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
Vvi4g1124 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1125 . . . . . . Aed11g1300 . . . . . . . . . . . . Apr7g1018 . . . . . . Bva08g00726 . . . Cca06g01349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra11g0685 .
Vvi4g1126 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1127 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1128 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1129 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1130 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1131 Acco12g2084 . Accr10g00039 . . . . . Aev05g0515 . Ahy15g0787 . Aip05g00797 . Alju12g0071 . . . Apr3g0276 . . . Bach10g00545 . Bisa01g1869 . Bva08g00729 . . . . . Dere13g0634 . Dod02g0571 . Enph14g0545 . . . . . Gma02g00518 Gma16g01285 . . . . . . . . . . . . . . . . . . Lasa4g02368 . Lele53g0055 Lele54g0056 . . . . . . . . . Mal5g3470 Mepo1g02031 . . . Mibi10g0057 . . Mtr8g2520 Phac3g03987 . Phco8g00487 . Prci5g0110 . . Psa4g2155 Pste7g01467 . Pte14g00916 Pte12g00425 . . Pumo4g02107 . Pvu3g2607 . Rops2g03371 . Seca12g02683 . Spst3g03897 . . . Sto6g3820 Sto11g1550 . Tpr4g4156 Trre15g04047 . . Tsu04g03388 Vian1g01762 . Vifa4g02468 . Vimu11g00622 . Viun3g03687 . Vivi1g03009 . . .
Vvi4g1132 . Acco11g2280 . Accr9g00218 . Adu05g00806 Aed11g1297 . . . Ahy15g0788 . Aip05g00798 . . Alju09g2281 . . . Apr7g1019 . Arst5g01005 . . . Bisa11g1675 Bva08g00730 . . . Cca06g01347 . . Dere09g0899 Dod02g0570 . . Enph13g0941 . Glsi05g1460 Gma11g00626 . . . Gso11g0578 . . . . . . . . . . . . . . . . Lapu2g00670 . Lasa2g03301 . . . . Lele49g0163 Lele50g0183 Lele51g0178 Lele52g0182 Lja2g0455 . . . . Mepo5g00878 . . . . Mtr5g0780 . . Phac2g02542 . . . Prci10g0297 Psa2g3631 . . Pste1g02777 . . . Pte12g00426 . Pumo8g01837 . Pvu2g0310 . Rops1g01651 . Seca10g00879 . Spst2g00807 . . Sto6g3821 . Tpr2g0980 . . Trre9g01037 Tsu05g00741 . . Vian10g00698 . Vifa1g06846 . Vimu7g02948 . Viun2g01970 . Vivi2g03059 Vra11g0686 .
Vvi4g1133 . Acco11g2281 . Accr9g00216 . Adu05g00807 Aed11g1296 . . . Ahy15g0789 . Aip05g00799 . . Alju09g2282 . . . Apr7g1020 . Arst5g01006 . Bach4g00634 . Bisa11g1676 Bva08g00731 . . . Cca06g01344 . . Dere09g0901 Dod02g0569 . . Enph13g0939 . Glsi05g1459 Gma11g00627 . . . Gso11g0579 . . . . . Lal23g1412 . . . . . . . . . . Lapu2g00671 . Lasa2g03302 . . . . Lele49g0162 Lele50g0182 Lele51g0177 Lele52g0180 Lja2g0456 . Mal6g1140 Mal5g3469 . Mepo5g00880 . Mesa17g00916 . Mibi12g1973 Mtr5g0781 Mtr8g2519 . Phac2g02543 . Phco4g00975 . Prci10g0296 Psa2g3630 Psa4g2156 . Pste1g02781 . . . Pte12g00427 . Pumo8g01835 . Pvu2g0311 . Rops1g01650 . Seca12g02689 . Spst2g00808 . . Sto6g3822 . Tpr2g0981 Tpr4g4157 . Trre9g01038 Tsu05g00742 Tsu04g03389 . Vian10g00699 . Vifa1g06844 . Vimu7g02950 . Viun2g01969 . Vivi2g03058 Vra11g0687 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1124 Chr4 18196920 18199820 +
Vvi Vvi4g1125 Chr4 18201457 18202035 +
Aed Aed11g1300 Chr11 17954313 17955152 +
Apr Apr7g1018 Chr7 17215743 17217532 -
Bva Bva08g00726 Chr08 3770871 3771641 +
Cca Cca06g01349 Chr06 28324391 28325379 +
Vra Vra11g0685 Chr11 5520511 5521520 -
Vvi Vvi4g1126 Chr4 18219167 18219838 +
