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
Vvi18g0766 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0767 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0768 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal25g0597 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0769 Acco10g1769 . Accr4g00997 . Adu08g01004 Adu06g03142 Aed6g0363 Aed4g1554 Aev08g0383 Aev07g0889 Ahy17g3248 Ahy16g3484 Aip07g03529 Aip06g03737 Alju08g1034 . Amo17g2848 . Apr9g0386 Apr5g1482 Arst8g01329 Arst6g04058 Bach12g00280 Bach3g02202 Bisa09g1833 . Bva06g02129 Bva10g00669 Car04g03404 Car05g02771 Cca05g00121 Cca03g01844 Dere04g0307 . Dod08g2029 Dod08g2029 Enph1g1204 . Glsi08g1836 . Gma04g00408 Gma06g00394 Gma14g00761 Gma17g02275 Gso4g0378 Gso4g0378 Gso4g0378 Gso4g0378 Lal4g0137 Lal17g0117 Lal21g0225 . Lal10g0841 . Lan14g0888 Lan14g0888 Lan14g0888 . Lan14g0888 . . Lapu8g00844 Lasa5g03766 Lasa5g03764 Lele01g0825 Lele02g0799 Lele03g0814 Lele04g0818 . . . . Lja1g4124 Lja5g3107 Mal1g5721 Mal2g1163 Mepo3g07180 Mepo4g00310 . Mesa1g00348 Mibi05g0930 . Mtr1g0477 Mtr3g3683 Phac9g01521 . Phco7g00499 Phco2g00306 Prci8g0232 . . Psa5g0944 Pste2g01111 Pste8g00858 . . . . Pumo5g02490 Pumo9g00314 Pvu9g0710 Pvu1g0261 Rops10g01136 . Seca4g01397 Seca4g02360 Spst9g00505 Spst8g02209 Ssu5g0296 Ssu1g3736 . Sto9g3515 Tpr1g3648 . Trre5g04900 . Tsu01g00438 Tsu07g00914 Vian2g01813 Vian7g00247 Vifa2g03651 . Vimu10g03256 Vimu1g02950 Viun9g03412 Viun8g01071 Vivi3g01853 Vivi4g05566 Vra6g1826 Vra5g1471
Vvi18g0770 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4950 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0771 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma04g00407 Gma06g00393 . . Gso4g0376 Gso4g0376 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0772 Acco10g1767 . Accr4g00999 . Adu08g01008 . . Aed4g1551 Aev08g0381 . . . Aip07g03534 . Alju08g1036 . Amo17g2846 . . Apr5g1484 Arst8g01336 . . . . . . . . . . Cca03g01846 Dere04g0305 . . . Enph1g1202 . Glsi08g1838 . . . . . . . . . . Lal17g0118 . . . . . . . . . . . . . . Lele01g0827 Lele02g0801 Lele03g0816 Lele04g0820 . . . . . . . . . . . . Mibi05g0932 . . . . . Phco7g00497 . Prci8g0236 . . . Pste2g01107 . . . . . Pumo10g00353 . Pvu9g0708 . Rops10g01134 . Seca4g01410 . Spst9g00502 . . Ssu1g3742 . Sto9g3517 . . . . . . Vian4g02214 . . . Vimu10g03258 . Viun9g03421 . . . . Vra5g1473
Vvi18g0773 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0774 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0775 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Psa Psa6g4950 Chr6 431162493 431163077 -
Aed Aed4g1551 Chr4 20448633 20454601 +
Cca Cca03g01846 Chr03 37798364 37806363 -
Ssu Ssu1g3742 Chr1 93867515 93873482 -
Vra Vra5g1473 Chr5 21390900 21397853 -
Pumo Pumo9g00314 Chr9 5021376 5024893 -
Seca Seca4g02360 Chr4 40161673 40163354 +
Ssu Ssu5g0296 Chr5 6355342 6358187 -
Vian Vian7g00247 Chr7 7486170 7489651 +
Viun Viun8g01071 Chr8 12997602 13001559 -
Vvi Vvi18g0766 Chr18 7977179 7980354 +
Vvi Vvi18g0767 Chr18 7981250 7983386 -
