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
Vvi3g0703 . . . . . . . . Aev09g2509 . Ahy19g3291 . Aip09g03754 . . . Amo19g4178 . Apr8g2455 . . . . . . . . Bva14g00417 Car04g01460 . . . . . Dod06g0064 . . . . . . . . . . . . . . . . . . Lal24g0317 . . . . . . . . Lasa6g04498 . . . . . . . . . Lja5g0399 . . Mal1g0501 . . . . . . . Mtr1g4085 . . Phco6g02807 . . . Psa6g5007 . Pste4g01074 . . . . . Pumo3g00631 . Pvu7g0408 . . . . . Spst10g01308 . . . . Sto10g0312 . Tpr1g0425 . . . Tsu01g04750 Vian3g00373 . Vifa3g03382 . Vimu3g03406 . Viun7g03651 . . . . .
Vvi3g0704 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0705 . . . . . . Aed1g1961 . . . . . . . . . . . . . . . . . . . . . . . Cca02g02546 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu7g0451 . . . . . . . . . . . . . . . . . . . Vra8g2447 .
Vvi3g0706 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00339 Bva14g00418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0536 Sto10g0313 . . . . . . . . . . . . . . . . . .
Vvi3g0707 . . . . . . . . Aev09g2508 . Ahy19g3292 . Aip09g03755 . . . Amo19g4179 . Apr8g2454 . . . . . . . Bva13g00340 Bva14g00419 Car04g01459 . . . . . Dod06g0062 . . . . . . . . . . . . . . . . . Lal12g0404 Lal24g0316 . . . . . . . . . . . . . . . . . . Lja5g0400 . . Mal1g0502 . . . . . . . Mtr1g4084 . . . . . . Psa6g5006 . . . . . . . . . . . . . . . . . . . Sto2g0534 . . Tpr1g0426 . . . Tsu01g04749 . . . . . . . . . . . .
Vvi3g0708 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0709 . . . . . . Aed1g1967 . . . . . . . . . . . Apr8g2453 . . . . . . . Bva13g00342 . Car04g01458 . Cca02g02542 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g0503 . . . . . . . Mtr1g4083 . . . . . . Psa6g5005 . . . . . . . . . . . . . . . . . Ssu7g0453 . Sto2g0533 . . Tpr1g0427 . . . Tsu01g04748 . . . . . . . . . . Vra8g2445 .
Vvi3g0710 . . . . . . . . Aev09g2507 . Ahy19g3293 . Aip09g03756 . . . Amo19g4180 . . . . . . . . . Bva13g00343 Bva14g00420 . . . . . . Dod06g0061 . . . . . . . . . . . . . . . . . . Lal24g0315 . . . . . . . . . . . . . . . . . . Lja5g0401 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0711 . . . . . . . Aed11g1959 . . . . . . . . . . . . . . . . . . Bva13g00344 . . Car08g00018 . Cca06g02054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo5g00019 . Mesa17g00013 . . . . . . . Phco4g00018 . . . . . Pste1g00577 . . . . . Pumo8g02625 . Pvu2g0552 . Rops1g02485 . Seca10g00028 . Spst2g00017 . Ssu2g3179 Sto2g0532 . . . . Trre9g00015 . . . Vian10g00015 . Vifa1g04076 . Vimu7g02157 . Viun2g02968 . Vivi2g04329 . Vra11g0018
Vvi3g0712 . . . . . . . . . . . . . . . . . . Apr8g2451 . . . . . . . . Bva14g00422 Car04g01456 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g0403 . . . . . . . . . . Mtr1g4079 . . . . . . Psa6g5001 . . . . . . . . . . . . . . . . . . . . . . Tpr1g0428 . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0703 Chr3 6106775 6118687 -
Aev Aev09g2509 Chr09 26747292 26748799 +
Ahy Ahy19g3291 Chr19 155966339 155968792 -
Aip Aip09g03754 Chr09 144347375 144349800 -
Amo Amo19g4178 Chr19 158330179 158332705 -
Apr Apr8g2455 Chr8 34616620 34619085 +
Bva Bva14g00417 Chr14 2045001 2047405 -
Car Car04g01460 Chr04 14819524 14822137 +
Dod Dod06g0064 Chr06 907735 910089 +
Lal Lal24g0317 Chr24 2239346 2241334 +
Lasa Lasa6g04498 Chr6 646614707 646616678 +
Lja Lja5g0399 Chr5 3553305 3555718 -
Mal Mal1g0501 Chr1 5748974 5751139 -
Mtr Mtr1g4085 Chr1 52416716 52422707 +
Phco Phco6g02807 Chr6 49305167 49307397 -
Psa Psa6g5007 Chr6 434383326 434385679 +
Pste Pste4g01074 Chr4 8229446 8231930 +
Pumo Pumo3g00631 Chr3 9597740 9599725 +
Pvu Pvu7g0408 Chr7 3234033 3236723 +
Spst Spst10g01308 Chr10 13652151 13654974 -