Vvi Vvi4g1127 Chr4 18230322 18230571 -
Vvi Vvi4g1128 Chr4 18230753 18231547 +
Vvi Vvi4g1129 Chr4 18275834 18276422 +
Vvi Vvi4g1130 Chr4 18281877 18282203 -
Vvi Vvi4g1131 Chr4 18297658 18300765 +
Acco Acco12g2084 Chr12 32434551 32436447 +
Accr Accr10g00039 Chr10 467675 469727 -
Aev Aev05g0515 Chr05 3573291 3575152 -
Ahy Ahy15g0787 Chr15 10906578 10909132 +
Aip Aip05g00797 Chr05 10500120 10502709 +
Alju Alju12g0071 Chr12 901830 904079 -
Apr Apr3g0276 Chr3 5421530 5425064 +
Bach Bach10g00545 Chr10 3882968 3885241 +
Bisa Bisa01g1869 Chr01 32457491 32458764 -
Bva Bva08g00729 Chr08 3780639 3783986 +
Dere Dere13g0634 Chr13 7958668 7960189 +
Dod Dod02g0571 Chr02 7442811 7446734 -
Enph Enph14g0545 Chr14 7414399 7417495 +
Gma Gma02g00518 Chr02 5150604 5159761 -
Gma Gma16g01285 Chr16 31360591 31364449 -
Lasa Lasa4g02368 Chr4 463882399 463885507 -
Lele Lele53g0055 Chr53 427178 429387 -
Lele Lele54g0056 Chr54 467891 474170 -
Mal Mal5g3470 Chr5 99784913 99788432 -
Mepo Mepo1g02031 Chr1 20952944 20957841 +
Mibi Mibi10g0057 Chr10 931046 933662 -
Mtr Mtr8g2520 Chr8 35533575 35537531 -
Phac Phac3g03987 Chr3 39495947 39500244 +
Phco Phco8g00487 Chr8 4601271 4604993 -
Prci Prci5g0110 Chr5 1716547 1719772 -
Psa Psa4g2155 Chr4 174869776 174873645 +
Pste Pste7g01467 Chr7 13485547 13489054 +
Pte Pte14g00916 Chr14 30844726 30848394 -
Pte Pte12g00425 Chr12 3561670 3565076 +
Pumo Pumo4g02107 Chr4 30089904 30093008 +
Pvu Pvu3g2607 Chr3 48132624 48136869 +
Rops Rops2g03371 Chr2 61972750 61976498 -
Seca Seca12g02683 Chr12 46402937 46407470 +
Spst Spst3g03897 Chr3 88970988 88972949 -
Sto Sto6g3820 Chr6 42789911 42792096 +
Sto Sto11g1550 Chr11 14660286 14662081 -
Tpr Tpr4g4156 Chr4 48594202 48598009 +
Trre Trre15g04047 Chr15 50994748 50997407 +
Tsu Tsu04g03388 Chr04 43040180 43043879 +
Vian Vian1g01762 Chr1 20713975 20716957 +
Vifa Vifa4g02468 Chr4 743488483 743490996 -
Vimu Vimu11g00622 Chr11 6716806 6720573 +
Viun Viun3g03687 Chr3 43753307 43757104 -
Vivi Vivi1g03009 Chr1 66374752 66378046 +
Vvi Vvi4g1132 Chr4 18302011 18304174 -
Acco Acco11g2280 Chr11 36376397 36378710 -
Accr Accr9g00218 Chr9 2356585 2358619 +
Adu Adu05g00806 Chr05 9723354 9724789 -
Aed Aed11g1297 Chr11 17942682 17944424 +
Ahy Ahy15g0788 Chr15 10909135 10911090 -
Aip Aip05g00798 Chr05 10502976 10504404 -
Alju Alju09g2281 Chr09 45976079 45978118 -
Apr Apr7g1019 Chr7 17239009 17242640 -
Arst Arst5g01005 Chr5 9748272 9750138 -
Bisa Bisa11g1675 Chr11 38016999 38019051 -
Bva Bva08g00730 Chr08 3785856 3787417 -
Cca Cca06g01347 Chr06 28305643 28308505 +
Dere Dere09g0899 Chr09 11912410 11914074 -
Dod Dod02g0570 Chr02 7431018 7442401 +
Enph Enph13g0941 Chr13 15466830 15469126 +
Glsi Glsi05g1460 Chr05 63276404 63278478 +
Gma Gma11g00626 Chr11 5203240 5206420 -
Gso Gso11g0578 Chr11 5162032 5165840 -
Lapu Lapu2g00670 Chr2 5897548 5901875 -
Lasa Lasa2g03301 Chr2 530132969 530135898 -
Lele Lele49g0163 Chr49 990639 992529 +
Lele Lele50g0183 Chr50 1072314 1073870 +
Lele Lele51g0178 Chr51 1020744 1022635 +
Lele Lele52g0182 Chr52 1082104 1084110 +
Lja Lja2g0455 Chr2 4173428 4174911 -
Mepo Mepo5g00878 Chr5 8580344 8583791 -
Mtr Mtr5g0780 Chr5 7685540 7689206 -
Phac Phac2g02542 Chr2 26686107 26688345 -
Prci Prci10g0297 Chr10 1914482 1916881 +
