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
Vvi1g0681 . Acco13g0533 . Accr12g00473 . Adu03g02120 . Aed7g1565 . . . . . . . Alju13g1645 . . . . . Arst3g02808 . . . Bisa02g1197 . . . Car07g01855 . Cca11g00729 . Dere14g0673 . . . Enph5g0436 . Glsi13g1367 . . . . . . . . . . . . . . . . . . . . . Lapu9g00843 . Lasa5g02128 . . . . . . . . . . . . . Mepo3g05777 . . . Mibi13g0526 . . . . . Phco7g02023 . Prci9g1762 . Psa4g2707 . . . . Pte3g00187 . . Pumo10g01942 . Pvu9g1764 . Rops10g00742 . . . Spst9g02062 . Ssu5g1133 . . . . . . . . . . . Vifa2g01944 . Vimu10g01360 . Viun9g01395 . . . .
Vvi1g0682 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0683 . . . . . . . Aed7g1911 . . . . . . . . . . . . . . . . . . . . Car05g02075 . . Cca01g00152 . . . . . . . . . . . Gma18g00115 . . . . . . . . Lal16g0447 Lal15g0398 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu9g1751 . . . . . . . . . . . . . . . . . . . Vra2g1450
Vvi1g0684 . . . . . Adu01g01620 . . . Aev03g2752 . Ahy13g4060 . Aip03g04505 . . . Amo13g5119 . . . Arst1g02133 . . . . . . Car06g00853 . . . . . . Dod04g2337 . . . . Gma02g00363 . Gma08g01201 . Gso2g0340 . Gso2g0340 . . . . . . . . . . . . . . Lapu3g01186 . Lasa4g03036 . . . . . . . . . Lja4g0783 . Mal7g4503 . Mepo1g01455 . . . . . Mtr8g3076 . . . . . . . . . Pste6g01953 . . . . . Pumo4g01489 . Pvu3g2136 . Rops2g04084 . . . Spst3g04484 . . . . . Tpr3g1023 . Trre15g02975 . Tsu02g00890 . Vian1g01261 . Vifa4g03153 . Vimu7g00574 . Viun3g04338 . Vivi1g02235 . .
Vvi1g0685 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0686 . . . . . . . Aed5g1937 . . . . . . . . . . . . . . . . . . . . Car06g00852 . . Cca09g02072 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g2932 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra7g2052
Vvi1g0687 . . . . . . . Aed7g1912 . Aev03g2754 . Ahy13g4061 . Aip03g04506 . . . Amo13g5120 . . . . . . . . . . . . . Cca01g00153 . . . Dod04g0527 . . . . . . Gma08g01203 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g4505 . . . . . . . Mtr8g3078 . . . . . . Psa6g2931 . . . . . . . . . . . . . . . . . . Ssu9g1750 . . . Tpr3g1021 . . . Tsu02g00888 . . . . . . . . . . . Vra2g1451
Vvi1g0688 Acco04g1898 Acco13g0541 Accr8g00809 Accr12g00483 . Adu03g02124 . . . . . . . . . Alju13g1638 . . . . Arst3g05430 Arst3g02815 . Bach2g02204 Bisa08g2661 Bisa02g1209 . . . . . . Dere03g0151 Dere14g0665 . . . Enph5g0440 . Glsi13g1362 . . . . . . . . . . . . . . . . . . . . . Lapu9g00848 Lasa7g04275 Lasa5g02130 . Lele22g1343 Lele23g0677 Lele24g1300 Lele17g1100 Lele18g0439 Lele19g0459 Lele20g0993 . . . . Mepo2g04184 Mepo3g05782 Mesa13g00929 Mesa9g03186 Mibi09g0794 Mibi13g0536 . . . Phac9g02857 Phco4g02888 Phco7g02028 Prci4g2154 Prci9g1756 Psa6g2930 Psa7g1360 Pste3g01973 Pste2g00511 . . Pte3g00191 . . Pumo10g01946 Pvu2g2658 Pvu9g1769 Rops11g03786 Rops10g00733 . Seca4g02941 Spst3g01514 Spst9g02048 . . . . . . Trre7g04894 Trre5g02792 . . Vian1g03479 Vian4g00921 . Vifa2g01946 Vimu11g03946 Vimu10g01347 . Viun9g01391 Vivi5g05184 Vivi3g03998 . .
