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
Vvi4g1074 . . . . . . . . . Aev08g0295 . Ahy17g2417 . Aip07g02589 . . . Amo17g2274 . . . . . . . . . . . . . . . . . Dod08g2153 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1075 . Acco11g2228 . Accr9g00250 . Adu05g00760 Aed11g1337 . Aev05g0550 . Ahy15g0743 . Aip05g00753 . . Alju09g2234 . . Apr3g0254 Apr7g0988 . Arst5g00954 . Bach4g00600 . Bisa11g1629 Bva08g00696 . . . Cca06g01385 . . Dere09g0844 Dod02g0611 . . . . Glsi05g1507 Gma11g00584 Gma01g01817 Gma02g00538 Gma16g01300 Gso11g0544 Gso11g0544 Gso11g0544 Gso11g0544 . . Lal23g1385 . . . . . . . . . . Lapu2g00636 . Lasa2g03259 . . . . Lele49g0196 Lele50g0210 Lele51g0212 Lele52g0213 Lja2g0413 Lja4g3246 . Mal5g3490 . Mepo5g00845 . Mesa17g00882 . Mibi12g1930 Mtr5g0750 Mtr8g2536 . Phac2g02479 . Phco4g01024 . Prci10g0337 Psa2g3691 Psa4g2126 . Pste1g01925 . . Pte14g00922 Pte12g00404 . Pumo8g01871 . Pvu2g0268 . Rops1g01692 . Seca12g02643 . Spst2g00765 Ssu2g2403 . Sto6g3784 . Tpr2g0940 Tpr4g4132 . Trre9g00985 Tsu05g00705 Tsu04g03361 . Vian10g00658 . Vifa1g06938 . Vimu7g02903 . Viun2g02010 . . Vra11g0650 .
Vvi4g1076 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1077 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1078 Acco12g2055 . Accr10g00057 . . Adu05g00761 Aed11g1336 . Aev05g0549 . Ahy15g0744 . Aip05g00755 . Alju12g0106 . . . Apr3g0255 Apr7g0989 . Arst5g00956 Bach10g00521 Bach4g00601 Bisa01g1895 Bisa11g1630 Bva08g00697 . . . Cca06g01384 . Dere13g0612 Dere09g0845 Dod02g0610 . Enph14g0528 . Glsi09g0533 Glsi05g1505 Gma11g00586 Gma01g01816 Gma02g00537 Gma16g01298 Gso11g0545 Gso11g0545 Gso11g0545 Gso11g0545 Lal16g1553 . . . . . . . . . . . Lapu3g01624 Lapu2g00637 Lasa4g02390 Lasa2g03260 Lele53g0071 Lele54g0074 Lele55g1426 Lele56g1358 . . . . Lja2g0414 Lja4g3245 . Mal5g3489 Mepo1g02015 Mepo5g00846 . Mesa17g00884 Mibi10g0079 . Mtr5g0751 Mtr8g2535 Phac3g03959 Phac2g02481 Phco8g00506 Phco4g01023 Prci5g0129 . Psa2g3690 Psa4g2129 Pste7g01421 . . . . . Pumo4g02085 Pumo8g01870 Pvu3g2589 Pvu2g0269 Rops2g03397 Rops1g01691 Seca12g02644 Seca12g02644 Spst3g03918 Spst3g03918 Ssu2g2402 . Sto6g3785 Sto11g1572 Tpr2g0941 Tpr4g4133 Trre15g04017 Trre9g00987 Tsu05g00706 Tsu04g03362 Vian1g01748 Vian10g00659 Vifa4g02495 Vifa1g06937 Vimu7g02905 Vimu7g02905 Viun3g03713 Viun2g02009 Vivi1g02981 Vivi2g03110 Vra11g0651 .
Vvi4g1079 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1080 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1081 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g3675 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1082 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00700 . . . . . . . . . . . . . . . . . . . . . . . Lal23g1386 . . . . . . . . . . . . . . . . . . . . . Lja2g0420 . . . . . . . . . . . . Phac2g02488 . Phco4g01018 . . Psa2g3673 . . Pste1g02631 . . . . . . . Pvu2g0274 . . . . . . . . Sto6g3788 . . . . . . . . . . . . . . . . Vivi2g03098 . .
