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
Vvi17g0213 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g00884 Bva03g00752 . Car06g00158 . . . . . . . . . . . Gma08g00520 . . . . . . . Lal16g0937 . . . . . . . . . . . . . . . . . . . . . . . Lja4g0018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g4525 . . . . . . . . . . . . . . . . . .
Vvi17g0214 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0215 . . . . . . . . . . . . . . . . . . . Apr2g1585 . Arst5g03517 . Bach1g01446 . . Bva04g00882 Bva03g00749 . . . Cca09g02834 . . . . . . . . . . . . . . . . Lal15g0910 . . . . . . . . . . . . Lapu3g03954 . Lasa7g05293 . . . . . . . . . . . . . . . Mesa13g00019 . . Mtr8g3888 . . Phac2g04931 . Phco4g03732 . . Psa1g0753 . . . . . . . . Pumo6g02945 . Pvu2g3399 . Rops2g00053 . Seca12g06995 . Spst3g00657 . Ssu5g3502 . . . . . Trre7g05978 Tsu02g00020 . . Vian1g04217 . Vifa1g07338 . Vimu11g04931 . Viun3g00053 . Vivi5g06487 . .
Vvi17g0216 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g00880 Bva03g00748 . . . . . . . . . . . . . . Gma05g02387 . . . . . . . Lal23g0700 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0217 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0218 . . . . . . . . . . . . . . . . . . . Apr2g1580 . . . Bach1g01448 . . . . . Car06g00160 . Cca09g02829 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03949 . Lasa7g05285 . . . . . . . . . Lja4g0020 . . . Mepo2g05105 . . . . Mtr8g3879 . . . . Phco4g03726 . . . . . . . . . . . Pumo6g00060 . Pvu2g3394 . . . . . Spst3g00662 . Ssu5g3496 . . . . . Trre7g05968 Tsu02g00026 . . Vian1g04212 . Vifa6g04149 . Vimu11g04926 . . . Vivi5g06496 . .
Vvi17g0219 . . . . . . . Aed5g2647 . . . . . . . . . . Apr6g0998 Apr2g1578 . . . . . . Bva04g00879 Bva03g00746 . Car06g00162 . Cca09g02827 . . . . . . . . . Gma08g00514 Gma05g02381 . . . . . Lal15g0913 Lal16g0941 . Lal8g0465 Lal10g0956 . . . . . . . . Lapu3g03947 . Lasa7g05283 . . . . . . . . Lja2g2184 Lja4g0021 Mal5g0429 . . Mepo2g05102 . Mesa13g00029 . . Mtr8g3877 . . . . Phco4g03723 . . . . . . . . . . . Pumo6g00062 . Pvu2g3391 . Rops2g00059 . Seca12g06991 . Spst3g00664 . Ssu5g3494 . Sto8g4527 Tpr3g0234 . . Trre7g05967 Tsu02g00028 . . Vian1g04210 . Vifa6g04146 . Vimu11g04921 . Viun3g00065 . Vivi5g06498 . .
Vvi17g0220 . . . . . Adu03g04053 . . . . . . . . . . . . . Apr2g1577 . Arst3g05341 . Bach1g01449 . . . Bva03g00745 . Car06g00163 . Cca09g02825 . . . . . . . . . Gma08g00513 Gma05g02380 . . . . . Lal15g0915 Lal16g0942 . . . . . . . . . . . Lapu3g03946 . Lasa7g05279 . . . . . . . . . Lja4g0022 Mal5g0425 . . Mepo2g05099 . Mesa13g00031 . . Mtr8g3876 . . . . Phco4g03722 . . . . . . . . . . . Pumo6g00063 . Pvu2g3390 . Rops2g00062 . . . Spst3g00665 . Ssu5g3493 . Sto8g4529 . . . . Tsu02g00031 . . Vian1g04209 . Vifa6g04143 . . . Viun3g00066 . . . .
