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
Vvi16g1289 . . . . . . . . . . . . . . . . . . Apr1g0625 . . . . . . . Bva12g01903 Bva06g03019 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4756 . . . . . . . . . . . . . . . . . Psa5g1728 . . . . . . . . . . . . . . . . . . . Sto9g2705 . . . . . . . . . . . . . . . . . . .
Vvi16g1290 . . . . . . . . Aev08g0758 . Ahy17g2535 . Aip07g02719 . . . Amo17g2432 . Apr1g0626 . . . . . . . Bva12g01905 Bva06g03017 . . . . . . . . . . . . . . . . . . . . Lal17g0596 Lal4g0521 . . . . Lan15g0649 Lan15g0649 . . . . . . . . . . . . . . . . Lja1g4760 . . . . . . . . . . . . . . . . . Psa5g1729 . . . . . . . . . . . . . . . . . . . Sto9g2707 Sto5g1330 . . . . . . . . . . . . . . . . . .
Vvi16g1291 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1292 . . . . . . . . Aev08g0760 . Ahy17g2539 . Aip07g02724 . . . Amo17g2435 . Apr1g0628 . . . . . . . Bva12g01907 Bva06g03015 . . . . . . . . . . . . . . . . . . . . Lal17g0595 Lal4g0520 Lal21g0582 . . . Lan15g0650 Lan15g0650 Lan15g0650 . . . . . . . . . . . . . . . Lja1g4768 . . . . . . . . . . . . . . . . . Psa5g1730 Psa6g0844 . . . . . . . . . . . . . . . . . . Sto9g2708 Sto5g1327 . . . . . . . . . . . . . . . . . .
Vvi16g1293 . . . . . . . . Aev08g0392 . Ahy17g2540 . Aip07g02725 . . . Amo17g2436 . Apr1g0629 . . . . . . . Bva12g01908 Bva06g03014 . . . . . . . . . . . . . . . . . . . . Lal17g0594 Lal4g0519 . . . . Lan15g0652 Lan15g0652 . . . . . . . . . . . . . . . . Lja1g4769 . . . . . . . . . . . . . . . . . Psa5g1731 . . . . . . . . . . . . . . . . . . . Sto9g2709 Sto5g1325 . . . . . . . . . . . . . . . . . .
Vvi16g1294 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1295 . . . . . . . . Aev08g0762 . Ahy17g2542 . Aip07g02727 . . . Amo17g2438 . Apr1g0630 . . . . . . . Bva12g01909 Bva06g03013 . . . . . . . . . . . . . . . . . . . . Lal17g0593 Lal4g0518 . . . . Lan15g0653 Lan15g0653 . . . . . . . . . . . . . . . . Lja1g4770 . . . . . . . . . . . . . . . . . Psa5g1732 Psa6g0843 . . . . . . . . . . . . . . . . . . Sto9g2711 Sto5g1324 . . . . . . . . . . . . . . . . . .
Vvi16g1296 . . . . . . . . Aev08g0764 . Ahy17g2544 . Aip07g02730 . . . Amo17g2441 . Apr1g0632 . . . . . . . Bva12g01910 Bva06g03012 . . . . . . . . . . . . . . . . . . . . Lal17g0592 Lal4g0517 . . . . Lan15g0654 Lan15g0654 . . . . . . . . . . . . . . . . Lja1g4772 . . . . . . . . . . . . . . . . . Psa5g1735 . . . . . . . . . . . . . . . . . . . Sto9g2713 Sto5g1320 . . . . . . . . . . . . . . . . . .
