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
Vvi17g0733 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g2301 . . . . . . . Mtr3g2520 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0734 . . . . . . Aed10g0992 . . . . . . . . . . . . . . . . . . . . . . . Cca03g00522 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2176 . . . . . . . . . . . . . . . . . . . . .
Vvi17g0735 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0736 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0737 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0738 . Acco13g0658 . Accr12g00599 . . Aed10g0991 . . . . . . . . . . . Apr1g0866 . . . . . . . . . . . Cca03g00521 . . . . . . Enph5g0522 . . Gma06g01674 . . . Gso6g1577 . . . . . . . . . . . . . . . . Lapu9g00639 . . . . . . . Lele18g0532 Lele19g0556 . . . . . . Mepo3g05917 . . . Mibi13g0646 . . . . . Phco7g02189 . Prci9g1614 . . . . . . . . . Pumo10g02095 . Pvu9g1892 . . . Seca4g03165 . Spst9g02284 Ssu1g2178 . . . . . . Trre5g02595 . . . . . Vifa2g02122 . Vimu10g01141 . . . . . .
Vvi17g0739 . . . . . . Aed10g1136 . . . . . . . . . . . . . . . . . . . Bva06g01145 Bva05g00556 . . Cca03g00662 . . . . . . . . . Gma06g01829 Gma04g01566 . . Gso6g1725 Gso6g1725 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2026 . . . . . . . . . . . . . . . . . . . . .
Vvi17g0740 . . . . Adu01g03204 . . Aed6g1633 Aev01g2180 . Ahy11g2021 . Aip01g02228 . . . . . . Apr9g2949 Arst1g04143 . Bach5g00471 . . . Bva06g01144 Bva05g00557 Car07g00884 . . Cca11g02022 . . Dod05g1799 . . . . . . . Gma05g00200 Gma17g00743 . . . . Lal19g1448 Lal7g1352 . . . . Lan1g1063 Lan1g1063 . . . . Lapu3g00967 . Lasa4g03346 . . . . . . . . . . Lja4g2078 Mal5g4330 . Mepo1g01205 . Mesa29g01236 . . . Mtr4g3984 . Phac3g02808 . Phco8g01412 . . . . . Pste6g02675 . . . . . Pumo4g01223 . Pvu3g1905 . Rops2g03814 . Seca12g01322 . . . . Ssu6g1195 . Sto12g0971 Tpr5g3092 . Trre15g04300 . Tsu04g03759 . Vian1g00835 . Vifa4g03437 . Vimu7g00862 . Viun3g04660 . Vivi1g01832 . . Vra7g1945
Vvi17g0741 . . . . Adu01g03203 . . Aed6g1634 Aev01g2181 . Ahy11g2022 . Aip01g02229 . . . . . . Apr9g2948 Arst1g04140 . . . . . Bva06g01143 Bva05g00558 Car07g00881 . . Cca11g02025 . . Dod05g1800 . . . . . . . Gma05g00199 Gma17g00745 . . . . . Lal7g1351 Lal14g1885 . . . . . . . . . Lapu3g00966 . Lasa4g03349 . . . . . . . . . . Lja4g2077 Mal5g4331 . Mepo1g01203 . . . . . Mtr4g3985 . Phac3g02807 . Phco8g01414 . . . . . . . . Pte2g02321 . . Pumo4g01221 . Pvu3g1904 . Rops2g03813 . Seca12g01321 . Spst3g04763 . . Ssu6g1194 . Sto12g0973 Tpr5g3094 . Trre15g04302 . Tsu04g03761 . Vian1g00837 . Vifa4g03441 . Vimu7g00863 . Viun3g04662 . Vivi1g01831 . . Vra7g1946
