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
Vvi17g1123 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g00957 . . . . . . . . . . . . . . . . . . . . . Lal8g0498 . . . . . Lan10g0481 . . . . . . . . . . . . . . . . . . . . Mal6g3516 . . . . . . . Mtr6g1975 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr2g5176 . . . Tsu06g03555 . . . . . . . . . . . .
Vvi17g1124 . . . . . . Aed7g0363 . . . . . . . . . . . Apr6g0924 . Arst5g03699 . . . . . . . . . Cca08g00384 . . . . . . . . . . . . Gma09g01569 . . . . . Lal10g0922 . . . . . . . . . . . . . . . . . . . . . . Lja2g2310 . . . Mepo7g00757 . Mesa22g02868 . . . . . . . . . . . . . . . Pte16g00164 . . . Pumo6g02851 . Pvu4g1503 . Rops5g00492 . . . Spst4g02928 . . . . . . . Trre11g01816 . . . . . Vifa1g03638 . Vimu8g01741 . Viun4g00546 . . . Vra1g0762 .
Vvi17g1125 Acco01g0534 . Accr1g00346 . Adu05g02919 . Aed7g0362 . . . . . . . Alju02g3365 . . . . . Arst5g03697 . . . Bisa01g0484 . . . . . Cca08g00383 . Dere06g1653 . . . . . Glsi01g1860 . . . . Gma09g01571 . . . . . . . . . . . . . . . . Lapu4g00335 . Lasa1g02186 . . Lele46g0392 . Lele48g1095 . . . . Lja2g2309 . . . . . . . Mibi01g3136 . . . . . . . Prci14g1904 . . . Pste9g01367 . Pte16g00163 . . . Pumo6g02852 . Pvu4g1505 . . . Seca10g04569 . Spst4g02927 . . . Sto8g4257 . . . . . . . Vian8g01319 . . . . . Viun4g00545 . . . Vra1g0761 .
Vvi17g1126 . . . . Adu05g02918 . Aed7g0361 . . . . . . . . . . . . . Arst5g03695 . . . . . . . . . Cca08g00382 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu4g00334 . Lasa1g04228 . . . . . . . . . Lja2g2307 . . . . . . . . . . . . . . . . . . . Pste9g01368 . Pte16g00161 . . . Pumo6g02853 . Pvu4g1507 . . . . . . . . . . . . . . . . . . . . . Vimu8g01740 . Viun4g00544 . Vivi2g05866 . Vra1g0760 .
Vvi17g1127 . . . . . . Aed7g0357 . . . . . . . . . . . Apr6g0927 . . . . . . . Bva04g00955 . . . Cca08g00378 . . . . . . . . . . . . Gma09g01575 . . . . Lal8g0495 Lal10g0925 . . . . Lan10g0479 Lan10g0479 . . . . . . . . . . . . . . . . Lja2g2304 . . Mal6g3514 . . . . . . . Mtr6g1971 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g4264 . . Tpr2g5178 . . . Tsu06g03560 . . . . . . . . . . Vra1g0756 .
Vvi17g1128 . . . . . . Aed7g0356 . . . . . . . . . . . Apr6g0928 . Arst5g03690 . . . . . Bva04g00954 . . . Cca08g00377 . . . . . . . . . . . . Gma09g01576 . . . . . . Lal25g0508 . . . . . . . . . . . . . . . . . . . . . Lja2g2303 . . Mal6g3513 . . . . . . . Mtr6g1970 . . Phco5g00414 . . . . . . . . . . . . . Pvu4g1515 . . . . . Spst4g02923 . . . Sto8g4283 . . Tpr2g5179 . . . Tsu06g03561 . . . . Vimu8g01735 . . . Vivi2g05879 . Vra1g0755 .
Vvi17g1129 . . . . Adu05g02912 . Aed7g0355 . . . . . . . . . . . Apr6g0929 . Arst5g03689 . Bach1g01386 . . . . . . . Cca08g00376 . . . . . . . . . . . . Gma09g01577 . . . . . Lal10g0926 . . . . . . . . . . Lapu4g00329 . Lasa1g02171 . . . . . . . . . Lja2g2300 . . Mal6g3512 Mepo7g00772 . . . . . . Mtr6g1969 Phac4g01842 . Phco5g00411 . . . . . Pste9g01373 . . . . . Pumo6g02858 . Pvu4g1518 . Rops5g00481 . Seca10g04583 . Spst4g02922 . . . Sto8g4284 . . Tpr2g5180 Trre11g01825 . . Tsu06g03562 Vian8g01325 . Vifa1g03580 . Vimu8g01734 . Viun4g00534 . Vivi2g05880 . Vra1g0754 .