Sto Sto10g0312 Chr10 2478867 2481525 -
Tpr Tpr1g0425 Chr1 3618427 3620869 -
Tsu Tsu01g04750 Chr01 54692354 54695085 +
Vian Vian3g00373 Chr3 3575070 3577331 +
Vifa Vifa3g03382 Chr3 970497843 970499799 +
Vimu Vimu3g03406 Chr3 47220371 47223711 -
Viun Viun7g03651 Chr7 37461273 37463965 -
Vvi Vvi3g0704 Chr3 6119889 6124371 +
Vvi Vvi3g0705 Chr3 6124675 6126114 -
Aed Aed1g1961 Chr1 16694916 16696340 -
Cca Cca02g02546 Chr02 46607046 46608467 -
Ssu Ssu7g0451 Chr7 8562248 8563681 -
Vra Vra8g2447 Chr8 42516302 42518096 -
Vvi Vvi3g0706 Chr3 6147491 6148402 +
Bva Bva13g00339 Chr13 1589459 1590844 +
Bva Bva14g00418 Chr14 2050457 2051701 +
Sto Sto2g0536 Chr2 4602140 4603297 -
Sto Sto10g0313 Chr10 2486254 2487396 +
Vvi Vvi3g0707 Chr3 6155069 6177666 +
Aev Aev09g2508 Chr09 26743571 26746839 -
Ahy Ahy19g3292 Chr19 155970288 155974276 +
Aip Aip09g03755 Chr09 144352359 144356282 +
Amo Amo19g4179 Chr19 158340581 158344545 +
Apr Apr8g2454 Chr8 34608532 34615100 -
Bva Bva13g00340 Chr13 1592035 1596562 +
Bva Bva14g00419 Chr14 2052603 2058044 +
Car Car04g01459 Chr04 14813745 14818204 -
Dod Dod06g0062 Chr06 902096 904100 -
Lal Lal12g0404 Chr12 2862315 2866487 -
Lal Lal24g0316 Chr24 2234532 2238822 -
Lja Lja5g0400 Chr5 3556978 3562216 +
Mal Mal1g0502 Chr1 5753009 5756816 +
Mtr Mtr1g4084 Chr1 52409026 52413567 -
Psa Psa6g5006 Chr6 434354620 434360247 -
Sto Sto2g0534 Chr2 4591820 4595705 -
Tpr Tpr1g0426 Chr1 3625266 3629330 +
Tsu Tsu01g04749 Chr01 54686804 54690880 -
Vvi Vvi3g0708 Chr3 6179625 6179759 -
Vvi Vvi3g0709 Chr3 6179862 6181354 -
Aed Aed1g1967 Chr1 16721162 16723067 +
Apr Apr8g2453 Chr8 34603420 34605457 +
Bva Bva13g00342 Chr13 1601751 1603546 -
Car Car04g01458 Chr04 14806809 14809465 +
Cca Cca02g02542 Chr02 46565756 46567926 -
Mal Mal1g0503 Chr1 5760947 5763399 -
Mtr Mtr1g4083 Chr1 52402541 52405156 +
Psa Psa6g5005 Chr6 434318172 434319741 +
Ssu Ssu7g0453 Chr7 8673065 8675406 +
Sto Sto2g0533 Chr2 4584019 4587764 +
Tpr Tpr1g0427 Chr1 3631412 3634105 -
Tsu Tsu01g04748 Chr01 54681636 54684847 +
Vra Vra8g2445 Chr8 42479076 42480966 -
Vvi Vvi3g0710 Chr3 6212478 6213994 -
Aev Aev09g2507 Chr09 26739911 26741475 +
Ahy Ahy19g3293 Chr19 155976407 155978059 -
Aip Aip09g03756 Chr09 144358778 144360476 -
Amo Amo19g4180 Chr19 158347691 158349330 -
Bva Bva13g00343 Chr13 1605648 1607597 -
Bva Bva14g00420 Chr14 2056868 2059502 -
Dod Dod06g0061 Chr06 895965 898479 +
Lal Lal24g0315 Chr24 2230819 2233513 +
Lja Lja5g0401 Chr5 3568036 3569819 -
Vvi Vvi3g0711 Chr3 6217557 6226884 -
Aed Aed11g1959 Chr11 22276143 22279439 +
Bva Bva13g00344 Chr13 1608854 1613489 -
Car Car08g00018 Chr08 207409 210679 -
Cca Cca06g02054 Chr06 35772241 35775514 +
Mepo Mepo5g00019 Chr5 258291 260911 -
Mesa Mesa17g00013 Chr17 164200 166786 -
Phco Phco4g00018 Chr4 154783 158509 -
Pste Pste1g00577 Chr1 1869463 1874993 -
Pumo Pumo8g02625 Chr8 63415051 63418522 +
Pvu Pvu2g0552 Chr2 4883459 4887759 +
Rops Rops1g02485 Chr1 47964952 47970640 +
Seca Seca10g00028 Chr10 300851 304747 -
Spst Spst2g00017 Chr2 229816 230307 -
Ssu Ssu2g3179 Chr2 94097200 94101538 +
Sto Sto2g0532 Chr2 4571536 4575819 +
Trre Trre9g00015 Chr9 298001 301311 -
Vian Vian10g00015 Chr10 155901 159760 -
Vifa Vifa1g04076 Chr1 627230006 627233574 +
Vimu Vimu7g02157 Chr7 19108756 19112636 -
Viun Viun2g02968 Chr2 33729059 33733421 +
Vivi Vivi2g04329 Chr2 157229715 157233382 +
Vra Vra11g0018 Chr11 189543 193855 -
Vvi Vvi3g0712 Chr3 6255590 6257062 +
Apr Apr8g2451 Chr8 34580363 34582351 -
Bva Bva14g00422 Chr14 2071345 2072874 +
Car Car04g01456 Chr04 14786012 14787497 -
Lja Lja5g0403 Chr5 3594683 3596471 +
Mtr Mtr1g4079 Chr1 52354487 52356247 -
Psa Psa6g5001 Chr6 433841210 433843279 +
Tpr Tpr1g0428 Chr1 3652341 3654183 +