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
Vvi4g1434 . Acco04g2101 . Accr8g00639 . Adu03g03088 . . . . . . . . . Alju06g2082 . . . . . Arst3g04055 . . . Bisa08g2485 . . . . . . . Dere03g0339 . . . Enph6g0294 . Glsi02g0318 . . . . . . . . . . . . . . . . . . . . . Lapu3g03405 . Lasa7g04452 . . . . Lele21g1481 Lele22g1470 Lele23g0531 Lele24g1419 . Lja4g0630 . Mal7g4697 . Mepo2g04378 . Mesa13g00753 . Mibi09g0641 . Mtr8g3244 . . . Phco4g03049 . Prci4g2358 . . . Pste3g01645 . . . . . Pumo6g00702 . Pvu2g2768 . Rops2g00814 . Seca12g06245 . Spst3g01347 . . Sto3g3159 . . Tpr3g0855 . Trre7g05153 . Tsu02g00696 . Vian1g03634 . . . Vimu11g04142 . Viun3g00889 . Vivi5g04389 . .
Vvi4g1435 . . . . . . Aed5g2095 . Aev03g2883 . Ahy13g3099 . Aip03g03510 . . . . . . . . . . . . . Bva05g01591 . . . Cca09g02231 . . . Dod04g2505 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g2828 . . . . . . . . . . . . . . . . . . . . .
Vvi4g1436 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1437 . . . . Adu10g01733 . . . Aev03g2885 . . Ahy20g1965 Aip03g03506 Aip10g02309 . . . Amo20g2493 Apr1g0483 . Arst3g04052 . . . . . Bva05g01588 . . . . . . . Dod04g2507 Dod09g1782 . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01157 . Lasa5g03300 . . . . . . . . . Lja1g4538 . Mal2g1547 . Mepo3g06794 . Mesa9g04316 . . . Mtr3g3316 . Phac9g02453 . Phco7g01688 . . . Psa5g1486 . Pste2g03690 . . Pte1g02117 . . Pumo10g01634 . Pvu9g1525 . Rops10g01035 . Seca4g02008 . Spst9g01745 . . . Sto3g3161 . Tpr3g3113 . Trre5g04260 . Tsu07g01354 . Vian4g01104 . Vifa2g03138 . Vimu10g01789 . Viun9g01833 . Vivi3g02506 . . .
Vvi4g1438 . Acco04g2105 . Accr8g00634 . . . . . Aev08g0609 . Ahy20g1966 . Aip10g02310 . Alju06g2088 . Amo20g2494 Apr1g0482 . . . . . . Bisa08g2481 Bva05g01587 . . . . . . Dere03g0341 . . . Enph6g0297 . Glsi02g0322 . . . . . . . . Lal21g0655 . . . . . Lan3g0723 . . . . . . Lapu3g03409 . Lasa7g04456 . . . . . . . . . Lja4g0627 . Mal7g4699 . Mepo2g04381 . Mesa13g00745 . Mibi09g0638 . Mtr8g3245 . . . Phco4g03053 . Prci4g2362 . . . . . . . . . . . Pvu2g2770 . . . . . Spst3g01344 . . . Sto4g0322 . Tpr3g0854 . Trre7g05154 . Tsu02g00695 . . . . . Vimu11g04146 . . . . . .
Vvi4g1439 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1440 . . . . . Adu10g00573 . . . . . Ahy20g1972 . Aip10g02312 . . . . Apr1g0481 . Arst1g01024 Arst10g00741 . . . . . . . . . . . . . Dod09g1784 . . . . . . . . . . . . . Lal4g0615 . . . . . . . . . . . Lapu6g01031 Lasa4g02145 . . . . . . . . . Lja1g4537 Lja4g0626 Mal2g1546 . Mepo1g02352 Mepo6g00141 Mesa29g02497 Mesa5g04510 . . Mtr3g3317 . . . Phco8g00272 Phco11g00143 . . Psa5g1485 . . . . . Pte19g00735 . . Pumo2g01130 Pvu3g2828 Pvu6g2170 . Rops11g00219 . Seca6g05180 Spst3g03653 Spst6g01740 . . Sto3g3162 Sto4g0321 Tpr3g3114 . Trre15g01803 Trre3g00155 Tsu07g01353 . . Vian6g02011 . Vifa1g10833 Vimu11g00953 Vimu2g00364 . . . Vivi5g05188 . .