Vvi17g1130 . . . . Adu05g02909 . Aed7g0353 . . . . . . . . . . . Apr6g0931 Apr2g1615 Arst5g03685 . Bach1g01388 . . . Bva04g00952 . . . Cca08g00374 Cca09g02867 . . . . . . . . . . . Gma09g01579 . . . . Lal8g0493 Lal10g0928 Lal25g0506 . . . . . . . . . Lapu4g00327 . Lasa1g02169 . . . . . . . . . Lja2g2295 . . Mal6g3510 Mepo7g00774 . Mesa22g02859 . . . . Mtr6g1967 . . Phco5g00408 . . . . . Pste9g01376 . Pte16g00249 Pte9g00192 . . Pumo6g02860 . Pvu4g1520 . Rops5g00478 . . . Spst4g02920 . Ssu5g3546 . Sto8g4309 . . Tpr2g5183 . . . Tsu06g03566 Vian8g01327 . Vifa1g03596 . Vimu8g01732 . Viun4g00531 . Vivi2g05883 . Vra1g0752 .
Vvi17g1131 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1132 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vifa Vifa1g03638 Chr1 560652321 560657780 +
Pte Pte16g00249 Chr16 3067643 3071236 +
Vvi Vvi17g1123 Chr17 15994838 15998974 +
Bva Bva04g00957 Chr04 6298412 6303414 +
Lal Lal8g0498 Chr8 3403363 3409120 +
Lan Lan10g0481 Chr10 3691665 3697975 +
Mal Mal6g3516 Chr6 103652584 103660176 +
Mtr Mtr6g1975 Chr6 36114873 36135513 +
Tpr Tpr2g5176 Chr2 57951189 57958888 -
Tsu Tsu06g03555 Chr06 46776784 46784266 -
Vvi Vvi17g1124 Chr17 16030751 16034811 +
Aed Aed7g0363 Chr7 2702356 2703990 +
Apr Apr6g0924 Chr6 13713303 13720127 -
Arst Arst5g03699 Chr5 97238469 97252565 +
Cca Cca08g00384 Chr08 5938460 5943713 +
Gma Gma09g01569 Chr09 40804021 40808733 -
Lal Lal10g0922 Chr10 16601820 16605427 -
Lja Lja2g2310 Chr2 27564324 27570802 +
Mepo Mepo7g00757 Chr7 12015036 12022555 -
Mesa Mesa22g02868 Chr22 76216743 76224033 +
Pte Pte16g00164 Chr16 1963239 1964377 -
Pumo Pumo6g02851 Chr6 68225768 68228608 -
Pvu Pvu4g1503 Chr4 42079255 42080429 -
Rops Rops5g00492 Chr5 8454343 8460655 +
Spst Spst4g02928 Chr4 68930156 68933274 +
Trre Trre11g01816 Chr11 17767972 17777192 -
Vifa Vifa1g03638 Chr1 560652321 560657780 +
Vimu Vimu8g01741 Chr8 23281540 23288632 +
Viun Viun4g00546 Chr4 3590729 3595289 +
Vra Vra1g0762 Chr1 8989118 8991736 +
Vvi Vvi17g1125 Chr17 16041714 16047360 +
Acco Acco01g0534 Chr01 6367756 6373486 -
Accr Accr1g00346 Chr1 6894934 6901167 -
Adu Adu05g02919 Chr05 98584971 98586918 +
Aed Aed7g0362 Chr7 2690283 2691815 +
Alju Alju02g3365 Chr02 51532308 51538203 +
Arst Arst5g03697 Chr5 97238452 97252565 +
Bisa Bisa01g0484 Chr01 7034859 7041394 +
Cca Cca08g00383 Chr08 5910334 5917863 +
Dere Dere06g1653 Chr06 30991411 30997828 -
Glsi Glsi01g1860 Chr01 82138111 82142889 -
Gma Gma09g01571 Chr09 40842684 40849951 -
Lapu Lapu4g00335 Chr4 3490878 3495511 +
Lasa Lasa1g02186 Chr1 240244677 240250176 +
Lele Lele46g0392 Chr46 2604734 2613932 -
Lele Lele48g1095 Chr48 15734139 15738555 +
Lja Lja2g2309 Chr2 27536842 27546298 +
Mibi Mibi01g3136 Chr01 55348759 55355767 +
Prci Prci14g1904 Chr14 26621473 26628096 -
