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
Vvi4g0774 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00263 . Car05g03045 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01804 . Lasa5g04186 Lasa5g04186 . . . . . . . . . . Mal2g0756 . Mepo3g07534 . . . . . Mtr3g4013 . . . Phco7g00855 Phco2g00734 . . Psa5g0589 . Pste2g02026 . Pte3g01053 . Pte3g01053 . Pumo10g00876 . Pvu9g1047 Pvu1g0655 Rops10g01505 . Seca4g00812 . Spst9g00889 . . . . . Tpr7g0496 . Trre5g05358 . . . Vian4g01884 . Vifa2g04137 . Vimu10g02825 Vimu1g02416 Viun9g02931 . . . . .
Vvi4g0775 . . . . . Adu06g02723 . Aed6g1042 . . . . . . . . . . . Apr9g0092 . Arst6g03524 . Bach3g01868 . Bisa05g1335 Bva10g00264 Bva06g02498 Car05g03044 . . Cca05g00628 . Dere05g2043 . . . Enph7g1038 . Glsi10g0814 Gma14g01245 Gma17g01860 . . Gso14g1081 Gso14g1081 . . . . . . . . . . . . . . . Lapu8g00526 . Lasa5g04185 . . . . . . . . . . Mal2g0757 . . Mepo4g00752 . Mesa1g00794 . . Mtr3g4012 . . Phac1g00826 . Phco2g00706 . Prci2g0866 Psa5g0590 . . . . . Pte3g01055 Pte2g02204 . Pumo9g00760 . Pvu1g0621 . Rops9g01794 . . . Spst8g01682 . Ssu5g0673 . . Tpr7g0497 . . Trre1g00831 . . . Vian7g00336 . Vifa3g04431 . Vimu1g02472 . Viun8g00921 . Vivi4g04956 . Vra6g1481
Vvi4g0776 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0777 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0778 . . . . . Adu06g02725 . Aed6g1045 . . . . . . . . . . . Apr9g0093 . . . Bach3g01869 . . Bva10g00265 Bva06g02496 . . . Cca05g00626 . . . . . . . . Gma14g01242 Gma17g01861 . . Gso14g1080 Gso14g1080 . . . . . . . . . . . . . . . Lapu8g00527 . . . . . . . . . . . . . . . Mepo4g00751 . Mesa1g00793 . . . . . Phac1g00825 . Phco2g00704 . . . . . Pste8g00503 . . . . . Pumo9g00756 . Pvu1g0620 . Rops9g01795 . Seca8g02927 . Spst8g01680 . Ssu5g0672 . . . . . Trre1g00830 . . . Vian7g00337 . . . Vimu1g02475 . Viun8g00919 . . . Vra6g1482
Vvi4g0779 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0780 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0781 . . . . Adu08g02404 . . . . . . . . . . . . . . . Arst8g03304 . Bach12g00573 . . . Bva10g00268 Bva06g02495 Car05g03043 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01805 . Lasa5g04184 . . . . . . . . . . . Mal2g0758 . Mepo3g07532 . . . . . Mtr3g4011 . . . Phco7g00853 . . . Psa5g0593 . Pste2g02023 . . . . . . . Pvu9g1046 . . . . . Spst9g00888 . . . . . Tpr7g0498 . Trre5g05356 . Tsu07g00510 . . . . . Vimu10g02826 . . . Vivi3g00014 . . .
