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
Vvi17g0233 . . . . . Adu03g04046 Aed7g0265 Aed5g2636 Aev05g3498 . Ahy15g2668 . Aip05g02979 . . . . . Apr6g1004 Apr2g1560 . Arst5g03466 . Bach1g01459 . . Bva04g00867 Bva03g00732 Car08g01628 Car06g00175 Cca08g00286 Cca09g02812 . . Dod02g3723 . . . . . Gma07g00903 Gma08g00498 Gma05g02367 . Gso7g0849 Gso7g0849 Gso7g0849 . Lal15g0921 . . . . . . . . . . . . Lapu3g03934 . Lasa7g05263 . . . . . . . . Lja2g2172 Lja4g0036 Mal5g0409 . . Mepo2g05080 . . . . Mtr8g3858 . . Phac2g04905 . Phco4g03706 . . Psa1g0757 Psa7g0084 . . . . . . . Pumo6g02962 . Pvu2g3373 . Rops2g00075 . Seca12g06973 . Spst3g00685 . Ssu5g3478 . Sto8g2237 Tpr3g0248 . . Trre7g05950 Tsu02g00049 . . Vian1g04196 . Vifa1g07256 . Vimu11g04902 . Viun3g00082 . Vivi5g06522 . .
Vvi17g0234 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0235 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0236 . . . . . Adu03g04045 . Aed5g2635 . . . . . . . . . . . Apr2g1559 . Arst3g05331 . . . . . . . Car06g00176 . Cca09g02810 . . . . . . . . . . Gma05g02366 . . . . . . . . . . . . . . . . . . Lapu3g03933 . Lasa7g05260 . . . . . . . . . Lja4g0037 Mal5g0407 . . Mepo2g05078 . Mesa13g00052 . . Mtr8g3857 . . . . Phco4g03705 . . . . . . . . . . . Pumo6g00079 . Pvu2g3372 . Rops2g00076 . Seca12g06972 . Spst3g00686 . Ssu5g3477 . . Tpr3g0249 . . Trre7g05949 Tsu02g00050 . . . . Vifa1g00065 . Vimu11g04901 . Viun3g00084 . Vivi5g06523 . .
Vvi17g0237 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0238 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g00731 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0239 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g00866 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0240 . . . . . . . Aed5g2634 . . . . . . . . . . . Apr2g1558 . . . . . . Bva04g00865 . . Car06g00177 . Cca09g02809 . . . . . . . . . Gma08g00496 Gma05g02365 . . . . . . Lal16g0953 . . . . . . . . . . . Lapu3g03932 . Lasa7g05258 . . . . . . . . . Lja4g0038 Mal5g0406 . . Mepo2g05077 . Mesa13g00054 . . Mtr8g3856 . . . . Phco4g03704 . . . . . . . . . . . Pumo6g00080 . Pvu2g3371 . Rops2g00077 . Seca12g06970 . Spst3g00687 . Ssu5g3475 . Sto8g2235 Tpr3g0250 . . Trre7g05947 Tsu02g00051 . . Vian1g04195 . Vifa6g04121 . Vimu11g04899 . Viun3g00085 . Vivi5g06524 . .
Vvi17g0241 . . . . . . . . Aev05g3497 . Ahy15g2670 . Aip05g02981 . . . . . Apr6g1005 . . . . . . . Bva04g00864 Bva03g00728 . . . . . . Dod02g3722 . . . . . . . . . . . . . . . . Lal8g0512 . . . . . . . . . . . . . . . . . . . . Lja2g2171 . . . . . . . . . . Mtr6g2092 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2234 . . . . . Tsu06g03443 . . . . . . . . . . . .