Pste Pste9g01367 Chr9 12445315 12451433 -
Pte Pte16g00163 Chr16 1956441 1960234 -
Pumo Pumo6g02852 Chr6 68254223 68260105 -
Pvu Pvu4g1505 Chr4 42083957 42085179 -
Seca Seca10g04569 Chr10 104106858 104115373 -
Spst Spst4g02927 Chr4 68920248 68924389 +
Sto Sto8g4257 Chr8 45304147 45317129 -
Vian Vian8g01319 Chr8 32182679 32187685 -
Viun Viun4g00545 Chr4 3583985 3587891 +
Vra Vra1g0761 Chr1 8986961 8988925 +
Vvi Vvi17g1126 Chr17 16073602 16074246 +
Adu Adu05g02918 Chr05 98506551 98513241 +
Aed Aed7g0361 Chr7 2687118 2688629 +
Arst Arst5g03695 Chr5 97184319 97191064 +
Cca Cca08g00382 Chr08 5862119 5863854 -
Lapu Lapu4g00334 Chr4 3477497 3489025 +
Lasa Lasa1g04228 Chr1 718438196 718439666 -
Lja Lja2g2307 Chr2 27492335 27496337 +
Pste Pste9g01368 Chr9 12470080 12478327 -
Pte Pte16g00161 Chr16 1926471 1928705 +
Pumo Pumo6g02853 Chr6 68266122 68271879 -
Pvu Pvu4g1507 Chr4 42091621 42098077 -
Vimu Vimu8g01740 Chr8 23255788 23260976 +
Viun Viun4g00544 Chr4 3566707 3570436 +
Vivi Vivi2g05866 Chr2 188661746 188668810 -
Vra Vra1g0760 Chr1 8969720 8977530 +
Vvi Vvi17g1127 Chr17 16114377 16117505 +
Aed Aed7g0357 Chr7 2643210 2645032 -
Apr Apr6g0927 Chr6 13774194 13777482 +
Bva Bva04g00955 Chr04 6272242 6272541 -
Cca Cca08g00378 Chr08 5745092 5748962 -
Gma Gma09g01575 Chr09 40923356 40926774 +
Lal Lal8g0495 Chr8 3378448 3382200 -
Lal Lal10g0925 Chr10 16643443 16647865 +
Lan Lan10g0479 Chr10 3664621 3668485 -
Lan Lan10g0479 Chr10 3664621 3668485 -
Lja Lja2g2304 Chr2 27385945 27390069 -
Mal Mal6g3514 Chr6 103545804 103550552 -
Mtr Mtr6g1971 Chr6 36009679 36014779 -
Sto Sto8g4264 Chr8 45398381 45404720 +
Tpr Tpr2g5178 Chr2 58041295 58046287 +
Tsu Tsu06g03560 Chr06 46857887 46862423 +
Vra Vra1g0756 Chr1 8903825 8907793 -
Vvi Vvi17g1128 Chr17 16129763 16147689 -
Aed Aed7g0356 Chr7 2638097 2641352 +
Apr Apr6g0928 Chr6 13778097 13781719 -
Arst Arst5g03690 Chr5 96942598 96945705 +
Bva Bva04g00954 Chr04 6268332 6271832 +
Cca Cca08g00377 Chr08 5729262 5733449 +
Gma Gma09g01576 Chr09 40931339 40934998 -
Lal Lal25g0508 Chr25 3589751 3593300 +
Lja Lja2g2303 Chr2 27382323 27385431 +
Mal Mal6g3513 Chr6 103528933 103539997 +
Mtr Mtr6g1970 Chr6 35998046 36009618 +
Phco Phco5g00414 Chr5 3755503 3758316 -
Pvu Pvu4g1515 Chr4 42253373 42258597 +
Spst Spst4g02923 Chr4 68873626 68876919 +
Sto Sto8g4283 Chr8 45661618 45666209 -
Tpr Tpr2g5179 Chr2 58046522 58051410 -
Tsu Tsu06g03561 Chr06 46863109 46867909 -
Vimu Vimu8g01735 Chr8 23186596 23195481 +
Vivi Vivi2g05879 Chr2 189111549 189115686 -
Vra Vra1g0755 Chr1 8898909 8903666 +
Vvi Vvi17g1129 Chr17 16178905 16197182 +
Adu Adu05g02912 Chr05 98261639 98264734 -
Aed Aed7g0355 Chr7 2634312 2637108 -
Apr Apr6g0929 Chr6 13783108 13786509 +
Arst Arst5g03689 Chr5 96908151 96911237 -
Bach Bach1g01386 Chr1 27282846 27285315 +