Vvi4g1441 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1442 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1443 . . . . . Adu03g03066 Aed5g2099 . Aev03g2889 . Ahy13g3095 . Aip03g03503 . . . Amo13g3773 . . . . Arst3g04037 . . . . Bva05g01584 . . . Cca09g02235 . . . Dod04g2511 . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03412 . Lasa7g04487 . . . . . . . . Lja1g4534 . Mal2g1539 Mal7g4713 . Mepo2g04393 . Mesa13g00732 . . Mtr3g3320 Mtr8g3259 . . . Phco4g03056 . . Psa5g1482 . . Pste3g01631 . . Pte2g02609 Pte3g00054 . Pumo6g00696 . Pvu2g2773 . Rops2g00807 . . . Spst3g01340 Ssu5g2836 . . Sto4g0319 Tpr3g3117 Tpr3g0847 . Trre7g05162 Tsu07g01349 Tsu02g00685 . Vian1g03639 . Vifa2g03143 . Vimu11g04149 . Viun3g00883 . Vivi5g04413 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Rops Rops11g00219 Chr11 3003377 3013306 -
Vvi Vvi4g1434 Chr4 21358661 21362496 +
Acco Acco04g2101 Chr04 36828676 36830905 -
Accr Accr8g00639 Chr8 10103507 10105730 +
Adu Adu03g03088 Chr03 115303594 115304153 +
Alju Alju06g2082 Chr06 46744290 46746930 -
Arst Arst3g04055 Chr3 114018060 114018893 +
Bisa Bisa08g2485 Chr08 58637818 58640674 +
Dere Dere03g0339 Chr03 7052762 7056106 -
Enph Enph6g0294 Chr6 6281883 6285333 -
Glsi Glsi02g0318 Chr02 2050102 2053016 -
Lapu Lapu3g03405 Chr3 57305106 57310732 -
Lasa Lasa7g04452 Chr7 661916346 661917330 -
Lele Lele21g1481 Chr21 23145298 23147167 -
Lele Lele22g1470 Chr22 20481439 20484125 -
Lele Lele23g0531 Chr23 3912831 3913818 +
Lele Lele24g1419 Chr24 20195217 20197894 -
Lja Lja4g0630 Chr4 5189322 5191287 +
Mal Mal7g4697 Chr7 115179673 115181983 -
Mepo Mepo2g04378 Chr2 52355984 52358080 -
Mesa Mesa13g00753 Chr13 8887600 8889517 +
Mibi Mibi09g0641 Chr09 8359063 8361431 +
Mtr Mtr8g3244 Chr8 42949074 42950832 -
Phco Phco4g03049 Chr4 51507499 51509720 -
Prci Prci4g2358 Chr4 36357235 36359961 -
Pste Pste3g01645 Chr3 10387149 10388913 +
Pumo Pumo6g00702 Chr6 8810499 8813625 +
Pvu Pvu2g2768 Chr2 43420687 43423319 -
Rops Rops2g00814 Chr2 11678131 11681550 +
Seca Seca12g06245 Chr12 154345911 154348094 -
Spst Spst3g01347 Chr3 16899147 16901551 +
Sto Sto3g3159 Chr3 36445549 36448583 -
Tpr Tpr3g0855 Chr3 8054549 8056369 +
Trre Trre7g05153 Chr7 58157585 58159112 -
Tsu Tsu02g00696 Chr02 5867039 5869073 +
Vian Vian1g03634 Chr1 59089734 59092050 -
Vimu Vimu11g04142 Chr11 63061530 63067060 -
Viun Viun3g00889 Chr3 5478537 5481367 +
Vivi Vivi5g04389 Chr5 141498152 141506201 -
Vvi Vvi4g1435 Chr4 21371015 21372349 +
Aed Aed5g2095 Chr5 23332367 23337538 -
Aev Aev03g2883 Chr03 28238597 28240108 -
Ahy Ahy13g3099 Chr13 124872474 124874737 +
Aip Aip03g03510 Chr03 114843834 114845948 +
Bva Bva05g01591 Chr05 12978943 12980782 +
Cca Cca09g02231 Chr09 47524421 47526780 -
Dod Dod04g2505 Chr04 48873631 48876154 -
Ssu Ssu5g2828 Chr5 74381141 74381411 -
Vvi Vvi4g1436 Chr4 21377336 21378232 -
Vvi Vvi4g1437 Chr4 21388610 21395290 +
Adu Adu10g01733 Chr10 79905807 79908768 +
Aev Aev03g2885 Chr03 28243349 28246119 +
Ahy Ahy20g1965 Chr20 110280174 110283435 +
Aip Aip03g03506 Chr03 114801024 114803334 -
Aip Aip10g02309 Chr10 103463233 103466214 +