Vvi1g0689 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g2411 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0690 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0681 Chr1 6869741 6871249 -
Acco Acco13g0533 Chr13 3852371 3853768 -
Accr Accr12g00473 Chr12 4370894 4372289 -
Adu Adu03g02120 Chr03 41794600 41796855 -
Aed Aed7g1565 Chr7 18568243 18573699 -
Alju Alju13g1645 Chr13 34612956 34614403 +
Arst Arst3g02808 Chr3 42086159 42088296 -
Bisa Bisa02g1197 Chr02 20115704 20117637 -
Car Car07g01855 Chr07 20644694 20655298 +
Cca Cca11g00729 Chr11 12771097 12775524 +
Dere Dere14g0673 Chr14 7162997 7164350 +
Enph Enph5g0436 Chr5 3451589 3453820 -
Glsi Glsi13g1367 Chr13 30887465 30888907 +
Lapu Lapu9g00843 Chr9 12591456 12593508 +
Lasa Lasa5g02128 Chr5 453167969 453169476 +
Mepo Mepo3g05777 Chr3 71953041 71955147 -
Mibi Mibi13g0526 Chr13 7143959 7145555 -
Phco Phco7g02023 Chr7 34794044 34795711 -
Prci Prci9g1762 Chr9 29594005 29595878 +
Psa Psa4g2707 Chr4 215011202 215021468 -
Pte Pte3g00187 Chr3 1746858 1748643 -
Pumo Pumo10g01942 Chr10 25605900 25608094 -
Pvu Pvu9g1764 Chr9 24946375 24948267 -
Rops Rops10g00742 Chr10 17773294 17775108 +
Spst Spst9g02062 Chr9 41574060 41575689 +
Ssu Ssu5g1133 Chr5 36480753 36485985 +
Vifa Vifa2g01944 Chr2 502458787 502460438 +
Vimu Vimu10g01360 Chr10 14314253 14315923 +
Viun Viun9g01395 Chr9 14734857 14736538 +
Vvi Vvi1g0682 Chr1 6875462 6876156 -
Vvi Vvi1g0683 Chr1 6879857 6883938 +
Aed Aed7g1911 Chr7 22178225 22183685 +
Car Car05g02075 Chr05 66008412 66014057 +
Cca Cca01g00152 Chr01 1492587 1499550 +
Gma Gma18g00115 Chr18 923088 928168 +
Lal Lal16g0447 Chr16 2762844 2772314 +
Lal Lal15g0398 Chr15 2700174 2709737 +
Ssu Ssu9g1751 Chr9 54797599 54803092 -
Vra Vra2g1450 Chr2 22553571 22558673 +
Vvi Vvi1g0684 Chr1 6886601 6887899 +
Adu Adu01g01620 Chr01 50333982 50335070 -
Aev Aev03g2752 Chr03 27413550 27414860 +
Ahy Ahy13g4060 Chr13 140035058 140036685 +
Aip Aip03g04505 Chr03 129324029 129325464 +
Amo Amo13g5119 Chr13 150747504 150749205 +
Arst Arst1g02133 Chr1 50829047 50830530 -
Car Car06g00853 Chr06 8357705 8363291 -
Dod Dod04g2337 Chr04 47244756 47246862 +
Gma Gma02g00363 Chr02 3815955 3817008 +
Gma Gma08g01201 Chr08 10236359 10244157 +
Gso Gso2g0340 Chr2 3705417 3706681 +
Gso Gso2g0340 Chr2 3705417 3706681 +
Lapu Lapu3g01186 Chr3 12777928 12779007 -
Lasa Lasa4g03036 Chr4 559107918 559109045 +
Lja Lja4g0783 Chr4 6493899 6495794 -
Mal Mal7g4503 Chr7 112965594 112966901 +
Mepo Mepo1g01455 Chr1 14330296 14336373 -
Mtr Mtr8g3076 Chr8 41384245 41386091 +
Pste Pste6g01953 Chr6 9052504 9059826 +
