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
Vvi19g1430 . . . . . . . . . . . . . . . . . . Apr2g0696 . . . . . . . Bva09g01190 Bva07g01384 . . Cca10g01521 . Dere08g0042 . . . . . . . Gma08g01486 Gma15g02525 . . Gso8g1344 Gso8g1344 . . . Lal1g1523 Lal2g0694 Lal20g0523 . . . . . . . . Lapu5g01303 . Lasa1g04528 . . . Lele11g0398 . . . . . Lja3g3997 . Mal4g2070 . Mepo6g02528 . Mesa5g02042 . . . Mtr2g2170 . . . Phco10g00474 . Prci7g1401 . . . Pste3g01706 . . . . . . . Pvu5g0474 . . . . . Spst5g01741 . . . . Sto7g0014 Tpr7g3109 . Trre11g02091 . Tsu06g01448 . . . . . Vimu4g01572 . . . . . . .
Vvi19g1431 . . . . . . . . . . Ahy18g1980 . Aip08g02272 . . . Amo18g2675 . Apr2g0697 . . . Bach13g00566 . . . Bva09g01191 Bva07g01383 . . . . . . . . . . . . Gma08g01485 Gma15g02526 . . Gso8g1343 Gso8g1343 . . . Lal1g1525 . Lal20g0525 . . . . . . . . Lapu5g01304 . Lasa1g04527 . . . . . . . . . Lja3g3998 . Mal4g2071 . Mepo6g02527 . Mesa5g02044 . . . Mtr2g2169 . . . Phco10g00472 . . . . . Pste3g01705 . . Pte15g01513 . . Pumo4g02814 . Pvu5g0473 . Rops7g01834 . Seca4g06851 . Spst5g01742 . . . . . Tpr7g3108 . Trre11g02092 . Tsu06g01450 . Vian11g01366 . Vifa1g04375 . Vimu4g01569 . Viun1g00880 . . . . .
Vvi19g1432 . . . . . . . . . . Ahy18g2047 . Aip08g02363 . . . Amo18g2761 . Apr2g0709 . . . . . . . Bva09g01197 Bva09g01197 . . . . . . Dod10g0581 . . . . . Gma08g01468 . . . Gso8g1327 . . . . Lal1g1529 . . . . . . . . . . . . . . . . . . . . . . . . Mal4g2087 . Mepo6g02505 . Mesa5g02052 . . . Mtr2g2158 . . . Phco10g00445 . . . . . Pste3g01641 . Pte17g00063 . . . Pumo4g02788 . Pvu5g0454 . . . . . Spst5g01763 . . . Sto4g1982 . Tpr7g3101 . Trre11g02136 . Tsu06g01476 . . . . . Vimu4g01542 . Viun1g00727 . . . . .
Vvi19g1433 . . . . . . . . . . . . . . . . . . Apr2g0710 . . . . . . . . . . . . . . . . . . . . . Gma08g01467 Gma15g02543 . . Gso8g1326 Gso8g1326 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco10g00444 . . . . . Pste3g01639 . . . . . Pumo4g02787 . Pvu5g0453 . . . . . Spst5g01764 . . . . . . . . . . . Vian11g01349 . . . Vimu4g01541 . Viun1g00726 . . . . .
Vvi19g1434 . . . . . . . . . . Ahy18g2045 . Aip08g02362 . . . . . . . . Arst3g05406 . Bach9g01066 . . Bva09g01198 Bva07g01379 . . Cca10g01531 . . . Dod10g0580 . . . . . Gma08g02140 . . . Gso8g1937 . . . Lal9g0608 Lal1g1530 . Lal20g0533 . Lal11g1564 . . . . . . . . . . . . . . . . . . Lja3g4005 . Mal4g2088 Mal5g2104 . Mepo1g03204 . . . . Mtr2g2157 Mtr8g1437 . . . Phco9g01979 . . . . . Pste1g00339 . . Pte1g01110 . . Pumo10g02531 . Pvu11g1878 . Rops3g02309 . . . Spst11g00423 . . . Sto7g1965 Tpr7g3100 Tpr7g1459 . . Tsu06g01477 Tsu08g01615 . Vian5g00462 . Vifa4g00401 . Vimu5g00847 . . . . . .