Vvi4g0782 . Acco05g2365 . Accr3g00651 . Adu06g02729 . Aed6g1047 . . . . . . . Alju07g2330 . . . Apr9g0094 . Arst6g03538 . . . Bisa05g1340 . Bva06g02494 . . . Cca05g00625 . Dere05g2047 . . . . . Glsi10g0812 Gma14g01236 Gma17g01865 . . . . . . . . . . . . . . . . . . . Lapu8g00529 . . . . . . Lele25g0540 Lele26g0556 Lele27g1536 Lele28g0547 . . . . . Mepo4g00750 . Mesa1g00792 . Mibi08g2048 . . . . . Phco2g00703 . Prci2g0869 . . . Pste8g00504 . . Pte3g01056 Pte2g02203 . Pumo9g00754 . Pvu1g0619 . Rops9g01796 . Seca8g02928 . Spst8g01679 . Ssu5g0671 . . . . . Trre1g00828 . . . Vian7g00338 . Vifa3g04435 . Vimu1g02476 . Viun8g00913 . Vivi4g04961 . Vra6g1483
Vvi4g0783 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0774 Chr4 8890867 8897396 -
Bva Bva10g00263 Chr10 3640665 3644541 -
Car Car05g03045 Chr05 75288675 75294860 +
Lapu Lapu9g01804 Chr9 32853229 32856792 -
Lasa Lasa5g04186 Chr5 639037756 639040440 +
Lasa Lasa5g04186 Chr5 639037756 639040440 +
Mal Mal2g0756 Chr2 8824079 8827668 -
Mepo Mepo3g07534 Chr3 88713157 88717163 +
Mtr Mtr3g4013 Chr3 53873389 53877807 +
Phco Phco7g00855 Chr7 6782417 6787065 +
Phco Phco2g00734 Chr2 7790340 7796546 -
Psa Psa5g0589 Chr5 47323704 47326394 -
Pste Pste2g02026 Chr2 20514568 20525100 +
Pte Pte3g01053 Chr3 8962978 8966981 -
Pte Pte3g01053 Chr3 8962978 8966981 -
Pumo Pumo10g00876 Chr10 11512240 11517352 +
Pvu Pvu9g1047 Chr9 15526908 15531110 +
Pvu Pvu1g0655 Chr1 7936453 7943857 -
Rops Rops10g01505 Chr10 28364573 28369077 +
Seca Seca4g00812 Chr4 13468932 13473749 -
Spst Spst9g00889 Chr9 7801570 7805167 +
Tpr Tpr7g0496 Chr7 4212100 4216079 -
Trre Trre5g05358 Chr5 54351108 54353900 +
Vian Vian4g01884 Chr4 35324637 35326097 -
Vifa Vifa2g04137 Chr2 1208138676 1208141373 +
Vimu Vimu10g02825 Chr10 39573009 39576770 -
Vimu Vimu1g02416 Chr1 34994897 35002108 +
Viun Viun9g02931 Chr9 37435618 37439568 -
Vvi Vvi4g0775 Chr4 8906855 8910939 -
Adu Adu06g02723 Chr06 103860038 103866097 -
Aed Aed6g1042 Chr6 14806479 14810071 +
Apr Apr9g0092 Chr9 1145979 1150377 -
Arst Arst6g03524 Chr6 103054754 103057753 -
Bach Bach3g01868 Chr3 26844035 26846666 -
Bisa Bisa05g1335 Chr05 23540085 23543125 -
Bva Bva10g00264 Chr10 3646240 3650116 -
Bva Bva06g02498 Chr06 15853312 15856789 +
Car Car05g03044 Chr05 75282669 75284424 +
Cca Cca05g00628 Chr05 14813580 14817543 -
Dere Dere05g2043 Chr05 30470302 30473386 -
Enph Enph7g1038 Chr7 16055062 16060390 +
Glsi Glsi10g0814 Chr10 5217951 5221775 +
Gma Gma14g01245 Chr14 20484607 20488283 -
Gma Gma17g01860 Chr17 31913318 31916939 +