Vvi16g1297 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1298 . . . . Adu08g00386 . . . Aev08g0766 . Ahy17g2546 . Aip07g02732 . . . Amo17g2444 . Apr1g0633 . Arst8g00479 . . . . . . Bva06g03009 . . . . . . . . . . . . . . . . . . . . Lal17g0589 Lal4g0515 . . . . Lan15g0656 Lan15g0656 . . . . . . . . . . . . . . . . Lja1g4774 . . . . . . . . . . . . . . . . . Psa5g1743 . Pste2g03485 . . . . . . . Pvu9g0501 . . . . . . . . . . Sto5g1316 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g1289 Chr16 21447525 21450318 -
Apr Apr1g0625 Chr1 7545256 7554237 -
Bva Bva12g01903 Chr12 15250717 15252799 -
Bva Bva06g03019 Chr06 18755109 18757197 +
Lja Lja1g4756 Chr1 64239008 64241585 -
Psa Psa5g1728 Chr5 134270869 134272794 -
Sto Sto9g2705 Chr9 29020265 29021571 -
Vvi Vvi16g1290 Chr16 21450961 21454208 +
Aev Aev08g0758 Chr08 4360402 4362213 +
Ahy Ahy17g2535 Chr17 120547640 120549575 +
Aip Aip07g02719 Chr07 111925580 111927302 +
Amo Amo17g2432 Chr17 121150714 121152439 +
Apr Apr1g0626 Chr1 7552390 7557478 +
Bva Bva12g01905 Chr12 15255749 15257253 +
Bva Bva06g03017 Chr06 18750901 18752952 -
Lal Lal17g0596 Chr17 4267863 4271318 -
Lal Lal4g0521 Chr4 3776145 3779596 -
Lan Lan15g0649 Chr15 15013758 15017228 +
Lan Lan15g0649 Chr15 15013758 15017228 +
Lja Lja1g4760 Chr1 64268105 64271125 +
Psa Psa5g1729 Chr5 134310628 134315552 +
Sto Sto9g2707 Chr9 29027546 29028585 +
Sto Sto5g1330 Chr5 9072542 9074155 -
Vvi Vvi16g1291 Chr16 21461801 21462004 -
Vvi Vvi16g1292 Chr16 21461811 21468288 +
Aev Aev08g0760 Chr08 4371105 4375271 +
Ahy Ahy17g2539 Chr17 120666939 120671904 +
Aip Aip07g02724 Chr07 112036490 112041236 +
Amo Amo17g2435 Chr17 121229424 121234189 +
Apr Apr1g0628 Chr1 7575343 7580734 +
Bva Bva12g01907 Chr12 15264052 15268273 +
Bva Bva06g03015 Chr06 18740977 18745321 -
Lal Lal17g0595 Chr17 4253021 4261437 -
Lal Lal4g0520 Chr4 3768113 3773246 -
Lal Lal21g0582 Chr21 4335755 4341582 -
Lan Lan15g0650 Chr15 15024703 15029847 +
Lan Lan15g0650 Chr15 15024703 15029847 +
Lan Lan15g0650 Chr15 15024703 15029847 +
Lja Lja1g4768 Chr1 64385307 64390656 +
Psa Psa5g1730 Chr5 134351573 134356472 +
Psa Psa6g0844 Chr6 29721051 29724738 -
Sto Sto9g2708 Chr9 29035191 29039633 +
Sto Sto5g1327 Chr5 9049909 9053309 -
Vvi Vvi16g1293 Chr16 21471080 21473217 -
Aev Aev08g0392 Chr08 2164804 2167800 +
Ahy Ahy17g2540 Chr17 120685945 120688454 -
Aip Aip07g02725 Chr07 112054726 112057196 -
Amo Amo17g2436 Chr17 121248409 121250922 -
Apr Apr1g0629 Chr1 7581326 7584745 -
Bva Bva12g01908 Chr12 15269158 15271250 -