Amo Amo20g2493 Chr20 116427537 116430417 +
Apr Apr1g0483 Chr1 5909279 5912606 -
Arst Arst3g04052 Chr3 113971922 113973341 -
Bva Bva05g01588 Chr05 12968906 12971973 -
Dod Dod04g2507 Chr04 48881150 48884628 +
Dod Dod09g1782 Chr09 39470262 39473283 +
Lapu Lapu9g01157 Chr9 25106317 25109844 -
Lasa Lasa5g03300 Chr5 551643339 551645590 +
Lja Lja1g4538 Chr1 59280234 59283755 -
Mal Mal2g1547 Chr2 18532964 18536352 -
Mepo Mepo3g06794 Chr3 81686014 81689683 +
Mesa Mesa9g04316 Chr9 76195041 76198162 +
Mtr Mtr3g3316 Chr3 47095055 47098452 +
Phac Phac9g02453 Chr9 23240708 23243197 +
Phco Phco7g01688 Chr7 16729646 16732209 +
Psa Psa5g1486 Chr5 114329677 114333231 -
Pste Pste2g03690 Chr2 40364443 40384358 +
Pte Pte1g02117 Chr1 42347220 42364360 -
Pumo Pumo10g01634 Chr10 21521347 21524637 +
Pvu Pvu9g1525 Chr9 21601323 21604316 +
Rops Rops10g01035 Chr10 21952238 21955443 -
Seca Seca4g02008 Chr4 34271091 34274534 -
Spst Spst9g01745 Chr9 19322531 19325060 +
Sto Sto3g3161 Chr3 36456634 36459711 +
Tpr Tpr3g3113 Chr3 34236127 34239855 +
Trre Trre5g04260 Chr5 44519198 44522247 +
Tsu Tsu07g01354 Chr07 11930091 11933650 -
Vian Vian4g01104 Chr4 17820423 17822837 -
Vifa Vifa2g03138 Chr2 901514289 901531506 +
Vimu Vimu10g01789 Chr10 25239920 25242381 -
Viun Viun9g01833 Chr9 27894111 27896970 -
Vivi Vivi3g02506 Chr3 41945780 41948587 -
Vvi Vvi4g1438 Chr4 21396355 21396765 -
Acco Acco04g2105 Chr04 36848016 36848426 -
Accr Accr8g00634 Chr8 10060378 10061692 +
Aev Aev08g0609 Chr08 3490459 3490869 +
Ahy Ahy20g1966 Chr20 110283926 110284592 -
Aip Aip10g02310 Chr10 103466896 103467548 -
Alju Alju06g2088 Chr06 46784158 46784568 -
Amo Amo20g2494 Chr20 116431220 116431852 -
Apr Apr1g0482 Chr1 5908066 5908600 +
Bisa Bisa08g2481 Chr08 58611801 58612511 +
Bva Bva05g01587 Chr05 12968037 12968537 +
Dere Dere03g0341 Chr03 7063889 7065192 -
Enph Enph6g0297 Chr6 6299914 6302945 -
Glsi Glsi02g0322 Chr02 2065070 2066380 -
Lal Lal21g0655 Chr21 5009897 5010307 -
Lan Lan3g0723 Chr3 13267798 13268476 +
Lapu Lapu3g03409 Chr3 57318363 57320946 -
Lasa Lasa7g04456 Chr7 662090123 662090533 -
Lja Lja4g0627 Chr4 5180021 5180737 +
Mal Mal7g4699 Chr7 115186339 115186749 +
Mepo Mepo2g04381 Chr2 52380406 52381043 -
Mesa Mesa13g00745 Chr13 8829650 8830060 +
Mibi Mibi09g0638 Chr09 8335955 8336365 +
Mtr Mtr8g3245 Chr8 42960950 42961612 +
Phco Phco4g03053 Chr4 51515327 51515737 -
Prci Prci4g2362 Chr4 36405281 36407995 -
Pvu Pvu2g2770 Chr2 43427640 43428538 -
Spst Spst3g01344 Chr3 16877593 16878003 +
Sto Sto4g0322 Chr4 2501138 2501954 +
Tpr Tpr3g0854 Chr3 8051409 8052290 -
Trre Trre7g05154 Chr7 58161172 58164247 +
Tsu Tsu02g00695 Chr02 5862620 5863258 -
Vimu Vimu11g04146 Chr11 63076083 63076493 -
Vvi Vvi4g1439 Chr4 21416365 21416613 -
Vvi Vvi4g1440 Chr4 21428343 21429752 -
Adu Adu10g00573 Chr10 6510684 6512396 +
Ahy Ahy20g1972 Chr20 110748918 110751803 -
Aip Aip10g02312 Chr10 103833351 103834707 -
Apr Apr1g0481 Chr1 5902224 5904709 +
Arst Arst1g01024 Chr1 10279351 10283815 +
Arst Arst10g00741 Chr10 6159643 6162545 +
Dod Dod09g1784 Chr09 39478872 39480164 -
Lal Lal4g0615 Chr4 4527218 4533897 -
