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
Vvi18g1306 . . . . . . . . . . . . . . . . . . Apr9g0746 . . . . . . . Bva06g02912 . Car04g02937 . Cca05g00067 . . . . . . . . . . . Gma14g01507 Gma13g00232 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5099 . . . . . . . Mtr1g0881 . . Phac1g00892 . Phco2g00749 . . Psa6g0917 . . Pste8g02033 . . . . . . . Pvu1g0667 . . . . . Spst8g01436 . . . Sto9g2822 Tpr1g3081 . . . Tsu01g01006 . . . . Vifa3g04080 . Vimu1g02400 . . . . Vra6g1427 .
Vvi18g1307 . . . . Adu08g00516 . . Aed10g0381 . . Ahy17g2722 . Aip07g02969 . . . . . . . Arst8g00662 . . . Bisa09g0997 . . . . . . Cca03g01055 Dere04g1141 . . . . . Glsi08g1039 . . Gma06g01079 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4951 . . Mal2g1882 Mepo3g06466 . . . . . . Mtr3g3027 . . Phco7g01337 . . . . Psa5g1931 Pste2g03287 . . . . . Pumo10g01326 . Pvu9g1378 . Rops10g01997 . Seca4g02437 . . . . Ssu1g2913 . . . Tpr2g5422 Trre5g03677 . . . Vian4g01455 . Vifa2g02818 . Vimu10g02360 . Viun9g02291 . Vivi3g02963 . . .
Vvi18g1308 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr3g3028 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2821 . Tpr2g5421 . . . . . . . . . . . . . . . .
Vvi18g1309 . . . . Adu08g00512 . . . . . . . . . . . . . . . Arst8g00659 . Bach12g00914 . . . Bva06g02913 . Car04g02938 . . Cca03g01054 . . . . . . . . . Gma06g01080 . Gma13g00234 . . . . . Lal17g0515 . . . . . . . . . . Lapu9g01419 . . . . . . . . . . . Lja1g4949 . . . Mepo3g06467 . . . . . . . Phac9g01010 . Phco7g01338 . . . . Psa5g1920 Pste2g03289 . . . . . Pumo10g01328 . Pvu9g1380 . Rops10g01999 . Seca4g02438 . . . . Ssu1g2911 . . . . Trre5g03684 . . . Vian4g01454 . . . Vimu10g02361 . Viun9g02290 . Vivi3g02961 . . .
Vvi18g1310 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma06g01081 Gma14g01508 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4948 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1311 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1312 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1313 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1314 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1315 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g1306 Chr18 13134037 13151873 -
Apr Apr9g0746 Chr9 13262144 13270517 +
Bva Bva06g02912 Chr06 18167978 18170841 -
Car Car04g02937 Chr04 56546217 56553021 -
Cca Cca05g00067 Chr05 1451606 1458882 +
Gma Gma14g01507 Chr14 35648090 35657629 -
Gma Gma13g00232 Chr13 12123374 12130692 -
Mal Mal1g5099 Chr1 122615739 122620763 -
Mtr Mtr1g0881 Chr1 10177775 10181862 +
Phac Phac1g00892 Chr1 7758883 7763450 +
Phco Phco2g00749 Chr2 8019991 8024104 +
Psa Psa6g0917 Chr6 34520932 34525411 +
Pste Pste8g02033 Chr8 16507733 16513454 -
Pvu Pvu1g0667 Chr1 8161995 8166619 +
Spst Spst8g01436 Chr8 13552219 13560774 -
Sto Sto9g2822 Chr9 29786326 29787291 +
Tpr Tpr1g3081 Chr1 35318462 35324271 -
Tsu Tsu01g01006 Chr01 9195045 9200110 +
Vifa Vifa3g04080 Chr3 1201223987 1201226857 -
