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
Vvi4g0144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca05g00462 . . . . . . . . Gma14g00996 . . . Gso14g0933 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2956 . . . . . . . . . Mtr1g0337 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0509 . . . Tpr1g3511 . . . Tsu01g00579 . . . . . . . . . . . .
Vvi4g0145 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu8g00723 . Lasa6g00478 . . . . . . . . . . . . . Mepo4g00482 . Mesa1g00520 . . . . . . . . . . . . . . . . . . . Pumo9g00477 . Pvu1g0404 . Rops9g02017 . Seca8g03350 . Spst8g02393 . . . . . . . Trre1g00554 . . . Vian7g00546 . Vifa3g04670 . Vimu1g02774 . Viun8g00586 . Vivi4g05323 . .
Vvi4g0146 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu8g00722 . Lasa6g00479 . . . . . . . . . . . . . . . . . . . . . . . Phco2g00463 . . Psa5g0823 Psa6g0501 . . . . . . . . . Pvu1g0405 . . . . . Spst8g02394 . . . . . . . . . . . . . . . Vimu1g02772 . . . Vivi4g05322 . .
Vvi4g0147 . . . . . . . . . . . Ahy17g3134 . Aip07g03405 . . . . . . . . . . . . . . . . . . . . . Dod08g1830 . . . . Gma14g00906 . . . Gso14g0874 . . . . . . . . . . . . . . . . Lapu8g00722 . Lasa6g00479 . . . . . . . . . . . . . . . . . . . . . . . Phco2g00463 . . . Psa6g0502 . . . . . . . . . Pvu1g0405 . . . . . Spst8g02394 . . . . . . . . . . . . . . . Vimu1g02772 . . . Vivi4g05322 . .
Vvi4g0148 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g0822 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0149 . . . . . . . . . Aev08g0487 . Ahy17g3133 . Aip07g03403 . . . . . . . . . . . . Bva10g00530 . . . . . . . . Dod08g1829 . . . . Gma14g00905 . . . Gso14g0873 . . . . . . . . . . . . . . . . Lapu8g00723 . Lasa6g00478 . . . . . . . . . . . . . Mepo4g00482 . Mesa1g00520 . . . . . . . . . . . Psa6g0510 . . . . . . . Pumo9g00477 . Pvu1g0404 . Rops9g02017 . Seca8g03350 . Spst8g02393 . . . . . . . Trre1g00554 . . . Vian7g00546 . Vifa3g04670 . Vimu1g02774 . Viun8g00586 . Vivi4g05323 . .
Vvi4g0150 . . . . . . Aed4g1669 Aed6g1277 . . . . . . . . . . . . . . . . . . . . . . Cca03g01706 Cca05g00788 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4013 . . . . . . . . . . . . . . . . . Psa5g0821 Psa6g0512 . . . . . . . . . . . . . . . . Ssu1g3606 Ssu5g0450 Sto5g0996 Sto9g3418 . . . . . . . . . . . . . . . . Vra5g1368 Vra6g1695
Vvi4g0151 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0152 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0153 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0144 Chr4 1237845 1238315 -
Cca Cca05g00462 Chr05 10085573 10094940 -
Gma Gma14g00996 Chr14 11955335 11972921 -
Gso Gso14g0933 Chr14 11876254 11889337 -
Lja Lja5g2956 Chr5 58051978 58052592 -
Mtr Mtr1g0337 Chr1 3809782 3810638 -
Ssu Ssu5g0509 Chr5 10896631 10901410 -
Tpr Tpr1g3511 Chr1 39302581 39303287 +
Tsu Tsu01g00579 Chr01 5109460 5109980 -
Vvi Vvi4g0145 Chr4 1240042 1240383 -
Lapu Lapu8g00723 Chr8 25192215 25193185 -
Lasa Lasa6g00478 Chr6 14555941 14556423 +
Mepo Mepo4g00482 Chr4 6797254 6797677 +
Mesa Mesa1g00520 Chr1 6601174 6601656 +
Pumo Pumo9g00477 Chr9 7447495 7448363 +