Pumo Pumo4g01489 Chr4 18813622 18814659 -
Pvu Pvu3g2136 Chr3 42129498 42130756 -
Rops Rops2g04084 Chr2 74334979 74336052 -
Spst Spst3g04484 Chr3 96432676 96433779 +
Tpr Tpr3g1023 Chr3 9324619 9326628 -
Trre Trre15g02975 Chr15 26639736 26641840 -
Tsu Tsu02g00890 Chr02 7462003 7463348 -
Vian Vian1g01261 Chr1 13626991 13628091 -
Vifa Vifa4g03153 Chr4 1000788083 1000789195 +
Vimu Vimu7g00574 Chr7 5843840 5844940 +
Viun Viun3g04338 Chr3 51213835 51215193 +
Vivi Vivi1g02235 Chr1 47003839 47005369 -
Vvi Vvi1g0685 Chr1 6902217 6902630 -
Vvi Vvi1g0686 Chr1 6907733 6911179 -
Aed Aed5g1937 Chr5 22394445 22398192 -
Car Car06g00852 Chr06 8353644 8357313 +
Cca Cca09g02072 Chr09 45791662 45795512 -
Psa Psa6g2932 Chr6 244645152 244648443 -
Vra Vra7g2052 Chr7 40049208 40052645 -
Vvi Vvi1g0687 Chr1 6912016 6915565 -
Aed Aed7g1912 Chr7 22184352 22187267 -
Aev Aev03g2754 Chr03 27421926 27424841 -
Ahy Ahy13g4061 Chr13 140062754 140065873 -
Aip Aip03g04506 Chr03 129352032 129354886 -
Amo Amo13g5120 Chr13 150775796 150781586 -
Cca Cca01g00153 Chr01 1500522 1508448 -
Dod Dod04g0527 Chr04 7534417 7537387 +
Gma Gma08g01203 Chr08 10245024 10248831 -
Mal Mal7g4505 Chr7 112970107 112973601 -
Mtr Mtr8g3078 Chr8 41389683 41393243 -
Psa Psa6g2931 Chr6 244639951 244642590 -
Ssu Ssu9g1750 Chr9 54790835 54794343 +
Tpr Tpr3g1021 Chr3 9317029 9320603 +
Tsu Tsu02g00888 Chr02 7450233 7453516 +
Vra Vra2g1451 Chr2 22559932 22563824 -
Vvi Vvi1g0688 Chr1 6925691 6929045 -
Acco Acco04g1898 Chr04 32165353 32167805 -
Acco Acco13g0541 Chr13 3936456 3938381 -
Accr Accr8g00809 Chr8 14450331 14454561 +
Accr Accr12g00483 Chr12 4475098 4477932 -
Adu Adu03g02124 Chr03 41846286 41852939 -
Alju Alju13g1638 Chr13 34564187 34566950 +
Arst Arst3g05430 Chr3 129038309 129041499 -
Arst Arst3g02815 Chr3 42137343 42144545 -
Bach Bach2g02204 Chr2 28899219 28902330 +
Bisa Bisa08g2661 Chr08 61774321 61780560 +
Bisa Bisa02g1209 Chr02 20260554 20265359 -
Dere Dere03g0151 Chr03 4964635 4968179 -
Dere Dere14g0665 Chr14 7114043 7117220 +
Enph Enph5g0440 Chr5 3483564 3487014 -
Glsi Glsi13g1362 Chr13 30839644 30842686 +
Lapu Lapu9g00848 Chr9 12651043 12655675 -
Lasa Lasa7g04275 Chr7 650610174 650612931 -
Lasa Lasa5g02130 Chr5 453355661 453358449 -
Lele Lele22g1343 Chr22 19229863 19233565 -
Lele Lele23g0677 Chr23 5214812 5218613 +
Lele Lele24g1300 Chr24 19026594 19030291 -
Lele Lele17g1100 Chr17 21356931 21357888 +
Lele Lele18g0439 Chr18 2587181 2590001 -
Lele Lele19g0459 Chr19 2632520 2635625 -
Lele Lele20g0993 Chr20 15901057 15903866 +
Mepo Mepo2g04184 Chr2 50689624 50694685 -
Mepo Mepo3g05782 Chr3 72000379 72004311 -