Vvi17g0242 . . . . . . . . Aev05g3496 . Ahy15g2671 . Aip05g02982 . . . . . Apr6g1007 . . . . . . . . Bva03g00725 . . . . . . Dod02g3721 . . . . . . . . . . . . . . . . . . Lal25g0474 . . . . . . . . . . . . . . . . . . Lja2g2170 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0233 Chr17 2401225 2402693 +
Adu Adu03g04046 Chr03 129566253 129568150 -
Aed Aed7g0265 Chr7 1867635 1875539 +
Aed Aed5g2636 Chr5 26991878 26994056 +
Aev Aev05g3498 Chr05 34221706 34223991 -
Ahy Ahy15g2668 Chr15 142879885 142882341 +
Aip Aip05g02979 Chr05 131985711 131987752 +
Apr Apr6g1004 Chr6 14732171 14734615 +
Apr Apr2g1560 Chr2 21463104 21465624 -
Arst Arst5g03466 Chr5 93552522 93554811 -
Bach Bach1g01459 Chr1 28103491 28105760 +
Bva Bva04g00867 Chr04 5695363 5698021 -
Bva Bva03g00732 Chr03 4385099 4387725 -
Car Car08g01628 Chr08 25986952 25988564 -
Car Car06g00175 Chr06 1976826 1979485 +
Cca Cca08g00286 Chr08 4137863 4140498 +
Cca Cca09g02812 Chr09 53721924 53724826 +
Dod Dod02g3723 Chr02 75985797 75988687 -
Gma Gma07g00903 Chr07 9835098 9837375 +
Gma Gma08g00498 Chr08 4135050 4138918 +
Gma Gma05g02367 Chr05 44538549 44541544 +
Gso Gso7g0849 Chr7 9614404 9617602 +
Gso Gso7g0849 Chr7 9614404 9617602 +
Gso Gso7g0849 Chr7 9614404 9617602 +
Lal Lal15g0921 Chr15 7059718 7063082 +
Lapu Lapu3g03934 Chr3 62830850 62834051 +
Lasa Lasa7g05263 Chr7 719175268 719177548 -
Lja Lja2g2172 Chr2 24625783 24628865 -
Lja Lja4g0036 Chr4 290914 293727 +
Mal Mal5g0409 Chr5 6145898 6153444 -
Mepo Mepo2g05080 Chr2 58718949 58721444 -
Mtr Mtr8g3858 Chr8 49260501 49262566 -
Phac Phac2g04905 Chr2 45360410 45362575 +
Phco Phco4g03706 Chr4 56644476 56646845 +
Psa Psa1g0757 Chr1 48745396 48747012 -
Psa Psa7g0084 Chr7 6248755 6251957 +
Pumo Pumo6g02962 Chr6 70282116 70284462 -
Pvu Pvu2g3373 Chr2 48584852 48587395 +
Rops Rops2g00075 Chr2 1258047 1260757 +
Seca Seca12g06973 Chr12 161747979 161750511 -
Spst Spst3g00685 Chr3 10267963 10270204 -
Ssu Ssu5g3478 Chr5 85622659 85633087 +
Sto Sto8g2237 Chr8 14850180 14853549 -
Tpr Tpr3g0248 Chr3 2941159 2944100 +
Trre Trre7g05950 Chr7 63907766 63909994 -
Tsu Tsu02g00049 Chr02 300945 303531 +
Vian Vian1g04196 Chr1 64969545 64971737 +
Vifa Vifa1g07256 Chr1 1121768001 1121768636 -
Vimu Vimu11g04902 Chr11 68674597 68676846 +
Viun Viun3g00082 Chr3 369484 372201 -
Vivi Vivi5g06522 Chr5 171999674 172002408 +
Vvi Vvi17g0234 Chr17 2403580 2403747 +
Vvi Vvi17g0235 Chr17 2404696 2413450 -
Vvi Vvi17g0236 Chr17 2414314 2415977 -
Adu Adu03g04045 Chr03 129534095 129540183 -
Aed Aed5g2635 Chr5 26986294 26988015 -
Apr Apr2g1559 Chr2 21448272 21449995 -
Arst Arst3g05331 Chr3 128298003 128299524 -
Car Car06g00176 Chr06 1987735 1989680 +
Cca Cca09g02810 Chr09 53704665 53706872 -
Gma Gma05g02366 Chr05 44527080 44528777 -
Lapu Lapu3g03933 Chr3 62814606 62816450 -
Lasa Lasa7g05260 Chr7 719075379 719075615 +
Lja Lja4g0037 Chr4 300342 302560 +
Mal Mal5g0407 Chr5 6129365 6131125 -
Mepo Mepo2g05078 Chr2 58700182 58702763 -
Mesa Mesa13g00052 Chr13 631081 633113 +