Gso Gso14g1081 Chr14 19065199 19068892 -
Gso Gso14g1081 Chr14 19065199 19068892 -
Lapu Lapu8g00526 Chr8 22395445 22399449 +
Lasa Lasa5g04185 Chr5 639034122 639035890 +
Mal Mal2g0757 Chr2 8831920 8834598 -
Mepo Mepo4g00752 Chr4 9982957 9986924 +
Mesa Mesa1g00794 Chr1 10329724 10333304 +
Mtr Mtr3g4012 Chr3 53864731 53867849 +
Phac Phac1g00826 Chr1 7033252 7037158 -
Phco Phco2g00706 Chr2 7315503 7321282 -
Prci Prci2g0866 Chr2 6501203 6503835 -
Psa Psa5g0590 Chr5 47328403 47330164 -
Pte Pte3g01055 Chr3 8976252 8978070 -
Pte Pte2g02204 Chr2 41884919 41889049 +
Pumo Pumo9g00760 Chr9 14791289 14796014 -
Pvu Pvu1g0621 Chr1 7342877 7346075 -
Rops Rops9g01794 Chr9 32142480 32146251 -
Spst Spst8g01682 Chr8 19876181 19879513 -
Ssu Ssu5g0673 Chr5 15991146 15993961 -
Tpr Tpr7g0497 Chr7 4218651 4220858 -
Trre Trre1g00831 Chr1 6298339 6301087 -
Vian Vian7g00336 Chr7 9445565 9448239 +
Vifa Vifa3g04431 Chr3 1269086006 1269088233 -
Vimu Vimu1g02472 Chr1 35838785 35841075 +
Viun Viun8g00921 Chr8 9444260 9447573 -
Vivi Vivi4g04956 Chr4 179669812 179672764 -
Vra Vra6g1481 Chr6 29339517 29342817 +
Vvi Vvi4g0776 Chr4 8913280 8913872 -
Vvi Vvi4g0777 Chr4 8920373 8920986 +
Vvi Vvi4g0778 Chr4 8940171 8942305 +
Adu Adu06g02725 Chr06 103872559 103875725 +
Aed Aed6g1045 Chr6 14814147 14817411 +
Apr Apr9g0093 Chr9 1153172 1155434 +
Bach Bach3g01869 Chr3 26848382 26850459 +
Bva Bva10g00265 Chr10 3651067 3654291 +
Bva Bva06g02496 Chr06 15850266 15852994 -
Cca Cca05g00626 Chr05 14783705 14786916 -
Gma Gma14g01242 Chr14 20392373 20394821 +
Gma Gma17g01861 Chr17 32028351 32030846 +
Gso Gso14g1080 Chr14 18973029 18975571 +
Gso Gso14g1080 Chr14 18973029 18975571 +
Lapu Lapu8g00527 Chr8 22405221 22407678 +
Mepo Mepo4g00751 Chr4 9974371 9976817 -
Mesa Mesa1g00793 Chr1 10323013 10325621 -
Phac Phac1g00825 Chr1 7013842 7016570 -
Phco Phco2g00704 Chr2 7298080 7300120 -
Pste Pste8g00503 Chr8 2608932 2611425 +
Pumo Pumo9g00756 Chr9 14679852 14682261 -
Pvu Pvu1g0620 Chr1 7317633 7319789 -
Rops Rops9g01795 Chr9 32148549 32151133 +
Seca Seca8g02927 Chr8 81285831 81288772 +
Spst Spst8g01680 Chr8 19835154 19837597 -
Ssu Ssu5g0672 Chr5 15955369 15957919 -
Trre Trre1g00830 Chr1 6292452 6294752 -
Vian Vian7g00337 Chr7 9453523 9455772 +
Vimu Vimu1g02475 Chr1 35857853 35860102 +
Viun Viun8g00919 Chr8 9406217 9408455 -
Vra Vra6g1482 Chr6 29353696 29356345 +
Vvi Vvi4g0779 Chr4 8953017 8954476 +
Vvi Vvi4g0780 Chr4 8964135 8966253 +
Vvi Vvi4g0781 Chr4 9002746 9003978 +
Adu Adu08g02404 Chr08 39705037 39707069 +
Arst Arst8g03304 Chr8 44070106 44072124 +