Pvu Pvu1g0404 Chr1 4062998 4063845 +
Rops Rops9g02017 Chr9 37205051 37205527 -
Seca Seca8g03350 Chr8 96076767 96078995 -
Spst Spst8g02393 Chr8 35421465 35421932 +
Trre Trre1g00554 Chr1 4192200 4192679 +
Vian Vian7g00546 Chr7 13037945 13038421 -
Vifa Vifa3g04670 Chr3 1339948258 1339948740 -
Vimu Vimu1g02774 Chr1 39999381 39999857 -
Viun Viun8g00586 Chr8 4364904 4365737 +
Vivi Vivi4g05323 Chr4 186311922 186312759 -
Vvi Vvi4g0146 Chr4 1244737 1246479 -
Lapu Lapu8g00722 Chr8 25190615 25191091 -
Lasa Lasa6g00479 Chr6 14565723 14566202 +
Phco Phco2g00463 Chr2 4175437 4178252 +
Psa Psa5g0823 Chr5 65561518 65563224 +
Psa Psa6g0501 Chr6 16676539 16677898 -
Pvu Pvu1g0405 Chr1 4065207 4066137 +
Spst Spst8g02394 Chr8 35422959 35423519 +
Vimu Vimu1g02772 Chr1 39983551 39984027 -
Vivi Vivi4g05322 Chr4 186307615 186308361 -
Vvi Vvi4g0147 Chr4 1248737 1249207 -
Ahy Ahy17g3134 Chr17 133069236 133069991 +
Aip Aip07g03405 Chr07 123798817 123799789 +
Dod Dod08g1830 Chr08 42981332 42981802 -
Gma Gma14g00906 Chr14 10169750 10170463 +
Gso Gso14g0874 Chr14 10110769 10111549 +
Lapu Lapu8g00722 Chr8 25190615 25191091 -
Lasa Lasa6g00479 Chr6 14565723 14566202 +
Phco Phco2g00463 Chr2 4175437 4178252 +
Psa Psa6g0502 Chr6 16691919 16694650 -
Pvu Pvu1g0405 Chr1 4065207 4066137 +
Spst Spst8g02394 Chr8 35422959 35423519 +
Vimu Vimu1g02772 Chr1 39983551 39984027 -
Vivi Vivi4g05322 Chr4 186307615 186308361 -
Vvi Vvi4g0148 Chr4 1252183 1252650 -
Psa Psa5g0822 Chr5 65552129 65553091 +
Vvi Vvi4g0149 Chr4 1255721 1256197 -
Aev Aev08g0487 Chr08 2749627 2750103 -
Ahy Ahy17g3133 Chr17 133059510 133060428 +
Aip Aip07g03403 Chr07 123789972 123790534 +
Bva Bva10g00530 Chr10 4982952 4983686 +
Dod Dod08g1829 Chr08 42977870 42978340 -
Gma Gma14g00905 Chr14 10166428 10167149 +
Gso Gso14g0873 Chr14 10107313 10108158 +
Lapu Lapu8g00723 Chr8 25192215 25193185 -
Lasa Lasa6g00478 Chr6 14555941 14556423 +
Mepo Mepo4g00482 Chr4 6797254 6797677 +
Mesa Mesa1g00520 Chr1 6601174 6601656 +
Psa Psa6g0510 Chr6 16868847 16869329 -
Pumo Pumo9g00477 Chr9 7447495 7448363 +
Pvu Pvu1g0404 Chr1 4062998 4063845 +
Rops Rops9g02017 Chr9 37205051 37205527 -
Seca Seca8g03350 Chr8 96076767 96078995 -
Spst Spst8g02393 Chr8 35421465 35421932 +
Trre Trre1g00554 Chr1 4192200 4192679 +
Vian Vian7g00546 Chr7 13037945 13038421 -
Vifa Vifa3g04670 Chr3 1339948258 1339948740 -
Vimu Vimu1g02774 Chr1 39999381 39999857 -
Viun Viun8g00586 Chr8 4364904 4365737 +
Vivi Vivi4g05323 Chr4 186311922 186312759 -
Vvi Vvi4g0150 Chr4 1257262 1257741 -
Aed Aed4g1669 Chr4 21242214 21242687 -
Aed Aed6g1277 Chr6 17486691 17487128 -
Cca Cca03g01706 Chr03 36143048 36144220 +
Cca Cca05g00788 Chr05 21779262 21780241 -
Lja Lja1g4013 Chr1 50902406 50903021 +
Psa Psa5g0821 Chr5 65523921 65525967 +
Psa Psa6g0512 Chr6 16883961 16884443 -
Ssu Ssu1g3606 Chr1 91469341 91469811 +
Ssu Ssu5g0450 Chr5 9360159 9360635 +
Sto Sto5g0996 Chr5 6717558 6720127 +
Sto Sto9g3418 Chr9 33781611 33791618 +
Vra Vra5g1368 Chr5 20466540 20467289 +
Vra Vra6g1695 Chr6 32995584 32996304 -
Vvi Vvi4g0151 Chr4 1262053 1262217 +
Vvi Vvi4g0152 Chr4 1264787 1265497 -
Vvi Vvi4g0153 Chr4 1272342 1275531 -