Vvi19g1435 . . . . . . . . . . Ahy18g2044 . Aip08g02361 . . . Amo18g2758 . . . . . . . . . Bva09g01199 Bva07g01378 . . Cca10g01532 . . . Dod10g0579 . . . . . . . . . . . . . . . . Lal20g0534 . Lal11g1565 . . . . . . . . . . . . . . . . . . Lja3g4006 . Mal4g2089 . . . . . . . Mtr2g2156 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1526 . Sto4g1985 . Tpr7g3099 . . . Tsu06g01478 . . . . . . . . . . . . .
Vvi19g1436 . . . . . . Aed1g0201 . Aev10g1019 . Ahy18g2043 . Aip08g02360 . . . Amo18g2757 . . . . . . . . . Bva09g01200 Bva07g01377 . . Cca10g01533 . . . Dod10g0578 . . . . . . . . . . . . . . . . Lal20g0537 . . . . . . . . . . . . . . . . . . . . Lja3g4008 . Mal4g2090 . . . . . . . Mtr2g2155 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g1987 Sto7g1967 Tpr7g3098 . . . Tsu06g01479 . . . . . . . . . . . Vra5g2224 .
Vvi19g1437 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1438 . . . . . . . . . . . . . . . . . . . . . . . Bach9g01070 . . Bva09g01202 Bva07g01375 . . . . . . . . . . . . Gma08g02139 Gma15g02080 . . Gso8g1936 Gso8g1936 . . . . Lal2g0698 . . . . . . . . . . . . Lasa4g01276 . . . . . . . . . . . Mal5g2071 . Mepo1g03206 . Mesa29g03637 . . . Mtr8g1432 . . . Phco9g01980 . . . . . Pste1g00343 . . Pte1g01108 . . Pumo10g02530 . Pvu11g1879 . Rops3g02310 . Seca4g09619 . Spst11g00422 . . Sto4g2000 . . Tpr7g1460 . Trre15g01672 . Tsu08g01614 . Vian5g00461 . Vifa4g00402 . Vimu5g00845 . . . Vivi7g00070 . .
Vvi19g1439 . . . . . . . . Aev10g1017 . Ahy18g2037 . Aip08g02345 . . . Amo18g2736 . . . . . . . . . . Bva07g01374 . . . . . . Dod10g0575 . . . . . . . . . . . . . . Lal1g1534 . Lal20g0538 . . . . . . . . . . . . . . . . . . . . Lja3g4010 . Mal4g2092 . . . . . . . Mtr2g2153 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g2004 Sto7g1973 Tpr7g3095 . . . Tsu06g01482 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst3g05406 Chr3 128914629 128916498 +
Pte Pte1g01110 Chr1 29903700 29905457 -
Vvi Vvi19g1430 Chr19 23702104 23775918 +
Apr Apr2g0696 Chr2 8645097 8672937 +
Bva Bva09g01190 Chr09 6379265 6400757 +
Bva Bva07g01384 Chr07 14214362 14237068 -
Cca Cca10g01521 Chr10 24606129 24607408 +
Dere Dere08g0042 Chr08 1351658 1384194 -
Gma Gma08g01486 Chr08 12919103 12952353 -
Gma Gma15g02525 Chr15 53015852 53052517 +
Gso Gso8g1344 Chr8 12741714 12775111 -
Gso Gso8g1344 Chr8 12741714 12775111 -
Lal Lal1g1523 Chr1 17383219 17409794 +
Lal Lal2g0694 Chr2 4233988 4239681 -
Lal Lal20g0523 Chr20 4502994 4541805 +
Lapu Lapu5g01303 Chr5 25955653 25985138 +
Lasa Lasa1g04528 Chr1 751142665 751179563 -
Lele Lele11g0398 Chr11 3837183 3838930 -
Lja Lja3g3997 Chr3 78826394 78864541 +
Mal Mal4g2070 Chr4 46012498 46049454 +
Mepo Mepo6g02528 Chr6 34532062 34567433 -
Mesa Mesa5g02042 Chr5 32907375 32909658 +
Mtr Mtr2g2170 Chr2 32348157 32379848 -
