aed5g1201 Chr5 10651095 10661517 -
Ahy Ahy13g1927 Chr13 33037303 33052617 -
Aip Aip03g02143 Chr03 31820164 31835425 -
Apr Apr5g0135 Chr5 1190109 1200621 -
Bva Bva07g01725 Chr07 16058282 16065846 +
Cca Cca04g01452 Chr04 19929701 19947936 -
Gma Gma06g02157 Chr06 38768452 38782239 +
Gso Gso6g1987 Chr6 34953037 34966904 +
Lal Lal9g0528 Chr9 3533089 3542784 -
Lan Lan8g1375 Chr8 20652784 20662614 +
Lja Lja3g4848 Chr3 90503879 90522268 -
Ssu Ssu3g1752 Chr3 53530074 53569994 +
Sto Sto4g2829 Chr4 29088320 29101159 +
Vra Vra2g1199 Chr2 16268809 16311291 -
Vvi Vvi19g0214 Chr19 2356592 2357506 -
Aed Aed1g0572 Chr1 7212285 7215393 -
Aev Aev10g1342 Chr10 16907214 16908941 +
Ahy Ahy18g1392 Chr18 26354453 26358814 -
Aip Aip08g01489 Chr08 25114553 25118498 -
Amo Amo18g1644 Chr18 33000597 33005909 -
Bva Bva07g01727 Chr07 16068826 16070499 -
Car Car01g02020 Chr01 45444785 45446592 +
Cca Cca10g01131 Chr10 14394422 14399448 +
Dod Dod10g0966 Chr10 27630285 27634229 +
Gma Gma13g02427 Chr13 39016781 39018728 -
Ssu Ssu8g1176 Chr8 21011828 21014309 +
Sto Sto7g0228 Chr7 1626704 1628353 -
Vra Vra5g2842 Chr5 36341584 36343066 -
Vvi Vvi19g0215 Chr19 2359761 2364043 +
Aed Aed5g1200 Chr5 10647314 10650341 -
Aev Aev04g2420 Chr04 23675576 23678307 +
Ahy Ahy13g1925 Chr13 33012743 33015452 -
Aip Aip03g02142 Chr03 31787355 31790088 -
Apr Apr5g0134 Chr5 1187526 1189110 -
Bva Bva09g00888 Chr09 4577476 4580806 -
Bva Bva09g00888 Chr09 4577476 4580806 -
Cca Cca04g01451 Chr04 19917808 19920746 -
Gma Gma06g02158 Chr06 38783813 38787098 +
Gso Gso6g1988 Chr6 34968504 34971680 +
Lja Lja3g4846 Chr3 90494798 90495995 -
Ssu Ssu3g1753 Chr3 53574529 53577480 +
Vra Vra2g1196 Chr2 16206579 16209567 +
Vvi Vvi19g0216 Chr19 2368390 2369052 +
Acco Acco06g2116 Chr06 15979585 15980280 +
Accr Accr5g01012 Chr5 35811029 35811724 -
Adu Adu10g00245 Chr10 2997784 2999375 +
Aed Aed5g1199 Chr5 10642057 10642626 -
Ahy Ahy13g1924 Chr13 33000766 33002052 -
Aip Aip03g02141 Chr03 31776075 31776871 -
Alju Alju03g1297 Chr03 41559230 41559925 -
Apr Apr2g0417 Chr2 4924034 4925333 +
Apr Apr5g0132 Chr5 1177810 1179075 -
Arst Arst10g00316 Chr10 2633582 2634569 +
Bach Bach7g00583 Chr7 16322578 16323273 +
Bisa Bisa07g1148 Chr07 29400256 29400957 +
Bva Bva09g00887 Chr09 4573901 4574990 -
Bva Bva07g01728 Chr07 16072171 16073170 +
Cca Cca04g01450 Chr04 19900291 19901362 -
Dere Dere02g2701 Chr02 30408135 30408830 -
Enph Enph4g0748 Chr4 21246304 21247342 -
Glsi Glsi11g2340 Chr11 16390150 16390839 +
Gma Gma06g02159 Chr06 38835139 38835813 +
Gma Gma13g02430 Chr13 39046212 39047198 -
Gso Gso6g1990 Chr6 35017632 35018496 +
Gso Gso6g1990 Chr6 35017632 35018496 +
Lal Lal9g0526 Chr9 3521335 3521907 -
Lal Lal2g0593 Chr2 3553399 3553986 -
Lal Lal20g0345 Chr20 2793038 2793670 +
Lal Lal11g1443 Chr11 17792456 17793061 +
Lan Lan8g1377 Chr8 20669583 20670562 +
Lan Lan8g1377 Chr8 20669583 20670562 +
Lan Lan8g1377 Chr8 20669583 20670562 +
Lan Lan8g1377 Chr8 20669583 20670562 +
Lapu Lapu6g01277 Chr6 12652590 12653255 -