Vvi17g0221 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0222 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0213 Chr17 2109434 2134121 +
Bva Bva04g00884 Chr04 5827679 5835362 -
Bva Bva03g00752 Chr03 4505583 4512998 -
Car Car06g00158 Chr06 1844848 1852910 -
Gma Gma08g00520 Chr08 4278185 4284808 +
Lal Lal16g0937 Chr16 6220596 6230246 -
Lja Lja4g0018 Chr4 148040 153913 -
Sto Sto8g4525 Chr8 47923052 47934271 +
Vvi Vvi17g0214 Chr17 2141294 2144073 +
Vvi Vvi17g0215 Chr17 2149279 2152109 +
Apr Apr2g1585 Chr2 21633784 21638596 +
Arst Arst5g03517 Chr5 94101279 94105736 +
Bach Bach1g01446 Chr1 27955422 27958372 +
Bva Bva04g00882 Chr04 5811354 5815102 -
Bva Bva03g00749 Chr03 4488668 4492306 -
Cca Cca09g02834 Chr09 53906484 53910106 +
Lal Lal15g0910 Chr15 6921414 6925726 -
Lapu Lapu3g03954 Chr3 62969187 62973179 +
Lasa Lasa7g05293 Chr7 721018841 721021632 +
Mesa Mesa13g00019 Chr13 231759 232178 -
Mtr Mtr8g3888 Chr8 49496434 49499125 +
Phac Phac2g04931 Chr2 45496734 45500337 +
Phco Phco4g03732 Chr4 56766981 56769730 +
Psa Psa1g0753 Chr1 48540933 48544476 -
Pumo Pumo6g02945 Chr6 69866164 69870600 -
Pvu Pvu2g3399 Chr2 48831829 48835217 +
Rops Rops2g00053 Chr2 954886 958548 -
Seca Seca12g06995 Chr12 161915817 161919681 +
Spst Spst3g00657 Chr3 10027936 10030764 -
Ssu Ssu5g3502 Chr5 85922849 85926116 +
Trre Trre7g05978 Chr7 64084492 64084974 +
Tsu Tsu02g00020 Chr02 132463 135756 -
Vian Vian1g04217 Chr1 65105590 65112010 +
Vifa Vifa1g07338 Chr1 1130059635 1130063272 +
Vimu Vimu11g04931 Chr11 68802515 68805737 +
Viun Viun3g00053 Chr3 239788 242959 -
Vivi Vivi5g06487 Chr5 171566342 171569881 -
Vvi Vvi17g0216 Chr17 2183684 2192944 +
Bva Bva04g00880 Chr04 5788148 5793226 -
Bva Bva03g00748 Chr03 4467513 4471208 -
Gma Gma05g02387 Chr05 44685765 44689956 +
Lal Lal23g0700 Chr23 9671262 9677734 +
Vvi Vvi17g0217 Chr17 2193765 2195938 -
Vvi Vvi17g0218 Chr17 2199755 2201824 -
Apr Apr2g1580 Chr2 21603951 21606092 +
Bach Bach1g01448 Chr1 27993492 27995172 -
Car Car06g00160 Chr06 1859523 1861812 -
Cca Cca09g02829 Chr09 53873479 53875316 +
Lapu Lapu3g03949 Chr3 62944801 62946638 +
Lasa Lasa7g05285 Chr7 720683619 720685171 +
Lja Lja4g0020 Chr4 157563 159501 -
Mepo Mepo2g05105 Chr2 58920477 58922462 +
Mtr Mtr8g3879 Chr8 49453877 49456030 +
Phco Phco4g03726 Chr4 56743057 56744572 +
Pumo Pumo6g00060 Chr6 675111 676734 -
Pvu Pvu2g3394 Chr2 48808091 48810159 +
Spst Spst3g00662 Chr3 10060626 10062151 -
Ssu Ssu5g3496 Chr5 85869709 85871488 +
Trre Trre7g05968 Chr7 64050683 64052233 +
Tsu Tsu02g00026 Chr02 163632 165569 -
Vian Vian1g04212 Chr1 65083968 65085491 +
Vifa Vifa6g04149 Chr6 1365237233 1365238792 +
Vimu Vimu11g04926 Chr11 68781345 68782868 +
Vivi Vivi5g06496 Chr5 171646198 171648237 -
Vvi Vvi17g0219 Chr17 2230892 2232793 +