Phco Phco10g00474 Chr10 4541280 4577464 -
Prci Prci7g1401 Chr7 30005064 30030102 -
Pste Pste3g01706 Chr3 10829659 10862079 -
Pvu Pvu5g0474 Chr5 4876014 4906900 -
Spst Spst5g01741 Chr5 53080370 53097843 +
Sto Sto7g0014 Chr7 203262 230765 +
Tpr Tpr7g3109 Chr7 38466214 38499093 -
Trre Trre11g02091 Chr11 23679237 23706748 +
Tsu Tsu06g01448 Chr06 14538650 14569285 +
Vimu Vimu4g01572 Chr4 16696436 16724973 -
Vvi Vvi19g1431 Chr19 23780796 23784575 -
Ahy Ahy18g1980 Chr18 103992673 103996333 -
Aip Aip08g02272 Chr08 95954712 95958354 -
Amo Amo18g2675 Chr18 112817801 112822837 -
Apr Apr2g0697 Chr2 8675559 8680380 -
Bach Bach13g00566 Chr13 11036100 11039639 +
Bva Bva09g01191 Chr09 6401824 6406240 -
Bva Bva07g01383 Chr07 14209828 14213960 +
Gma Gma08g01485 Chr08 12904422 12909464 +
Gma Gma15g02526 Chr15 53062022 53066206 -
Gso Gso8g1343 Chr8 12727066 12732010 +
Gso Gso8g1343 Chr8 12727066 12732010 +
Lal Lal1g1525 Chr1 17413737 17418408 -
Lal Lal20g0525 Chr20 4545429 4549869 -
Lapu Lapu5g01304 Chr5 25990372 25995740 -
Lasa Lasa1g04527 Chr1 751087259 751090105 +
Lja Lja3g3998 Chr3 78865125 78870528 -
Mal Mal4g2071 Chr4 46057041 46061121 -
Mepo Mepo6g02527 Chr6 34499622 34504559 +
Mesa Mesa5g02044 Chr5 32932610 32936663 -
Mtr Mtr2g2169 Chr2 32336733 32341826 +
Phco Phco10g00472 Chr10 4530314 4534153 +
Pste Pste3g01705 Chr3 10821958 10827494 +
Pte Pte15g01513 Chr15 12402521 12405208 +
Pumo Pumo4g02814 Chr4 52025062 52030124 +
Pvu Pvu5g0473 Chr5 4866485 4871433 +
Rops Rops7g01834 Chr7 29279464 29284028 -
Seca Seca4g06851 Chr4 143449771 143454643 -
Spst Spst5g01742 Chr5 53102526 53106429 -
Tpr Tpr7g3108 Chr7 38456744 38462241 +
Trre Trre11g02092 Chr11 23710018 23714232 -
Tsu Tsu06g01450 Chr06 14576075 14581107 -
Vian Vian11g01366 Chr11 22517934 22521527 +
Vifa Vifa1g04375 Chr1 679994783 679997714 +
Vimu Vimu4g01569 Chr4 16681964 16685602 +
Viun Viun1g00880 Chr1 11751945 11756413 -
Vvi Vvi19g1432 Chr19 23818249 23823201 +
Ahy Ahy18g2047 Chr18 109314952 109319637 -
Aip Aip08g02363 Chr08 100814402 100816089 -
Amo Amo18g2761 Chr18 117362992 117367396 -
Apr Apr2g0709 Chr2 8941543 8944150 -
Bva Bva09g01197 Chr09 6449244 6451520 +
Bva Bva09g01197 Chr09 6449244 6451520 +
Dod Dod10g0581 Chr10 18830370 18836063 -
Gma Gma08g01468 Chr08 12670807 12673623 +
Gso Gso8g1327 Chr8 12498135 12501012 +
Lal Lal1g1529 Chr1 17477964 17481867 +
Mal Mal4g2087 Chr4 47037033 47040876 +
Mepo Mepo6g02505 Chr6 34138137 34143869 -
Mesa Mesa5g02052 Chr5 33127560 33129878 +
Mtr Mtr2g2158 Chr2 32167555 32174826 -
Phco Phco10g00445 Chr10 4191592 4193876 +
Pste Pste3g01641 Chr3 10379011 10382564 +
Pte Pte17g00063 Chr17 957597 960390 -
Pumo Pumo4g02788 Chr4 51472699 51475978 +
Pvu Pvu5g0454 Chr5 4421906 4424636 +
Spst Spst5g01763 Chr5 53402736 53405206 -
Sto Sto4g1982 Chr4 20995653 21003004 +
Tpr Tpr7g3101 Chr7 38327166 38332006 -