Lapu Lapu6g01031 Chr6 10368580 10372132 -
Lasa Lasa4g02145 Chr4 431078381 431089910 +
Lja Lja1g4537 Chr1 59275528 59278379 +
Lja Lja4g0626 Chr4 5175911 5178607 +
Mal Mal2g1546 Chr2 18527431 18528816 +
Mepo Mepo1g02352 Chr1 24258277 24263825 +
Mepo Mepo6g00141 Chr6 1462897 1465767 -
Mesa Mesa29g02497 Chr29 34101202 34107716 +
Mesa Mesa5g04510 Chr5 74486063 74487915 +
Mtr Mtr3g3317 Chr3 47108550 47111439 -
Phco Phco8g00272 Chr8 2499199 2507797 +
Phco Phco11g00143 Chr11 934127 935788 -
Psa Psa5g1485 Chr5 114106931 114111299 +
Pte Pte19g00735 Chr19 5883271 5886565 +
Pumo Pumo2g01130 Chr2 16544709 16547772 +
Pvu Pvu3g2828 Chr3 50095746 50103261 -
Pvu Pvu6g2170 Chr6 31143562 31146641 +
Rops Rops11g00219 Chr11 3003377 3013306 -
Seca Seca6g05180 Chr6 118864831 118867718 +
Spst Spst3g03653 Chr3 86563524 86571168 +
Spst Spst6g01740 Chr6 16587459 16590013 +
Sto Sto3g3162 Chr3 36461494 36466106 -
Sto Sto4g0321 Chr4 2497099 2498556 +
Tpr Tpr3g3114 Chr3 34244824 34247951 -
Trre Trre15g01803 Chr15 14479762 14486885 +
Trre Trre3g00155 Chr3 1077229 1078969 -
Tsu Tsu07g01353 Chr07 11924389 11928797 +
Vian Vian6g02011 Chr6 37197628 37199062 -
Vifa Vifa1g10833 Chr1 1821308954 1821310681 -
Vimu Vimu11g00953 Chr11 9894076 9902977 -
Vimu Vimu2g00364 Chr2 2060179 2060720 +
Vivi Vivi5g05188 Chr5 153070736 153076331 +
Vvi Vvi4g1441 Chr4 21444204 21453765 +
Vvi Vvi4g1442 Chr4 21469069 21469866 +
Vvi Vvi4g1443 Chr4 21482849 21488842 +
Adu Adu03g03066 Chr03 115002304 115006492 -
Aed Aed5g2099 Chr5 23361798 23366732 +
Aev Aev03g2889 Chr03 28261453 28264426 +
Ahy Ahy13g3095 Chr13 124773472 124777678 -
Aip Aip03g03503 Chr03 114747518 114753349 -
Amo Amo13g3773 Chr13 127217051 127221364 -
Arst Arst3g04037 Chr3 113717158 113721449 -
Bva Bva05g01584 Chr05 12953621 12958501 -
Cca Cca09g02235 Chr09 47555323 47561612 +
Dod Dod04g2511 Chr04 48921661 48927123 +
Lapu Lapu3g03412 Chr3 57341462 57346946 +
Lasa Lasa7g04487 Chr7 663462758 663464319 +
Lja Lja1g4534 Chr1 59233138 59238264 +
Mal Mal2g1539 Chr2 18439833 18440362 +
Mal Mal7g4713 Chr7 115338074 115342472 +
Mepo Mepo2g04393 Chr2 52464849 52470140 +
Mesa Mesa13g00732 Chr13 8707773 8712199 -
Mtr Mtr3g3320 Chr3 47133358 47139855 -
Mtr Mtr8g3259 Chr8 43046811 43051823 +
Phco Phco4g03056 Chr4 51540712 51545222 +
Psa Psa5g1482 Chr5 113836209 113847285 +
Pste Pste3g01631 Chr3 10297847 10302948 -
Pte Pte2g02609 Chr2 45124841 45130193 -
Pte Pte3g00054 Chr3 698317 702211 +
Pumo Pumo6g00696 Chr6 8746152 8752032 -
Pvu Pvu2g2773 Chr2 43452066 43457109 +
Rops Rops2g00807 Chr2 11604283 11610194 -
Spst Spst3g01340 Chr3 16813948 16818260 -
Ssu Ssu5g2836 Chr5 74456877 74462311 +
Sto Sto4g0319 Chr4 2472507 2477242 -
Tpr Tpr3g3117 Chr3 34290398 34297891 -
Tpr Tpr3g0847 Chr3 7981621 7986225 -
Trre Trre7g05162 Chr7 58223750 58226362 +
Tsu Tsu07g01349 Chr07 11886269 11888499 +
Tsu Tsu02g00685 Chr02 5809946 5813901 -
Vian Vian1g03639 Chr1 59130447 59135317 +
Vifa Vifa2g03143 Chr2 904379569 904386818 -
Vimu Vimu11g04149 Chr11 63110198 63115803 +
Viun Viun3g00883 Chr3 5446573 5452301 -
Vivi Vivi5g04413 Chr5 141841676 141844248 +