Vimu Vimu1g02400 Chr1 34767749 34771829 -
Vra Vra6g1427 Chr6 28106384 28111235 -
Vvi Vvi18g1307 Chr18 13176556 13178357 +
Adu Adu08g00516 Chr08 9260835 9263993 -
Aed Aed10g0381 Chr10 3085519 3087338 +
Ahy Ahy17g2722 Chr17 125176609 125178720 -
Aip Aip07g02969 Chr07 116252724 116254835 -
Arst Arst8g00662 Chr8 9232745 9235790 -
Bisa Bisa09g0997 Chr09 14571732 14573587 -
Cca Cca03g01055 Chr03 25627021 25629514 -
Dere Dere04g1141 Chr04 12751982 12753505 +
Glsi Glsi08g1039 Chr08 7639346 7640792 -
Gma Gma06g01079 Chr06 10123606 10125824 +
Lja Lja1g4951 Chr1 68786672 68789309 -
Mal Mal2g1882 Chr2 22734563 22737046 -
Mepo Mepo3g06466 Chr3 78619624 78621657 +
Mtr Mtr3g3027 Chr3 44161693 44163865 +
Phco Phco7g01337 Chr7 12084675 12086539 +
Psa Psa5g1931 Chr5 148809917 148811903 +
Pste Pste2g03287 Chr2 32777945 32781218 +
Pumo Pumo10g01326 Chr10 17614694 17616517 +
Pvu Pvu9g1378 Chr9 19629643 19631506 +
Rops Rops10g01997 Chr10 36435300 36437541 +
Seca Seca4g02437 Chr4 41672997 41675053 +
Ssu Ssu1g2913 Chr1 76512623 76514464 -
Tpr Tpr2g5422 Chr2 61109852 61111894 -
Trre Trre5g03677 Chr5 36024979 36027899 +
Vian Vian4g01455 Chr4 29216471 29226358 -
Vifa Vifa2g02818 Chr2 786497092 786498734 -
Vimu Vimu10g02360 Chr10 34390865 34395817 +
Viun Viun9g02291 Chr9 32319936 32321803 -
Vivi Vivi3g02963 Chr3 49571483 49573500 -
Vvi Vvi18g1308 Chr18 13195418 13195879 +
Mtr Mtr3g3028 Chr3 44168555 44170095 +
Sto Sto9g2821 Chr9 29779004 29780487 -
Tpr Tpr2g5421 Chr2 61093875 61095881 -
Vvi Vvi18g1309 Chr18 13199060 13200267 -
Adu Adu08g00512 Chr08 9217089 9219360 +
Arst Arst8g00659 Chr8 9201214 9202398 +
Bach Bach12g00914 Chr12 6489130 6490128 -
Bva Bva06g02913 Chr06 18171787 18172785 -
Car Car04g02938 Chr04 56559122 56560123 -
Cca Cca03g01054 Chr03 25603916 25606484 +
Gma Gma06g01080 Chr06 10130386 10137661 -
Gma Gma13g00234 Chr13 12159520 12160518 -
Lal Lal17g0515 Chr17 3584728 3585738 -
Lapu Lapu9g01419 Chr9 28470138 28471136 +
Lja Lja1g4949 Chr1 68689813 68691091 +
Mepo Mepo3g06467 Chr3 78624665 78625907 -
Phac Phac9g01010 Chr9 7712569 7713927 -
Phco Phco7g01338 Chr7 12091443 12092441 -
Psa Psa5g1920 Chr5 147810936 147811527 +
Pste Pste2g03289 Chr2 32793378 32795032 -
Pumo Pumo10g01328 Chr10 17625859 17627215 -
Pvu Pvu9g1380 Chr9 19646773 19648036 -
Rops Rops10g01999 Chr10 36456675 36457884 -
Seca Seca4g02438 Chr4 41727414 41728415 -
Ssu Ssu1g2911 Chr1 76474331 76475338 +
Trre Trre5g03684 Chr5 36201588 36202400 -
Vian Vian4g01454 Chr4 29212137 29213135 +
Vimu Vimu10g02361 Chr10 34408835 34409833 -
Viun Viun9g02290 Chr9 32310897 32312223 +
Vivi Vivi3g02961 Chr3 49520327 49521587 +
Vvi Vvi18g1310 Chr18 13202032 13203048 -
Gma Gma06g01081 Chr06 10139076 10140514 -
Gma Gma14g01508 Chr14 35686491 35687468 -
Lja Lja1g4948 Chr1 68680683 68682009 +
Vvi Vvi18g1311 Chr18 13210133 13210315 +
Vvi Vvi18g1312 Chr18 13231125 13231307 -
Vvi Vvi18g1313 Chr18 13256399 13259264 -
Vvi Vvi18g1314 Chr18 13277786 13277995 +
Vvi Vvi18g1315 Chr18 13278347 13278469 -