Mesa Mesa13g00929 Chr13 11007812 11011240 +
Mesa Mesa9g03186 Chr9 62429231 62432695 -
Mibi Mibi09g0794 Chr09 10705670 10710843 +
Mibi Mibi13g0536 Chr13 7209847 7212012 -
Phac Phac9g02857 Chr9 27362887 27367725 -
Phco Phco4g02888 Chr4 50090630 50094036 -
Phco Phco7g02028 Chr7 34935210 34942253 -
Prci Prci4g2154 Chr4 33954129 33958772 -
Prci Prci9g1756 Chr9 29549673 29552957 +
Psa Psa6g2930 Chr6 244634058 244637211 -
Psa Psa7g1360 Chr7 99013241 99016034 +
Pste Pste3g01973 Chr3 13434153 13447305 +
Pste Pste2g00511 Chr2 4718277 4723394 -
Pte Pte3g00191 Chr3 1765162 1768076 -
Pumo Pumo10g01946 Chr10 25657126 25662161 -
Pvu Pvu2g2658 Chr2 42458715 42462356 -
Pvu Pvu9g1769 Chr9 24995623 25000261 -
Rops Rops11g03786 Chr11 71518587 71521929 -
Rops Rops10g00733 Chr10 17683483 17686933 +
Seca Seca4g02941 Chr4 50542684 50546312 -
Spst Spst3g01514 Chr3 18569762 18573286 +
Spst Spst9g02048 Chr9 41173405 41177727 +
Trre Trre7g04894 Chr7 56168085 56171319 -
Trre Trre5g02792 Chr5 22241097 22244797 +
Vian Vian1g03479 Chr1 57335322 57338424 -
Vian Vian4g00921 Chr4 13152194 13155968 +
Vifa Vifa2g01946 Chr2 502747076 502750008 -
Vimu Vimu11g03946 Chr11 61404623 61408368 -
Vimu Vimu10g01347 Chr10 14184401 14188560 +
Viun Viun9g01391 Chr9 14610262 14613780 +
Vivi Vivi5g05184 Chr5 153037630 153041006 +
Vivi Vivi3g03998 Chr3 69252203 69255660 +
Vvi Vvi1g0689 Chr1 6936328 6938135 +
Psa Psa2g2411 Chr2 276502697 276511460 +
Vvi Vvi1g0690 Chr1 6948649 6954573 +
Lal Lal15g0398 Chr15 2700174 2709737 +
Lal Lal16g0447 Chr16 2762844 2772314 +
Adu Adu03g02120 Chr03 41794600 41796855 -
Acco Acco13g0533 Chr13 3852371 3853768 -
Accr Accr12g00473 Chr12 4370894 4372289 -
Alju Alju13g1645 Chr13 34612956 34614403 +
Bisa Bisa02g1197 Chr02 20115704 20117637 -
Dere Dere14g0673 Chr14 7162997 7164350 +
Enph Enph5g0436 Chr5 3451589 3453820 -
Glsi Glsi13g1367 Chr13 30887465 30888907 +
Mibi Mibi13g0526 Chr13 7143959 7145555 -
Prci Prci9g1762 Chr9 29594005 29595878 +
Psa Psa6g2932 Chr6 244645152 244648443 -
Psa Psa6g2931 Chr6 244639951 244642590 -
Psa Psa6g2930 Chr6 244634058 244637211 -
Acco Acco13g0541 Chr13 3936456 3938381 -
Accr Accr12g00483 Chr12 4475098 4477932 -
Adu Adu03g02124 Chr03 41846286 41852939 -
Alju Alju13g1638 Chr13 34564187 34566950 +
Arst Arst3g02815 Chr3 42137343 42144545 -
Bach Bach2g02204 Chr2 28899219 28902330 +
Bisa Bisa02g1209 Chr02 20260554 20265359 -
Dere Dere14g0665 Chr14 7114043 7117220 +
Enph Enph5g0440 Chr5 3483564 3487014 -
Glsi Glsi13g1362 Chr13 30839644 30842686 +
Lapu Lapu9g00848 Chr9 12651043 12655675 -
Lasa Lasa5g02130 Chr5 453355661 453358449 -
Lele Lele17g1100 Chr17 21356931 21357888 +