Bach Bach12g00573 Chr12 3911597 3912820 -
Bva Bva10g00268 Chr10 3656784 3658440 +
Bva Bva06g02495 Chr06 15847598 15848987 -
Car Car05g03043 Chr05 75275897 75280028 -
Lapu Lapu9g01805 Chr9 32867855 32869413 +
Lasa Lasa5g04184 Chr5 638926898 638928082 -
Mal Mal2g0758 Chr2 8842881 8844059 +
Mepo Mepo3g07532 Chr3 88692242 88693938 -
Mtr Mtr3g4011 Chr3 53849242 53857102 -
Phco Phco7g00853 Chr7 6765563 6766744 -
Psa Psa5g0593 Chr5 47454517 47457453 +
Pste Pste2g02023 Chr2 20440278 20441459 -
Pvu Pvu9g1046 Chr9 15510480 15512203 -
Spst Spst9g00888 Chr9 7767626 7768912 -
Tpr Tpr7g0498 Chr7 4222677 4232307 +
Trre Trre5g05356 Chr5 54344363 54345544 -
Tsu Tsu07g00510 Chr07 4014559 4015798 -
Vimu Vimu10g02826 Chr10 39589136 39591014 +
Vivi Vivi3g00014 Chr3 193306 196808 -
Vvi Vvi4g0782 Chr4 9011204 9025364 -
Acco Acco05g2365 Chr05 39450852 39463952 +
Accr Accr3g00651 Chr3 7284688 7294172 -
Adu Adu06g02729 Chr06 104070012 104082857 -
Aed Aed6g1047 Chr6 14845773 14863851 -
Alju Alju07g2330 Chr07 49120454 49131749 +
Apr Apr9g0094 Chr9 1167032 1179229 -
Arst Arst6g03538 Chr6 103266357 103277861 -
Bisa Bisa05g1340 Chr05 23616963 23630246 -
Bva Bva06g02494 Chr06 15836547 15847494 +
Cca Cca05g00625 Chr05 14767529 14780299 +
Dere Dere05g2047 Chr05 30505027 30511087 -
Glsi Glsi10g0812 Chr10 5191806 5210396 +
Gma Gma14g01236 Chr14 20220263 20231351 +
Gma Gma17g01865 Chr17 32052769 32064542 -
Lapu Lapu8g00529 Chr8 22437183 22438988 -
Lele Lele25g0540 Chr25 3426596 3437607 -
Lele Lele26g0556 Chr26 3534339 3537031 -
Lele Lele27g1536 Chr27 21256982 21269352 +
Lele Lele28g0547 Chr28 3478040 3483617 -
Mepo Mepo4g00750 Chr4 9961173 9973186 +
Mesa Mesa1g00792 Chr1 10309673 10321163 +
Mibi Mibi08g2048 Chr08 37772480 37788385 +
Phco Phco2g00703 Chr2 7269818 7281270 +
Prci Prci2g0869 Chr2 6528405 6541632 -
Pste Pste8g00504 Chr8 2614188 2627747 -
Pte Pte3g01056 Chr3 8979940 8989313 -
Pte Pte2g02203 Chr2 41874348 41883366 +
Pumo Pumo9g00754 Chr9 14664797 14668876 +
Pvu Pvu1g0619 Chr1 7299547 7312217 +
Rops Rops9g01796 Chr9 32154985 32166896 -
Seca Seca8g02928 Chr8 81296580 81309509 -
Spst Spst8g01679 Chr8 19781235 19793463 +
Ssu Ssu5g0671 Chr5 15932284 15943777 +
Trre Trre1g00828 Chr1 6279734 6290562 +
Vian Vian7g00338 Chr7 9457989 9473489 -
Vifa Vifa3g04435 Chr3 1270722469 1270733807 +
Vimu Vimu1g02476 Chr1 35877056 35888367 -
Viun Viun8g00913 Chr8 9374912 9387463 +
Vivi Vivi4g04961 Chr4 179791687 179801753 +
Vra Vra6g1483 Chr6 29366429 29379033 -
Vvi Vvi4g0783 Chr4 9035778 9036820 -
Pte Pte3g01053 Chr3 8962978 8966981 -