Mtr Mtr8g3857 Chr8 49243169 49245830 -
Phco Phco4g03705 Chr4 56632897 56634518 -
Pumo Pumo6g00079 Chr6 878408 880281 +
Pvu Pvu2g3372 Chr2 48575513 48577663 -
Rops Rops2g00076 Chr2 1279592 1281650 +
Seca Seca12g06972 Chr12 161739744 161741946 -
Spst Spst3g00686 Chr3 10281549 10283417 +
Ssu Ssu5g3477 Chr5 85606726 85608733 -
Tpr Tpr3g0249 Chr3 2948234 2950040 +
Trre Trre7g05949 Chr7 63893379 63895122 -
Tsu Tsu02g00050 Chr02 308867 310429 +
Vifa Vifa1g00065 Chr1 12159597 12161908 -
Vimu Vimu11g04901 Chr11 68662854 68664726 -
Viun Viun3g00084 Chr3 386908 388852 +
Vivi Vivi5g06523 Chr5 172014451 172016326 +
Vvi Vvi17g0237 Chr17 2449848 2450462 -
Vvi Vvi17g0238 Chr17 2458363 2459372 -
Bva Bva03g00731 Chr03 4371277 4372620 +
Vvi Vvi17g0239 Chr17 2463109 2464173 -
Bva Bva04g00866 Chr04 5677608 5678842 +
Vvi Vvi17g0240 Chr17 2475616 2489342 +
Aed Aed5g2634 Chr5 26975533 26980614 -
Apr Apr2g1558 Chr2 21431699 21436570 -
Bva Bva04g00865 Chr04 5668484 5674831 -
Car Car06g00177 Chr06 1997971 2003560 +
Cca Cca09g02809 Chr09 53683585 53689406 -
Gma Gma08g00496 Chr08 4108978 4117190 -
Gma Gma05g02365 Chr05 44514416 44519621 -
Lal Lal16g0953 Chr16 6328509 6334022 +
Lapu Lapu3g03932 Chr3 62791045 62796767 -
Lasa Lasa7g05258 Chr7 718494015 718504459 -
Lja Lja4g0038 Chr4 309890 314589 +
Mal Mal5g0406 Chr5 6114028 6119050 -
Mepo Mepo2g05077 Chr2 58674761 58680600 -
Mesa Mesa13g00054 Chr13 647546 653987 +
Mtr Mtr8g3856 Chr8 49229174 49234914 -
Phco Phco4g03704 Chr4 56620858 56624940 -
Pumo Pumo6g00080 Chr6 891555 897231 +
Pvu Pvu2g3371 Chr2 48562654 48567206 -
Rops Rops2g00077 Chr2 1307530 1313753 +
Seca Seca12g06970 Chr12 161687030 161692392 -
Spst Spst3g00687 Chr3 10293389 10297776 +
Ssu Ssu5g3475 Chr5 85584002 85588635 -
Sto Sto8g2235 Chr8 14810893 14814693 -
Tpr Tpr3g0250 Chr3 2960208 2965767 +
Trre Trre7g05947 Chr7 63883494 63887308 -
Tsu Tsu02g00051 Chr02 318566 324248 +
Vian Vian1g04195 Chr1 64935983 64939922 -
Vifa Vifa6g04121 Chr6 1356730470 1356735397 -
Vimu Vimu11g04899 Chr11 68643768 68647946 -
Viun Viun3g00085 Chr3 397685 402604 +
Vivi Vivi5g06524 Chr5 172060191 172066043 +
Vvi Vvi17g0241 Chr17 2495986 2498620 +
Aev Aev05g3497 Chr05 34210889 34216440 -
Ahy Ahy15g2670 Chr15 142919713 142925616 +
Aip Aip05g02981 Chr05 132024229 132029414 +
Apr Apr6g1005 Chr6 14743429 14747618 +
Bva Bva04g00864 Chr04 5662067 5665138 -
Bva Bva03g00728 Chr03 4355223 4358310 -
Dod Dod02g3722 Chr02 75967131 75971663 -
Lal Lal8g0512 Chr8 3510981 3516864 +
Lja Lja2g2171 Chr2 24611169 24616099 -
Mtr Mtr6g2092 Chr6 37496522 37501419 -
Sto Sto8g2234 Chr8 14797730 14802088 -
Tsu Tsu06g03443 Chr06 45417687 45426024 +
Vvi Vvi17g0242 Chr17 2499560 2504233 -
Aev Aev05g3496 Chr05 34206743 34210177 +
Ahy Ahy15g2671 Chr15 142925493 142930594 -
Aip Aip05g02982 Chr05 132029893 132034532 -
Apr Apr6g1007 Chr6 14760175 14768297 -
Bva Bva03g00725 Chr03 4333695 4338051 +
Dod Dod02g3721 Chr02 75962127 75966401 +
Lal Lal25g0474 Chr25 3266048 3270787 +
Lja Lja2g2170 Chr2 24605345 24611013 +