Vvi4g1083 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev05g0550 Chr05 3807874 3809016 +
Ahy Ahy15g0743 Chr15 10057328 10059741 -
Aip Aip05g00753 Chr05 9711049 9712434 -
Dod Dod02g0611 Chr02 7895189 7898367 +
Psa Psa2g3691 Chr2 395347505 395349661 +
Vvi Vvi4g1074 Chr4 17584995 17588190 -
Aev Aev08g0295 Chr08 1612594 1616234 +
Ahy Ahy17g2417 Chr17 115912002 115916030 +
Aip Aip07g02589 Chr07 107574373 107580302 +
Amo Amo17g2274 Chr17 116282178 116286827 +
Dod Dod08g2153 Chr08 49279744 49283387 -
Vvi Vvi4g1075 Chr4 17592401 17593543 -
Acco Acco11g2228 Chr11 35988669 35991123 -
Accr Accr9g00250 Chr9 2819935 2821071 +
Adu Adu05g00760 Chr05 9093889 9095272 -
Aed Aed11g1337 Chr11 18191025 18193674 +
Aev Aev05g0550 Chr05 3807874 3809016 +
Ahy Ahy15g0743 Chr15 10057328 10059741 -
Aip Aip05g00753 Chr05 9711049 9712434 -
Alju Alju09g2234 Chr09 45597305 45598444 -
Apr Apr3g0254 Chr3 4798443 4800690 -
Apr Apr7g0988 Chr7 16917666 16919693 -
Arst Arst5g00954 Chr5 9118674 9121069 -
Bach Bach4g00600 Chr4 4026191 4028085 -
Bisa Bisa11g1629 Chr11 37141521 37142654 -
Bva Bva08g00696 Chr08 3597083 3599168 -
Cca Cca06g01385 Chr06 28742058 28743982 +
Dere Dere09g0844 Chr09 11294367 11295500 -
Dod Dod02g0611 Chr02 7895189 7898367 +
Glsi Glsi05g1507 Chr05 63666222 63667942 +
Gma Gma11g00584 Chr11 4890138 4891515 -
Gma Gma01g01817 Chr01 53767270 53768715 +
Gma Gma02g00538 Chr02 5341554 5343734 +
Gma Gma16g01300 Chr16 31620634 31624013 +
Gso Gso11g0544 Chr11 4858034 4860504 -
Gso Gso11g0544 Chr11 4858034 4860504 -
Gso Gso11g0544 Chr11 4858034 4860504 -
Gso Gso11g0544 Chr11 4858034 4860504 -
Lal Lal23g1385 Chr23 14498889 14500028 +
Lapu Lapu2g00636 Chr2 5560847 5562846 -
Lasa Lasa2g03259 Chr2 528516600 528517742 -
Lele Lele49g0196 Chr49 1173080 1174198 +
Lele Lele50g0210 Chr50 1239083 1244947 +
Lele Lele51g0212 Chr51 1190991 1192109 +
Lele Lele52g0213 Chr52 1262507 1266974 +
Lja Lja2g0413 Chr2 3777910 3779763 -
Lja Lja4g3246 Chr4 61169510 61171341 +
Mal Mal5g3490 Chr5 100298242 100299369 +
Mepo Mepo5g00845 Chr5 8200656 8203008 -
Mesa Mesa17g00882 Chr17 11270527 11271669 -
Mibi Mibi12g1930 Chr12 35621330 35625459 -
Mtr Mtr5g0750 Chr5 7340243 7342497 -
Mtr Mtr8g2536 Chr8 35759673 35761435 +
Phac Phac2g02479 Chr2 26225728 26227794 -
Phco Phco4g01024 Chr4 8144611 8145753 +
Prci Prci10g0337 Chr10 2327392 2329464 +
Psa Psa2g3691 Chr2 395347505 395349661 +
Psa Psa4g2126 Chr4 168924870 168927325 -
Pste Pste1g01925 Chr1 5975285 5976406 +
Pte Pte14g00922 Chr14 30945450 30948358 +
Pte Pte12g00404 Chr12 3365371 3368442 -
Pumo Pumo8g01871 Chr8 55100425 55102936 +
Pvu Pvu2g0268 Chr2 2802691 2804765 -