Bva Bva06g03014 Chr06 18737399 18740582 +
Lal Lal17g0594 Chr17 4249533 4251593 +
Lal Lal4g0519 Chr4 3764760 3767455 +
Lan Lan15g0652 Chr15 15041544 15043754 -
Lan Lan15g0652 Chr15 15041544 15043754 -
Lja Lja1g4769 Chr1 64412082 64414609 -
Psa Psa5g1731 Chr5 134384413 134387083 -
Sto Sto9g2709 Chr9 29042859 29044707 -
Sto Sto5g1325 Chr5 9042828 9044520 +
Vvi Vvi16g1294 Chr16 21491640 21492260 +
Vvi Vvi16g1295 Chr16 21495262 21498371 -
Aev Aev08g0762 Chr08 4382179 4384902 -
Ahy Ahy17g2542 Chr17 120717460 120721536 -
Aip Aip07g02727 Chr07 112080224 112094422 -
Amo Amo17g2438 Chr17 121275425 121278900 -
Apr Apr1g0630 Chr1 7588215 7592124 -
Bva Bva12g01909 Chr12 15273149 15276547 -
Bva Bva06g03013 Chr06 18733551 18737177 +
Lal Lal17g0593 Chr17 4242552 4247246 +
Lal Lal4g0518 Chr4 3753381 3757506 +
Lan Lan15g0653 Chr15 15084263 15088343 -
Lan Lan15g0653 Chr15 15084263 15088343 -
Lja Lja1g4770 Chr1 64429981 64434514 -
Psa Psa5g1732 Chr5 134720465 134723131 -
Psa Psa6g0843 Chr6 29645124 29647628 +
Sto Sto9g2711 Chr9 29053350 29056022 -
Sto Sto5g1324 Chr5 9035299 9040104 +
Vvi Vvi16g1296 Chr16 21519482 21527110 +
Aev Aev08g0764 Chr08 4395580 4397064 +
Ahy Ahy17g2544 Chr17 120754721 120756886 +
Aip Aip07g02730 Chr07 112132019 112132840 +
Amo Amo17g2441 Chr17 121312140 121314247 +
Apr Apr1g0632 Chr1 7607314 7608977 +
Bva Bva12g01910 Chr12 15279141 15283713 +
Bva Bva06g03012 Chr06 18727016 18731111 -
Lal Lal17g0592 Chr17 4233397 4238514 -
Lal Lal4g0517 Chr4 3745802 3750670 -
Lan Lan15g0654 Chr15 15094969 15099760 +
Lan Lan15g0654 Chr15 15094969 15099760 +
Lja Lja1g4772 Chr1 64490571 64492609 +
Psa Psa5g1735 Chr5 134873478 134881432 +
Sto Sto9g2713 Chr9 29068065 29069516 +
Sto Sto5g1320 Chr5 9018296 9019689 -
Vvi Vvi16g1297 Chr16 21530831 21537210 +
Vvi Vvi16g1298 Chr16 21537849 21539831 -
Adu Adu08g00386 Chr08 6768944 6772019 -
Aev Aev08g0766 Chr08 4402110 4403597 -
Ahy Ahy17g2546 Chr17 120799653 120802488 -
Aip Aip07g02732 Chr07 112174640 112177824 -
Amo Amo17g2444 Chr17 121362260 121365272 -
Apr Apr1g0633 Chr1 7621419 7625543 -
Arst Arst8g00479 Chr8 6742022 6744515 -
Bva Bva06g03009 Chr06 18714568 18716306 +
Lal Lal17g0589 Chr17 4216362 4218713 +
Lal Lal4g0515 Chr4 3738329 3742730 +
Lan Lan15g0656 Chr15 15120769 15123054 -
Lan Lan15g0656 Chr15 15120769 15123054 -
Lja Lja1g4774 Chr1 64498134 64500715 -
Psa Psa5g1743 Chr5 135089684 135092378 -
Pste Pste2g03485 Chr2 35903047 35904572 +
Pvu Pvu9g0501 Chr9 9252052 9254572 +
Sto Sto5g1316 Chr5 9004979 9006936 +
Aev Aev08g0392 Chr08 2164804 2167800 +