Vvi17g0742 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0733 Chr17 8239693 8241675 +
Mal Mal2g2301 Chr2 28622120 28625543 +
Mtr Mtr3g2520 Chr3 39178335 39181893 -
Vvi Vvi17g0734 Chr17 8265348 8266987 +
Aed Aed10g0992 Chr10 8702282 8706297 +
Cca Cca03g00522 Chr03 8666562 8670122 +
Ssu Ssu1g2176 Chr1 62045014 62047596 -
Vvi Vvi17g0735 Chr17 8274889 8284596 +
Vvi Vvi17g0736 Chr17 8312937 8334526 +
Vvi Vvi17g0737 Chr17 8359461 8366696 -
Vvi Vvi17g0738 Chr17 8367616 8369256 +
Acco Acco13g0658 Chr13 4793053 4795314 +
Accr Accr12g00599 Chr12 5627146 5629408 +
Aed Aed10g0991 Chr10 8697578 8700539 +
Apr Apr1g0866 Chr1 11528130 11531105 +
Cca Cca03g00521 Chr03 8659401 8661820 +
Enph Enph5g0522 Chr5 4267884 4270828 +
Gma Gma06g01674 Chr06 16734243 16737284 +
Gso Gso6g1577 Chr6 16356560 16359830 +
Lapu Lapu9g00639 Chr9 7553921 7557198 +
Lele Lele18g0532 Chr18 3137709 3139423 +
Lele Lele19g0556 Chr19 3202667 3204700 +
Mepo Mepo3g05917 Chr3 73486718 73490254 -
Mibi Mibi13g0646 Chr13 8400632 8403643 +
Phco Phco7g02189 Chr7 38740355 38742741 +
Prci Prci9g1614 Chr9 28690591 28693654 -
Pumo Pumo10g02095 Chr10 28267786 28268538 +
Pvu Pvu9g1892 Chr9 26988112 26990902 +
Seca Seca4g03165 Chr4 54141519 54144595 +
Spst Spst9g02284 Chr9 53570871 53573179 +
Ssu Ssu1g2178 Chr1 62077269 62077886 -
Trre Trre5g02595 Chr5 20351625 20354615 +
Vifa Vifa2g02122 Chr2 549520958 549523049 +
Vimu Vimu10g01141 Chr10 11005914 11008608 -
Vvi Vvi17g0739 Chr17 8377945 8381026 +
Aed Aed10g1136 Chr10 10536239 10538706 +
Bva Bva06g01145 Chr06 9066867 9068477 -
Bva Bva05g00556 Chr05 2746736 2748981 +
Cca Cca03g00662 Chr03 11965580 11974902 +
Gma Gma06g01829 Chr06 19425338 19427961 +
Gma Gma04g01566 Chr04 42419535 42422799 -
Gso Gso6g1725 Chr6 19072228 19075081 +
Gso Gso6g1725 Chr6 19072228 19075081 +
Ssu Ssu1g2026 Chr1 57548705 57551003 -
Vvi Vvi17g0740 Chr17 8383132 8387549 +
Adu Adu01g03204 Chr01 104184670 104188069 -
Aed Aed6g1633 Chr6 20204438 20208410 +
Aev Aev01g2180 Chr01 26061140 26064178 +
Ahy Ahy11g2021 Chr11 128522456 128525860 +
Aip Aip01g02228 Chr01 117674698 117678047 +
Apr Apr9g2949 Chr9 36383214 36386291 -
Arst Arst1g04143 Chr1 103452107 103455577 -
Bach Bach5g00471 Chr5 3209717 3213218 +
Bva Bva06g01144 Chr06 9060704 9064476 -
Bva Bva05g00557 Chr05 2750005 2753784 +
Car Car07g00884 Chr07 7857162 7860659 -
Cca Cca11g02022 Chr11 45661512 45664712 +
Dod Dod05g1799 Chr05 43405184 43414359 +
Gma Gma05g00200 Chr05 1874954 1878277 -
Gma Gma17g00743 Chr17 6264091 6267119 +
Lal Lal19g1448 Chr19 17080162 17083417 -
Lal Lal7g1352 Chr7 18689587 18692790 -
Lan Lan1g1063 Chr1 20806516 20809722 +
Lan Lan1g1063 Chr1 20806516 20809722 +
Lapu Lapu3g00967 Chr3 10478668 10482323 -
Lasa Lasa4g03346 Chr4 586395294 586398218 +