Rops Rops1g01692 Chr1 35604562 35605882 +
Seca Seca12g02643 Chr12 44680979 44682109 -
Spst Spst2g00765 Chr2 6445063 6446202 -
Ssu Ssu2g2403 Chr2 81833755 81834897 +
Sto Sto6g3784 Chr6 42526388 42527521 -
Tpr Tpr2g0940 Chr2 11345386 11347658 -
Tpr Tpr4g4132 Chr4 48280832 48282583 -
Trre Trre9g00985 Chr9 7692349 7693497 -
Tsu Tsu05g00705 Chr05 5946604 5948514 -
Tsu Tsu04g03361 Chr04 42804465 42805592 -
Vian Vian10g00658 Chr10 6344988 6346130 -
Vifa Vifa1g06938 Chr1 1071036814 1071037956 +
Vimu Vimu7g02903 Chr7 24463629 24464771 -
Viun Viun2g02010 Chr2 28554531 28556594 +
Vra Vra11g0650 Chr11 5201947 5204005 -
Vvi Vvi4g1076 Chr4 17599236 17600788 +
Vvi Vvi4g1077 Chr4 17600925 17601095 +
Vvi Vvi4g1078 Chr4 17612949 17614055 -
Acco Acco12g2055 Chr12 32151247 32152368 -
Accr Accr10g00057 Chr10 917060 918181 +
Adu Adu05g00761 Chr05 9112275 9113544 -
Aed Aed11g1336 Chr11 18183537 18190161 +
Aev Aev05g0549 Chr05 3802540 3803406 +
Ahy Ahy15g0744 Chr15 10079709 10081115 -
Aip Aip05g00755 Chr05 9734732 9735998 -
Alju Alju12g0106 Chr12 1327283 1328404 +
Apr Apr3g0255 Chr3 4831297 4834110 -
Apr Apr7g0989 Chr7 16929023 16930121 -
Arst Arst5g00956 Chr5 9137447 9138842 -
Bach Bach10g00521 Chr10 3725428 3726844 -
Bach Bach4g00601 Chr4 4032281 4033741 -
Bisa Bisa01g1895 Chr01 33056112 33057664 +
Bisa Bisa11g1630 Chr11 37173246 37174364 -
Bva Bva08g00697 Chr08 3600583 3602166 -
Cca Cca06g01384 Chr06 28727302 28728784 +
Dere Dere13g0612 Chr13 7637295 7638419 -
Dere Dere09g0845 Chr09 11298078 11299202 -
Dod Dod02g0610 Chr02 7871103 7872177 +
Enph Enph14g0528 Chr14 7236526 7237650 -
Glsi Glsi09g0533 Chr09 3685860 3686981 -
Glsi Glsi05g1505 Chr05 63662939 63664054 +
Gma Gma11g00586 Chr11 4899703 4901105 -
Gma Gma01g01816 Chr01 53761958 53762968 +
Gma Gma02g00537 Chr02 5332989 5334509 +
Gma Gma16g01298 Chr16 31605435 31607112 +
Gso Gso11g0545 Chr11 4862238 4870507 -
Gso Gso11g0545 Chr11 4862238 4870507 -
Gso Gso11g0545 Chr11 4862238 4870507 -
Gso Gso11g0545 Chr11 4862238 4870507 -
Lal Lal16g1553 Chr16 12890704 12891825 -
Lapu Lapu3g01624 Chr3 20827366 20828974 -
Lapu Lapu2g00637 Chr2 5573709 5575046 -
Lasa Lasa4g02390 Chr4 468184093 468185190 +
Lasa Lasa2g03260 Chr2 528537055 528538155 -
Lele Lele53g0071 Chr53 563484 564605 +
Lele Lele54g0074 Chr54 610892 612013 +
Lele Lele55g1426 Chr55 20503171 20504292 -
Lele Lele56g1358 Chr56 16737834 16738955 -
Lja Lja2g0414 Chr2 3783028 3784354 -
Lja Lja4g3245 Chr4 61139817 61141413 +
Mal Mal5g3489 Chr5 100270313 100271425 +
Mepo Mepo1g02015 Chr1 20733149 20734757 -
Mepo Mepo5g00846 Chr5 8212055 8215899 -
Mesa Mesa17g00884 Chr17 11284513 11285640 -