Lele Lele18g0439 Chr18 2587181 2590001 -
Lele Lele19g0459 Chr19 2632520 2635625 -
Lele Lele20g0993 Chr20 15901057 15903866 +
Mepo Mepo3g05782 Chr3 72000379 72004311 -
Mesa Mesa9g03186 Chr9 62429231 62432695 -
Mibi Mibi13g0536 Chr13 7209847 7212012 -
Phac Phac9g02857 Chr9 27362887 27367725 -
Phco Phco7g02028 Chr7 34935210 34942253 -
Prci Prci9g1756 Chr9 29549673 29552957 +
Pste Pste2g00511 Chr2 4718277 4723394 -
Pte Pte3g00191 Chr3 1765162 1768076 -
Pumo Pumo10g01946 Chr10 25657126 25662161 -
Pvu Pvu9g1769 Chr9 24995623 25000261 -
Rops Rops10g00733 Chr10 17683483 17686933 +
Seca Seca4g02941 Chr4 50542684 50546312 -
Spst Spst9g02048 Chr9 41173405 41177727 +
Trre Trre5g02792 Chr5 22241097 22244797 +
Vian Vian4g00921 Chr4 13152194 13155968 +
Vifa Vifa2g01946 Chr2 502747076 502750008 -
Vimu Vimu10g01347 Chr10 14184401 14188560 +
Viun Viun9g01391 Chr9 14610262 14613780 +
Vivi Vivi3g03998 Chr3 69252203 69255660 +
Adu Adu01g01620 Chr01 50333982 50335070 -
Arst Arst1g02133 Chr1 50829047 50830530 -
Lapu Lapu3g01186 Chr3 12777928 12779007 -
Lasa Lasa4g03036 Chr4 559107918 559109045 +
Mepo Mepo1g01455 Chr1 14330296 14336373 -
Pste Pste6g01953 Chr6 9052504 9059826 +
Pumo Pumo4g01489 Chr4 18813622 18814659 -
Pvu Pvu3g2136 Chr3 42129498 42130756 -
Rops Rops2g04084 Chr2 74334979 74336052 -
Spst Spst3g04484 Chr3 96432676 96433779 +
Trre Trre15g02975 Chr15 26639736 26641840 -
Vian Vian1g01261 Chr1 13626991 13628091 -
Vifa Vifa4g03153 Chr4 1000788083 1000789195 +
Vimu Vimu7g00574 Chr7 5843840 5844940 +
Viun Viun3g04338 Chr3 51213835 51215193 +
Vivi Vivi1g02235 Chr1 47003839 47005369 -
Acco Acco13g0533 Chr13 3852371 3853768 -
Accr Accr12g00473 Chr12 4370894 4372289 -
Adu Adu03g02120 Chr03 41794600 41796855 -
Alju Alju13g1645 Chr13 34612956 34614403 +
Arst Arst3g02808 Chr3 42086159 42088296 -
Bisa Bisa02g1197 Chr02 20115704 20117637 -
Dere Dere14g0673 Chr14 7162997 7164350 +
Enph Enph5g0436 Chr5 3451589 3453820 -
Glsi Glsi13g1367 Chr13 30887465 30888907 +
Lapu Lapu9g00843 Chr9 12591456 12593508 +
Lasa Lasa5g02128 Chr5 453167969 453169476 +
Mepo Mepo3g05777 Chr3 71953041 71955147 -
Mibi Mibi13g0526 Chr13 7143959 7145555 -
Phco Phco7g02023 Chr7 34794044 34795711 -
Prci Prci9g1762 Chr9 29594005 29595878 +
Pte Pte3g00187 Chr3 1746858 1748643 -
Pte Pte3g00187 Chr3 1746858 1748643 -
Pumo Pumo10g01942 Chr10 25605900 25608094 -
Pvu Pvu9g1764 Chr9 24946375 24948267 -
Rops Rops10g00742 Chr10 17773294 17775108 +
Spst Spst9g02062 Chr9 41574060 41575689 +
Vifa Vifa2g01944 Chr2 502458787 502460438 +
Vimu Vimu10g01360 Chr10 14314253 14315923 +
Viun Viun9g01395 Chr9 14734857 14736538 +