Lasa Lasa1g00471 Chr1 32148318 32148998 +
Lele Lele13g0793 Chr13 19764961 19765656 -
Lele Lele14g0683 Chr14 18133787 18134482 -
Lele Lele15g1686 Chr15 10033472 10034167 +
Lele Lele16g1724 Chr16 10021738 10022433 +
Lja Lja3g3774 Chr3 74422847 74424109 +
Lja Lja3g4845 Chr3 90486692 90487297 -
Mal Mal4g1475 Chr4 22567892 22568524 +
Mepo Mepo6g00469 Chr6 4823471 4824578 -
Mesa Mesa5g04186 Chr5 70673828 70674445 +
Mibi Mibi06g1024 Chr06 29973074 29974295 -
Mtr Mtr2g2601 Chr2 38974407 38975503 -
Phac Phac6g02617 Chr6 24130322 24132214 +
Phco Phco11g00437 Chr11 2945739 2946551 -
Prci Prci3g1052 Chr3 13577751 13579222 -
Pte Pte2g00838 Chr2 7471692 7473440 -
Pumo Pumo2g00803 Chr2 12222504 12224481 +
Pvu Pvu6g1900 Chr6 29213340 29215073 +
Rops Rops11g00596 Chr11 8395006 8396188 -
Seca Seca6g04864 Chr6 116025694 116026374 +
Spst Spst6g00798 Chr6 7229643 7230308 -
Ssu Ssu3g1754 Chr3 53629995 53630552 +
Sto Sto7g0229 Chr7 1637458 1639289 +
Sto Sto4g2831 Chr4 29105253 29106425 +
Tpr Tpr7g3503 Chr7 43518539 43519894 -
Trre Trre3g00498 Chr3 3369825 3370433 -
Tsu Tsu02g04350 Chr02 52074781 52075889 -
Vian Vian6g01753 Chr6 34976500 34977162 +
Vifa Vifa1g10433 Chr1 1744072419 1744073087 -
Vimu Vimu2g00686 Chr2 4141163 4141834 -
Viun Viun6g02754 Chr6 31398827 31399937 +
Vivi Vivi5g03329 Chr5 124335030 124335979 -
Vra Vra2g1197 Chr2 16215113 16216006 +
Vvi Vvi19g0217 Chr19 2373317 2377850 +
Adu Adu08g02049 Chr08 34305154 34309307 +
Aed Aed1g0574 Chr1 7220887 7223010 -
Apr Apr5g0131 Chr5 1167594 1171570 -
Arst Arst8g02823 Chr8 38671794 38675987 +
Bva Bva09g00886 Chr09 4567008 4570793 -
Bva Bva07g01729 Chr07 16077828 16081851 +
Car Car07g02200 Chr07 31435708 31440708 +
Cca Cca10g01129 Chr10 14379325 14385277 +
Lal Lal9g0525 Chr9 3509697 3513764 -
Lal Lal1g0576 Chr1 3689330 3692797 -
Lan Lan8g1378 Chr8 20678722 20682848 +
Lan Lan8g1378 Chr8 20678722 20682848 +
Lja Lja3g3775 Chr3 74434081 74438873 +
Lja Lja3g4842 Chr3 90455761 90459416 -
Mtr Mtr8g1655 Chr8 24336417 24338569 +
Pumo Pumo4g03412 Chr4 71707081 71710425 -
Pvu Pvu5g0774 Chr5 13392814 13393802 +
Seca Seca4g09566 Chr4 225638671 225642463 -
Ssu Ssu8g1174 Chr8 20998160 21002436 +
Vifa Vifa1g03068 Chr1 480730149 480731867 +
Viun Viun5g02572 Chr5 36816986 36823724 -
Vivi Vivi3g02312 Chr3 38494850 38496927 -
Vra Vra5g2843 Chr5 36373442 36382031 -
Vvi Vvi19g0218 Chr19 2381024 2383774 +
Bva Bva09g00885 Chr09 4563920 4566484 -
Bva Bva09g00885 Chr09 4563920 4566484 -
Lal Lal1g1631 Chr1 18724652 18728389 -
Lja Lja3g3776 Chr3 74457990 74461016 +
Sto Sto4g2834 Chr4 29120041 29122845 +
Vvi Vvi19g0219 Chr19 2384643 2385417 -
Aed Aed5g1197 Chr5 10602405 10606836 -
Apr Apr5g0130 Chr5 1159983 1165393 +
Bva Bva09g00884 Chr09 4559732 4563708 +
Bva Bva09g00884 Chr09 4559732 4563708 +
Cca Cca04g01449 Chr04 19837464 19842949 +
Lal Lal9g0524 Chr9 3504854 3513854 +
Lan Lan8g1379 Chr8 20683524 20692241 -
Ssu Ssu3g1765 Chr3 54030765 54036407 -
Vra Vra2g1195 Chr2 16190803 16203576 -