Vvi Vvi18g0768 Chr18 7983844 7985956 -
Lal Lal25g0597 Chr25 4510527 4515859 +
Vvi Vvi18g0769 Chr18 7996302 7998510 +
Acco Acco10g1769 Chr10 30795812 30797746 -
Accr Accr4g00997 Chr4 9503390 9505329 +
Adu Adu08g01004 Chr08 18056879 18059141 +
Adu Adu06g03142 Chr06 109622220 109625145 +
Aed Aed6g0363 Chr6 3128633 3130926 -
Aed Aed4g1554 Chr4 20463408 20465146 -
Aev Aev08g0383 Chr08 2118278 2120120 +
Aev Aev07g0889 Chr07 6195776 6199087 -
Ahy Ahy17g3248 Chr17 134576966 134579273 -
Ahy Ahy16g3484 Chr16 152169688 152172930 +
Aip Aip07g03529 Chr07 125321517 125323811 -
Aip Aip06g03737 Chr06 134955211 134958162 +
Alju Alju08g1034 Chr08 7812257 7814195 +
Amo Amo17g2848 Chr17 130544529 130546658 +
Apr Apr9g0386 Chr9 5204422 5207050 +
Apr Apr5g1482 Chr5 18811600 18813248 -
Arst Arst8g01329 Chr8 18025046 18027367 +
Arst Arst6g04058 Chr6 108730131 108733162 +
Bach Bach12g00280 Chr12 1890176 1892523 -
Bach Bach3g02202 Chr3 29029046 29031646 -
Bisa Bisa09g1833 Chr09 28611130 28613625 +
Bva Bva06g02129 Chr06 14062038 14065198 -
Bva Bva10g00669 Chr10 5682716 5685653 -
Car Car04g03404 Chr04 62680981 62684050 +
Car Car05g02771 Chr05 72833585 72835978 -
Cca Cca05g00121 Chr05 2756091 2759701 +
Cca Cca03g01844 Chr03 37775779 37779092 -
Dere Dere04g0307 Chr04 3072022 3074080 -
Dod Dod08g2029 Chr08 47596218 47599705 +
Dod Dod08g2029 Chr08 47596218 47599705 +
Enph Enph1g1204 Chr1 38010418 38012487 -
Glsi Glsi08g1836 Chr08 12997007 13002504 +
Gma Gma04g00408 Chr04 3550308 3554054 +
Gma Gma06g00394 Chr06 3401588 3403334 +
Gma Gma14g00761 Chr14 7809983 7813654 -
Gma Gma17g02275 Chr17 40669198 40672868 +
Gso Gso4g0378 Chr4 3465666 3468030 -
Gso Gso4g0378 Chr4 3465666 3468030 -
Gso Gso4g0378 Chr4 3465666 3468030 -
Gso Gso4g0378 Chr4 3465666 3468030 -
Lal Lal4g0137 Chr4 857780 860296 +
Lal Lal17g0117 Chr17 719787 721874 -
Lal Lal21g0225 Chr21 1487474 1489788 +
Lal Lal10g0841 Chr10 15996194 16000132 -
Lan Lan14g0888 Chr14 15480434 15484252 -
Lan Lan14g0888 Chr14 15480434 15484252 -
Lan Lan14g0888 Chr14 15480434 15484252 -
Lan Lan14g0888 Chr14 15480434 15484252 -
Lapu Lapu8g00844 Chr8 26598670 26602636 +
Lasa Lasa5g03766 Chr5 596264463 596266253 +
Lasa Lasa5g03764 Chr5 596155609 596157341 -
Lele Lele01g0825 Chr01 4772397 4774330 +
Lele Lele02g0799 Chr02 4875098 4877186 +
Lele Lele03g0814 Chr03 4777159 4779105 +
Lele Lele04g0818 Chr04 5012795 5015022 +
Lja Lja1g4124 Chr1 52296386 52298420 +
Lja Lja5g3107 Chr5 60748803 60751582 +
Mal Mal1g5721 Chr1 133964710 133967275 +
Mal Mal2g1163 Chr2 13645996 13647995 +
Mepo Mepo3g07180 Chr3 85433268 85434965 +
Mepo Mepo4g00310 Chr4 4776959 4780257 -
Mesa Mesa1g00348 Chr1 4303563 4306246 -
Mibi Mibi05g0930 Chr05 8723201 8725093 +
Mtr Mtr1g0477 Chr1 5491126 5494580 +
Mtr Mtr3g3683 Chr3 50702858 50705750 -
Phac Phac9g01521 Chr9 12342781 12345312 +
Phco Phco7g00499 Chr7 3663982 3665615 -
Phco Phco2g00306 Chr2 2497486 2501129 -
Prci Prci8g0232 Chr8 1461543 1464218 +
Psa Psa5g0944 Chr5 72576220 72578780 -
Pste Pste2g01111 Chr2 12038847 12041002 -