Lja Lja4g2078 Chr4 22373093 22376371 -
Mal Mal5g4330 Chr5 114507724 114509993 +
Mepo Mepo1g01205 Chr1 11801388 11805063 -
Mesa Mesa29g01236 Chr29 16049270 16051463 -
Mtr Mtr4g3984 Chr4 53583863 53587333 +
Phac Phac3g02808 Chr3 30202944 30206467 -
Phco Phco8g01412 Chr8 14599356 14608059 +
Pste Pste6g02675 Chr6 14165986 14169337 +
Pumo Pumo4g01223 Chr4 15577059 15580394 -
Pvu Pvu3g1905 Chr3 39629693 39633177 -
Rops Rops2g03814 Chr2 70393434 70396530 -
Seca Seca12g01322 Chr12 12980554 12984336 -
Ssu Ssu6g1195 Chr6 19518534 19521528 -
Sto Sto12g0971 Chr12 6021644 6024854 +
Tpr Tpr5g3092 Chr5 53736965 53740219 +
Trre Trre15g04300 Chr15 53536853 53539838 +
Tsu Tsu04g03759 Chr04 46535419 46537716 +
Vian Vian1g00835 Chr1 8683383 8686434 +
Vifa Vifa4g03437 Chr4 1074621356 1074624105 +
Vimu Vimu7g00862 Chr7 8457072 8460158 +
Viun Viun3g04660 Chr3 54050056 54053287 +
Vivi Vivi1g01832 Chr1 39220339 39223434 -
Vra Vra7g1945 Chr7 38934337 38937621 +
Vvi Vvi17g0741 Chr17 8388823 8394406 -
Adu Adu01g03203 Chr01 104180101 104184365 +
Aed Aed6g1634 Chr6 20220567 20224654 -
Aev Aev01g2181 Chr01 26065132 26068443 -
Ahy Ahy11g2022 Chr11 128526092 128530396 -
Aip Aip01g02229 Chr01 117678357 117682572 -
Apr Apr9g2948 Chr9 36377291 36381968 +
Arst Arst1g04140 Chr1 103447621 103451926 +
Bva Bva06g01143 Chr06 9055818 9060272 +
Bva Bva05g00558 Chr05 2754250 2758727 -
Car Car07g00881 Chr07 7841409 7845502 +
Cca Cca11g02025 Chr11 45690576 45695644 -
Dod Dod05g1800 Chr05 43414949 43419937 -
Gma Gma05g00199 Chr05 1867907 1872017 +
Gma Gma17g00745 Chr17 6273073 6277044 -
Lal Lal7g1351 Chr7 18684720 18688517 +
Lal Lal14g1885 Chr14 18302980 18305824 +
Lapu Lapu3g00966 Chr3 10474059 10478200 +
Lasa Lasa4g03349 Chr4 586569745 586573682 -
Lja Lja4g2077 Chr4 22367358 22371801 +
Mal Mal5g4331 Chr5 114511034 114513240 -
Mepo Mepo1g01203 Chr1 11790194 11794873 +
Mtr Mtr4g3985 Chr4 53593216 53597422 -
Phac Phac3g02807 Chr3 30198318 30201747 +
Phco Phco8g01414 Chr8 14609115 14612200 -
Pte Pte2g02321 Chr2 42903592 42904057 +
Pumo Pumo4g01221 Chr4 15565631 15569570 +
Pvu Pvu3g1904 Chr3 39625087 39628392 +
Rops Rops2g03813 Chr2 70387119 70392209 +
Seca Seca12g01321 Chr12 12969633 12975420 +
Spst Spst3g04763 Chr3 99381088 99384454 -
Ssu Ssu6g1194 Chr6 19494199 19498137 +
Sto Sto12g0973 Chr12 6030742 6033843 -
Tpr Tpr5g3094 Chr5 53748552 53752274 -
Trre Trre15g04302 Chr15 53553044 53556196 -
Tsu Tsu04g03761 Chr04 46546966 46551240 -
Vian Vian1g00837 Chr1 8697831 8701084 -
Vifa Vifa4g03441 Chr4 1076015176 1076018847 -
Vimu Vimu7g00863 Chr7 8462038 8465316 -
Viun Viun3g04662 Chr3 54059485 54063329 -
Vivi Vivi1g01831 Chr1 39213215 39217072 +
Vra Vra7g1946 Chr7 38938955 38942760 -
Vvi Vvi17g0742 Chr17 8395717 8401341 +