Aed Aed5g2647 Chr5 27078452 27080370 -
Apr Apr6g0998 Chr6 14641484 14644405 +
Apr Apr2g1578 Chr2 21591510 21593579 -
Bva Bva04g00879 Chr04 5777754 5779971 -
Bva Bva03g00746 Chr03 4459449 4462269 -
Car Car06g00162 Chr06 1870657 1873115 +
Cca Cca09g02827 Chr09 53856332 53859035 -
Gma Gma08g00514 Chr08 4248288 4250785 -
Gma Gma05g02381 Chr05 44650778 44652897 -
Lal Lal15g0913 Chr15 6977475 6980096 +
Lal Lal16g0941 Chr16 6250605 6253220 +
Lal Lal8g0465 Chr8 3110478 3113639 -
Lal Lal10g0956 Chr10 16881573 16884266 +
Lapu Lapu3g03947 Chr3 62934214 62937105 -
Lasa Lasa7g05283 Chr7 720613444 720615507 +
Lja Lja2g2184 Chr2 24836338 24840596 -
Lja Lja4g0021 Chr4 173863 176048 +
Mal Mal5g0429 Chr5 6322485 6324767 -
Mepo Mepo2g05102 Chr2 58900077 58902275 -
Mesa Mesa13g00029 Chr13 322429 324610 +
Mtr Mtr8g3877 Chr8 49438186 49440944 -
Phco Phco4g03723 Chr4 56731891 56733967 -
Pumo Pumo6g00062 Chr6 689368 692181 +
Pvu Pvu2g3391 Chr2 48797555 48800136 -
Rops Rops2g00059 Chr2 1017793 1020420 +
Seca Seca12g06991 Chr12 161886445 161889527 -
Spst Spst3g00664 Chr3 10077985 10080069 +
Ssu Ssu5g3494 Chr5 85848508 85850593 -
Sto Sto8g4527 Chr8 47947436 47948504 +
Tpr Tpr3g0234 Chr3 2832396 2835856 +
Trre Trre7g05967 Chr7 64036535 64039014 -
Tsu Tsu02g00028 Chr02 174213 176676 +
Vian Vian1g04210 Chr1 65072473 65074569 -
Vifa Vifa6g04146 Chr6 1364078947 1364081021 -
Vimu Vimu11g04921 Chr11 68766414 68768528 -
Viun Viun3g00065 Chr3 272114 275295 +
Vivi Vivi5g06498 Chr5 171688932 171691577 +
Vvi Vvi17g0220 Chr17 2254360 2255331 +
Adu Adu03g04053 Chr03 129626169 129627763 -
Apr Apr2g1577 Chr2 21583957 21585256 -
Arst Arst3g05341 Chr3 128390015 128390949 -
Bach Bach1g01449 Chr1 28014632 28015522 +
Bva Bva03g00745 Chr03 4454468 4455607 -
Car Car06g00163 Chr06 1882983 1884354 +
Cca Cca09g02825 Chr09 53836876 53838030 -
Gma Gma08g00513 Chr08 4234198 4235431 -
Gma Gma05g02380 Chr05 44640382 44641391 -
Lal Lal15g0915 Chr15 7004119 7005609 +
Lal Lal16g0942 Chr16 6261188 6262548 +
Lapu Lapu3g03946 Chr3 62927196 62928335 -
Lasa Lasa7g05279 Chr7 719916434 719917303 -
Lja Lja4g0022 Chr4 216185 217452 +
Mal Mal5g0425 Chr5 6295118 6297215 -
Mepo Mepo2g05099 Chr2 58874720 58876113 -
Mesa Mesa13g00031 Chr13 383611 384498 +
Mtr Mtr8g3876 Chr8 49408007 49409171 -
Phco Phco4g03722 Chr4 56724882 56725628 -
Pumo Pumo6g00063 Chr6 702854 704276 +
Pvu Pvu2g3390 Chr2 48789867 48791175 -
Rops Rops2g00062 Chr2 1050494 1051797 +
Spst Spst3g00665 Chr3 10083923 10084678 +
Ssu Ssu5g3493 Chr5 85829920 85830684 -
Sto Sto8g4529 Chr8 47965203 47983458 +
Tsu Tsu02g00031 Chr02 198768 199843 +
Vian Vian1g04209 Chr1 65066445 65067191 -
Vifa Vifa6g04143 Chr6 1363051003 1363051881 -
Viun Viun3g00066 Chr3 278872 279981 +
Vvi Vvi17g0221 Chr17 2264238 2264729 +
Vvi Vvi17g0222 Chr17 2265250 2268301 +