Cca Cca08g00376 Chr08 5721469 5724219 -
Gma Gma09g01577 Chr09 40956834 40959713 +
Lal Lal10g0926 Chr10 16649522 16652716 +
Lapu Lapu4g00329 Chr4 3406843 3409976 -
Lasa Lasa1g02171 Chr1 237745031 237746835 -
Lja Lja2g2300 Chr2 27323761 27327632 -
Mal Mal6g3512 Chr6 103521849 103525243 -
Mepo Mepo7g00772 Chr7 12216294 12219136 +
Mtr Mtr6g1969 Chr6 35993754 35996812 -
Phac Phac4g01842 Chr4 45534410 45537358 +
Phco Phco5g00411 Chr5 3735154 3737725 -
Pste Pste9g01373 Chr9 12594283 12597792 +
Pumo Pumo6g02858 Chr6 68363328 68366371 +
Pvu Pvu4g1518 Chr4 42274094 42276847 +
Rops Rops5g00481 Chr5 8326727 8329995 -
Seca Seca10g04583 Chr10 104391413 104395332 +
Spst Spst4g02922 Chr4 68870427 68872808 -
Sto Sto8g4284 Chr8 45677644 45680329 -
Tpr Tpr2g5180 Chr2 58055060 58064370 +
Trre Trre11g01825 Chr11 17904333 17906603 +
Tsu Tsu06g03562 Chr06 46909922 46913275 +
Vian Vian8g01325 Chr8 32268108 32270330 +
Vifa Vifa1g03580 Chr1 554311793 554313311 +
Vimu Vimu8g01734 Chr8 23182734 23184946 -
Viun Viun4g00534 Chr4 3471162 3473559 -
Vivi Vivi2g05880 Chr2 189121285 189123275 +
Vra Vra1g0754 Chr1 8894914 8897373 -
Vvi Vvi17g1130 Chr17 16227507 16230509 -
Adu Adu05g02909 Chr05 98140116 98143270 +
Aed Aed7g0353 Chr7 2613086 2617106 +
Apr Apr6g0931 Chr6 13819675 13823296 -
Apr Apr2g1615 Chr2 21904301 21907205 +
Arst Arst5g03685 Chr5 96786407 96790521 +
Bach Bach1g01388 Chr1 27302905 27305992 -
Bva Bva04g00952 Chr04 6250762 6254388 +
Cca Cca08g00374 Chr08 5661211 5665817 +
Cca Cca09g02867 Chr09 54299299 54302784 +
Gma Gma09g01579 Chr09 40993985 40997390 -
Lal Lal8g0493 Chr8 3370101 3373345 +
Lal Lal10g0928 Chr10 16672584 16676709 -
Lal Lal25g0506 Chr25 3574847 3578252 +
Lapu Lapu4g00327 Chr4 3372689 3376755 +
Lasa Lasa1g02169 Chr1 236472710 236476547 +
Lja Lja2g2295 Chr2 27186653 27189823 +
Mal Mal6g3510 Chr6 103432754 103437110 +
Mepo Mepo7g00774 Chr7 12250773 12255755 -
Mesa Mesa22g02859 Chr22 75980580 75985048 +
Mtr Mtr6g1967 Chr6 35946962 35952212 +
Phco Phco5g00408 Chr5 3697903 3701348 +
Pste Pste9g01376 Chr9 12647430 12651598 -
Pte Pte16g00249 Chr16 3067643 3071236 +
Pte Pte9g00192 Chr9 2039492 2043837 +
Pumo Pumo6g02860 Chr6 68399755 68404023 -
Pvu Pvu4g1520 Chr4 42309097 42313970 -
Rops Rops5g00478 Chr5 8293012 8296718 +
Spst Spst4g02920 Chr4 68847889 68851457 +
Ssu Ssu5g3546 Chr5 86677026 86680081 +
Sto Sto8g4309 Chr8 45895698 45898816 -
Tpr Tpr2g5183 Chr2 58108432 58113206 -
Tsu Tsu06g03566 Chr06 46964419 46969788 -
Vian Vian8g01327 Chr8 32299378 32302520 -
Vifa Vifa1g03596 Chr1 555559281 555563061 -
Vimu Vimu8g01732 Chr8 23149655 23154008 +
Viun Viun4g00531 Chr4 3442712 3446636 +
Vivi Vivi2g05883 Chr2 189217304 189222118 -
Vra Vra1g0752 Chr1 8863387 8868257 +
Vvi Vvi17g1131 Chr17 16245900 16246154 +
Vvi Vvi17g1132 Chr17 16310724 16311002 +