Mibi Mibi10g0079 Chr10 1294149 1295270 +
Mtr Mtr5g0751 Chr5 7353507 7354794 -
Mtr Mtr8g2535 Chr8 35747983 35749706 +
Phac Phac3g03959 Chr3 39242407 39244585 -
Phac Phac2g02481 Chr2 26236759 26238147 -
Phco Phco8g00506 Chr8 4948981 4950090 +
Phco Phco4g01023 Chr4 8119263 8120366 +
Prci Prci5g0129 Chr5 2025240 2026668 +
Psa Psa2g3690 Chr2 395323090 395324593 +
Psa Psa4g2129 Chr4 169205814 169208917 +
Pste Pste7g01421 Chr7 13035359 13036465 -
Pumo Pumo4g02085 Chr4 29723662 29724779 -
Pumo Pumo8g01870 Chr8 55097199 55098661 +
Pvu Pvu3g2589 Chr3 47910673 47912527 -
Pvu Pvu2g0269 Chr2 2813609 2814682 -
Rops Rops2g03397 Chr2 62451800 62453388 +
Rops Rops1g01691 Chr1 35587278 35588587 +
Seca Seca12g02644 Chr12 44701107 44703906 -
Seca Seca12g02644 Chr12 44701107 44703906 -
Spst Spst3g03918 Chr3 89293959 89295053 +
Spst Spst3g03918 Chr3 89293959 89295053 +
Ssu Ssu2g2402 Chr2 81821371 81822499 +
Sto Sto6g3785 Chr6 42533619 42534404 -
Sto Sto11g1572 Chr11 14849180 14850307 +
Tpr Tpr2g0941 Chr2 11365354 11368911 -
Tpr Tpr4g4133 Chr4 48309211 48310917 -
Trre Trre15g04017 Chr15 50629408 50630974 -
Trre Trre9g00987 Chr9 7698531 7699649 -
Tsu Tsu05g00706 Chr05 5954655 5955758 -
Tsu Tsu04g03362 Chr04 42814106 42815866 -
Vian Vian1g01748 Chr1 20400711 20401805 -
Vian Vian10g00659 Chr10 6363059 6364147 -
Vifa Vifa4g02495 Chr4 752492632 752493747 +
Vifa Vifa1g06937 Chr1 1070958908 1070960017 -
Vimu Vimu7g02905 Chr7 24474875 24475804 -
Vimu Vimu7g02905 Chr7 24474875 24475804 -
Viun Viun3g03713 Chr3 44071517 44073080 +
Viun Viun2g02009 Chr2 28546153 28547418 +
Vivi Vivi1g02981 Chr1 65118444 65119964 -
Vivi Vivi2g03110 Chr2 131242256 131243392 +
Vra Vra11g0651 Chr11 5212211 5213519 -
Vvi Vvi4g1079 Chr4 17616146 17626993 -
Vvi Vvi4g1080 Chr4 17631052 17631501 -
Vvi Vvi4g1081 Chr4 17638953 17640582 -
Psa Psa2g3675 Chr2 394772605 394774240 +
Vvi Vvi4g1082 Chr4 17662460 17664248 -
Bva Bva08g00700 Chr08 3616202 3618213 +
Lal Lal23g1386 Chr23 14505561 14511223 +
Lja Lja2g0420 Chr2 3810629 3812702 +
Phac Phac2g02488 Chr2 26278012 26280664 +
Phco Phco4g01018 Chr4 8071052 8075286 -
Psa Psa2g3673 Chr2 394500223 394503005 -
Pste Pste1g02631 Chr1 10131437 10132540 +
Pvu Pvu2g0274 Chr2 2854686 2855072 +
Sto Sto6g3788 Chr6 42547089 42548613 +
Vivi Vivi2g03098 Chr2 131142330 131144476 -
Vvi Vvi4g1083 Chr4 17666200 17671175 -
Aev Aev08g0295 Chr08 1612594 1616234 +
Ahy Ahy17g2417 Chr17 115912002 115916030 +
Aip Aip07g02589 Chr07 107574373 107580302 +
Amo Amo17g2274 Chr17 116282178 116286827 +
Dod Dod08g2153 Chr08 49279744 49283387 -
Dod Dod08g2153 Chr08 49279744 49283387 -
Gma Gma16g01298 Chr16 31605435 31607112 +