Pste Pste8g00858 Chr8 4422949 4426443 +
Pumo Pumo5g02490 Chr5 68896578 68899330 -
Pumo Pumo9g00314 Chr9 5021376 5024893 -
Pvu Pvu9g0710 Chr9 11702206 11704419 -
Pvu Pvu1g0261 Chr1 2317826 2321825 -
Rops Rops10g01136 Chr10 23517546 23520016 +
Seca Seca4g01397 Chr4 22596584 22598572 -
Seca Seca4g02360 Chr4 40161673 40163354 +
Spst Spst9g00505 Chr9 4513018 4514577 -
Spst Spst8g02209 Chr8 31883194 31886755 -
Ssu Ssu5g0296 Chr5 6355342 6358187 -
Ssu Ssu1g3736 Chr1 93751269 93754010 -
Sto Sto9g3515 Chr9 34307440 34309266 +
Tpr Tpr1g3648 Chr1 40600663 40603841 +
Trre Trre5g04900 Chr5 50759912 50761847 -
Tsu Tsu01g00438 Chr01 3727528 3730545 -
Tsu Tsu07g00914 Chr07 7447626 7455613 +
Vian Vian2g01813 Chr2 36519671 36521687 -
Vian Vian7g00247 Chr7 7486170 7489651 +
Vifa Vifa2g03651 Chr2 1066510223 1066511886 +
Vimu Vimu10g03256 Chr10 42858114 42859766 +
Vimu Vimu1g02950 Chr1 41840844 41843914 +
Viun Viun9g03412 Chr9 40469374 40471997 +
Viun Viun8g01071 Chr8 12997602 13001559 -
Vivi Vivi3g01853 Chr3 30024190 30026527 -
Vivi Vivi4g05566 Chr4 190998566 191001899 +
Vra Vra6g1826 Chr6 34722520 34726133 +
Vra Vra5g1471 Chr5 21381387 21383591 +
Vvi Vvi18g0770 Chr18 8000360 8000941 -
Psa Psa6g4950 Chr6 431162493 431163077 -
Vvi Vvi18g0771 Chr18 8002639 8020699 -
Gma Gma04g00407 Chr04 3527994 3534131 +
Gma Gma06g00393 Chr06 3393008 3399298 +
Gso Gso4g0376 Chr4 3452293 3458666 +
Gso Gso4g0376 Chr4 3452293 3458666 +
Vvi Vvi18g0772 Chr18 8020876 8024895 -
Acco Acco10g1767 Chr10 30782717 30787595 +
Accr Accr4g00999 Chr4 9515078 9520354 -
Adu Adu08g01008 Chr08 18127387 18131883 -
Aed Aed4g1551 Chr4 20448633 20454601 +
Aev Aev08g0381 Chr08 2107939 2112237 +
Aip Aip07g03534 Chr07 125337389 125341964 -
Alju Alju08g1036 Chr08 7822291 7827239 -
Amo Amo17g2846 Chr17 130525282 130529848 +
Apr Apr5g1484 Chr5 18817507 18822581 -
Arst Arst8g01336 Chr8 18095562 18099310 -
Cca Cca03g01846 Chr03 37798364 37806363 -
Dere Dere04g0305 Chr04 3058868 3063756 +
Enph Enph1g1202 Chr1 37997487 38003376 +
Glsi Glsi08g1838 Chr08 13010279 13015399 -
Lal Lal17g0118 Chr17 723616 729875 -
Lele Lele01g0827 Chr01 4780877 4786192 -
Lele Lele02g0801 Chr02 4884948 4889266 -
Lele Lele03g0816 Chr03 4785511 4790082 -
Lele Lele04g0820 Chr04 5024391 5032476 -
Mibi Mibi05g0932 Chr05 8731297 8736618 -
Phco Phco7g00497 Chr7 3650429 3658092 +
Prci Prci8g0236 Chr8 1472934 1477684 -
Pste Pste2g01107 Chr2 11987868 11995409 +
Pumo Pumo10g00353 Chr10 4642669 4648254 -
Pvu Pvu9g0708 Chr9 11684649 11693638 +
Rops Rops10g01134 Chr10 23500477 23505584 +
Seca Seca4g01410 Chr4 22698385 22703686 -
Spst Spst9g00502 Chr9 4495286 4501181 +
Ssu Ssu1g3742 Chr1 93867515 93873482 -
Sto Sto9g3517 Chr9 34317408 34322280 -
Vian Vian4g02214 Chr4 38922677 38929587 -
Vimu Vimu10g03258 Chr10 42867010 42874065 -
Viun Viun9g03421 Chr9 40485737 40491964 -
Vra Vra5g1473 Chr5 21390900 21397853 -
Vvi Vvi18g0773 Chr18 8028200 8029537 -
Vvi Vvi18g0774 Chr18 8035263 8035508 +
Vvi Vvi18g0775 Chr18 8035646 8035720 +
Lal Lal25g0597 Chr25 4510527 4515859 +