Trre Trre11g02136 Chr11 24974469 24976536 +
Tsu Tsu06g01476 Chr06 15055752 15066238 +
Vimu Vimu4g01542 Chr4 16301014 16303350 +
Viun Viun1g00727 Chr1 7220473 7223232 +
Vvi Vvi19g1433 Chr19 23824917 23827875 -
Apr Apr2g0710 Chr2 8945069 8948852 +
Gma Gma08g01467 Chr08 12666437 12669603 -
Gma Gma15g02543 Chr15 53385104 53388670 +
Gso Gso8g1326 Chr8 12493804 12496973 -
Gso Gso8g1326 Chr8 12493804 12496973 -
Phco Phco10g00444 Chr10 4182890 4185570 -
Pste Pste3g01639 Chr3 10365942 10370549 -
Pumo Pumo4g02787 Chr4 51467274 51470451 -
Pvu Pvu5g0453 Chr5 4416792 4419652 -
Spst Spst5g01764 Chr5 53406965 53410806 +
Vian Vian11g01349 Chr11 22121819 22126943 -
Vimu Vimu4g01541 Chr4 16283720 16288249 -
Viun Viun1g00726 Chr1 7208670 7212549 -
Vvi Vvi19g1434 Chr19 23829724 23831633 +
Ahy Ahy18g2045 Chr18 109218256 109220929 -
Aip Aip08g02362 Chr08 100729507 100732998 -
Arst Arst3g05406 Chr3 128914629 128916498 +
Bach Bach9g01066 Chr9 8163921 8166966 +
Bva Bva09g01198 Chr09 6452439 6455002 +
Bva Bva07g01379 Chr07 14180241 14182215 -
Cca Cca10g01531 Chr10 25062551 25066908 +
Dod Dod10g0580 Chr10 18824427 18827361 -
Gma Gma08g02140 Chr08 19601316 19603967 -
Gso Gso8g1937 Chr8 19325947 19328600 -
Lal Lal9g0608 Chr9 4122498 4124734 +
Lal Lal1g1530 Chr1 17484496 17488151 +
Lal Lal20g0533 Chr20 4676785 4679157 +
Lal Lal11g1564 Chr11 18687896 18690452 +
Lja Lja3g4005 Chr3 78959749 78962397 +
Mal Mal4g2088 Chr4 47044573 47047043 +
Mal Mal5g2104 Chr5 49575665 49577798 -
Mepo Mepo1g03204 Chr1 36791746 36793538 +
Mtr Mtr2g2157 Chr2 32162623 32165528 -
Mtr Mtr8g1437 Chr8 17857997 17859909 -
Phco Phco9g01979 Chr9 44692715 44696208 +
Pste Pste1g00339 Chr1 1210702 1215636 +
Pte Pte1g01110 Chr1 29903700 29905457 -
Pumo Pumo10g02531 Chr10 43423550 43426371 -
Pvu Pvu11g1878 Chr11 45655282 45658176 +
Rops Rops3g02309 Chr3 46517674 46518732 +
Spst Spst11g00423 Chr11 24852572 24856582 -
Sto Sto7g1965 Chr7 25187981 25193712 +
Tpr Tpr7g3100 Chr7 38322043 38326049 -
Tpr Tpr7g1459 Chr7 16177260 16180256 +
Tsu Tsu06g01477 Chr06 15068956 15071495 +
Tsu Tsu08g01615 Chr08 19180169 19183476 -
Vian Vian5g00462 Chr5 12484901 12489627 -
Vifa Vifa4g00401 Chr4 107043457 107045483 +
Vimu Vimu5g00847 Chr5 10970604 10971419 -
Vvi Vvi19g1435 Chr19 23832572 23836006 +
Ahy Ahy18g2044 Chr18 109212918 109217555 +
Aip Aip08g02361 Chr08 100724031 100728893 +
Amo Amo18g2758 Chr18 117260730 117265416 +
Bva Bva09g01199 Chr09 6455459 6460283 -
Bva Bva07g01378 Chr07 14179052 14179562 +
Cca Cca10g01532 Chr10 25067377 25071734 -
Dod Dod10g0579 Chr10 18817179 18822915 +
Lal Lal20g0534 Chr20 4679933 4682836 -
Lal Lal11g1565 Chr11 18690780 18703917 -
Lja Lja3g4006 Chr3 78963438 78969914 -
Mal Mal4g2089 Chr4 47050299 47056046 -
Mtr Mtr2g2156 Chr2 32154845 32160963 +
Ssu Ssu8g1526 Chr8 31762520 31767854 +