Psa Psa2g3631 Chr2 391599903 391603151 +
Pste Pste1g02777 Chr1 11489062 11493106 -
Pte Pte12g00426 Chr12 3566757 3569064 -
Pumo Pumo8g01837 Chr8 54604265 54608767 +
Pvu Pvu2g0310 Chr2 3129558 3132619 -
Rops Rops1g01651 Chr1 34928408 34931164 +
Seca Seca10g00879 Chr10 8419497 8421681 -
Spst Spst2g00807 Chr2 6830491 6833841 -
Sto Sto6g3821 Chr6 42793252 42795170 -
Tpr Tpr2g0980 Chr2 11734067 11743363 -
Trre Trre9g01037 Chr9 8252714 8255659 -
Tsu Tsu05g00741 Chr05 6251712 6254606 -
Vian Vian10g00698 Chr10 6757713 6760862 -
Vifa Vifa1g06846 Chr1 1054962004 1054970226 +
Vimu Vimu7g02948 Chr7 24828167 24830592 -
Viun Viun2g01970 Chr2 28256024 28259651 +
Vivi Vivi2g03059 Chr2 130354307 130358463 +
Vra Vra11g0686 Chr11 5535943 5539682 -
Vvi Vvi4g1133 Chr4 18329698 18347406 +
Acco Acco11g2281 Chr11 36383246 36389879 +
Accr Accr9g00216 Chr9 2340274 2346848 -
Adu Adu05g00807 Chr05 9760128 9766693 +
Aed Aed11g1296 Chr11 17933353 17941734 -
Ahy Ahy15g0789 Chr15 10926813 10933484 +
Aip Aip05g00799 Chr05 10568789 10575549 +
Alju Alju09g2282 Chr09 45982964 45990364 +
Apr Apr7g1020 Chr7 17245250 17248442 +
Arst Arst5g01006 Chr5 9785331 9791800 +
Bach Bach4g00634 Chr4 4237415 4243673 +
Bisa Bisa11g1676 Chr11 38039109 38055272 +
Bva Bva08g00731 Chr08 3789343 3796482 +
Cca Cca06g01344 Chr06 28284971 28293395 -
Dere Dere09g0901 Chr09 11917312 11926042 +
Dod Dod02g0569 Chr02 7413691 7425980 -
Enph Enph13g0939 Chr13 15450904 15460743 -
Glsi Glsi05g1459 Chr05 63265626 63273539 -
Gma Gma11g00627 Chr11 5209303 5216187 +
Gso Gso11g0579 Chr11 5168626 5175570 +
Lal Lal23g1412 Chr23 14662227 14668827 +
Lapu Lapu2g00671 Chr2 5908086 5914989 +
Lasa Lasa2g03302 Chr2 530159958 530166329 +
Lele Lele49g0162 Chr49 982590 989189 -
Lele Lele50g0182 Chr50 1067479 1071334 -
Lele Lele51g0177 Chr51 1014832 1019290 -
Lele Lele52g0180 Chr52 1076229 1078180 -
Lja Lja2g0456 Chr2 4176254 4183124 +
Mal Mal6g1140 Chr6 17413279 17421037 -
Mal Mal5g3469 Chr5 99766343 99774874 -
Mepo Mepo5g00880 Chr5 8590903 8598489 +
Mesa Mesa17g00916 Chr17 11668708 11678300 +
Mibi Mibi12g1973 Chr12 36003491 36011982 +
Mtr Mtr5g0781 Chr5 7694084 7701872 +
Mtr Mtr8g2519 Chr8 35512576 35520178 -
Phac Phac2g02543 Chr2 26694305 26706234 +
Phco Phco4g00975 Chr4 7686168 7692999 -
Prci Prci10g0296 Chr10 1905469 1913913 -
Psa Psa2g3630 Chr2 391556521 391562944 -
Psa Psa4g2156 Chr4 174934164 174942353 +
Pste Pste1g02781 Chr1 11517982 11528193 +
Pte Pte12g00427 Chr12 3571020 3577388 +
Pumo Pumo8g01835 Chr8 54588960 54595646 -
Pvu Pvu2g0311 Chr2 3135839 3143187 +
Rops Rops1g01650 Chr1 34914895 34921571 -
Seca Seca12g02689 Chr12 46493345 46505140 +
Spst Spst2g00808 Chr2 6840280 6847092 +
Sto Sto6g3822 Chr6 42796542 42803250 +
Tpr Tpr2g0981 Chr2 11744056 11750804 +
Tpr Tpr4g4157 Chr4 48604840 48613520 +
Trre Trre9g01038 Chr9 8264476 8270456 +
Tsu Tsu05g00742 Chr05 6256803 6262927 +
Tsu Tsu04g03389 Chr04 43051877 43061790 +
Vian Vian10g00699 Chr10 6763928 6772639 +
Vifa Vifa1g06844 Chr1 1054769997 1054776205 -
Vimu Vimu7g02950 Chr7 24840451 24840990 +
Viun Viun2g01969 Chr2 28245253 28252323 -
Vivi Vivi2g03058 Chr2 130325431 130332223 -
Vra Vra11g0687 Chr11 5544608 5552165 +
Gma Gma16g01285 Chr16 31360591 31364449 -