Sto Sto4g1985 Chr4 21013776 21017190 -
Tpr Tpr7g3099 Chr7 38308419 38314606 +
Tsu Tsu06g01478 Chr06 15100886 15106417 -
Vvi Vvi19g1436 Chr19 23841624 23845345 +
Aed Aed1g0201 Chr1 3474880 3478762 +
Aev Aev10g1019 Chr10 13740154 13743090 -
Ahy Ahy18g2043 Chr18 109191534 109196128 -
Aip Aip08g02360 Chr08 100703040 100711766 -
Amo Amo18g2757 Chr18 117239517 117244029 -
Bva Bva09g01200 Chr09 6460487 6463013 +
Bva Bva07g01377 Chr07 14177034 14178400 -
Cca Cca10g01533 Chr10 25086396 25090096 +
Dod Dod10g0578 Chr10 18804502 18808546 -
Lal Lal20g0537 Chr20 4702784 4705954 -
Lja Lja3g4008 Chr3 78986147 78989801 +
Mal Mal4g2090 Chr4 47086444 47090273 +
Mtr Mtr2g2155 Chr2 32140708 32144953 -
Sto Sto4g1987 Chr4 21032272 21036393 +
Sto Sto7g1967 Chr7 25201654 25206376 +
Tpr Tpr7g3098 Chr7 38301679 38306744 -
Tsu Tsu06g01479 Chr06 15128146 15132897 +
Vra Vra5g2224 Chr5 28176221 28180227 +
Vvi Vvi19g1437 Chr19 23845782 23846168 +
Vvi Vvi19g1438 Chr19 23853638 23873669 +
Bach Bach9g01070 Chr9 8175768 8183636 +
Bva Bva09g01202 Chr09 6464134 6474335 +
Bva Bva07g01375 Chr07 14167723 14175647 -
Gma Gma08g02139 Chr08 19592818 19599934 -
Gma Gma15g02080 Chr15 37865157 37881217 +
Gso Gso8g1936 Chr8 19317442 19324647 -
Gso Gso8g1936 Chr8 19317442 19324647 -
Lal Lal2g0698 Chr2 4266290 4275220 +
Lasa Lasa4g01276 Chr4 114073684 114080482 +
Mal Mal5g2071 Chr5 47332284 47338404 -
Mepo Mepo1g03206 Chr1 36803804 36810532 +
Mesa Mesa29g03637 Chr29 59054023 59058225 +
Mtr Mtr8g1432 Chr8 17817529 17826408 -
Phco Phco9g01980 Chr9 44708243 44729639 +
Pste Pste1g00343 Chr1 1230119 1240229 +
Pte Pte1g01108 Chr1 29800620 29809548 -
Pumo Pumo10g02530 Chr10 43399396 43406962 -
Pvu Pvu11g1879 Chr11 45672467 45688469 +
Rops Rops3g02310 Chr3 46549688 46566512 +
Seca Seca4g09619 Chr4 226645066 226653902 +
Spst Spst11g00422 Chr11 24842774 24850382 -
Sto Sto4g2000 Chr4 21115916 21123167 +
Tpr Tpr7g1460 Chr7 16183192 16189159 +
Trre Trre15g01672 Chr15 13418010 13423874 -
Tsu Tsu08g01614 Chr08 19163419 19169912 -
Vian Vian5g00461 Chr5 12417500 12430273 -
Vifa Vifa4g00402 Chr4 107516897 107523258 +
Vimu Vimu5g00845 Chr5 10960942 10962037 -
Vivi Vivi7g00070 Chr7 3676148 3682657 -
Vvi Vvi19g1439 Chr19 23874878 23888873 +
Aev Aev10g1017 Chr10 13724629 13730350 -
Ahy Ahy18g2037 Chr18 108848203 108858907 -
Aip Aip08g02345 Chr08 100384328 100394872 -
Amo Amo18g2736 Chr18 116948375 116959061 -
Bva Bva07g01374 Chr07 14161430 14167180 -
Dod Dod10g0575 Chr10 18695121 18703585 -
Lal Lal1g1534 Chr1 17513674 17526646 +
Lal Lal20g0538 Chr20 4712430 4720495 +
Lja Lja3g4010 Chr3 78994491 79006098 +
Mal Mal4g2092 Chr4 47106810 47114576 +
Mtr Mtr2g2153 Chr2 32121063 32131328 -
Sto Sto4g2004 Chr4 21154920 21162633 +
Sto Sto7g1973 Chr7 25222321 25238212 +
Tpr Tpr7g3095 Chr7 38282102 38289815 -
Tsu Tsu06g01482 Chr06 15169630 15177687 +