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
Vvi18g1026 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3622 . . . . . . . . . . . . . . . . . .
Vvi18g1027 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1028 . . . . . . Aed11g0133 . . . . . . . . . . . . . . . . . . . . . . . Cca05g00260 . . . . . . . . . . . . Gma17g02383 . . . . . . . Lal8g0591 Lal10g0785 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0163 . . . . . . . . . . . . . . . . . . . Vra6g1932 .
Vvi18g1029 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1030 . . . . Adu08g00028 . . Aed9g0309 Aev08g0290 . Ahy17g2409 . Aip07g02580 . . . Amo17g2267 . Apr9g0495 Apr5g1572 Arst8g00046 . Bach12g00180 . . . Bva06g02016 Bva10g00803 . Car05g03186 . Cca07g00375 . . . . . . . . Gma04g00315 Gma06g00300 Gma16g01291 . . . . . . Lal17g0085 Lal21g0155 . . . . . . . . . . . Lasa5g04415 . . . . . . . . . . . . Mal2g0579 Mepo3g07949 . . . . . . Mtr3g4174 . . Phco7g00386 . . . . . Pste2g00855 . . . . . . . Pvu9g0586 . Rops10g02363 . . . Spst9g00391 . . . . Sto9g3623 . Tpr7g0319 Trre5g05568 . . Tsu07g00351 Vian4g02304 . Vifa2g04369 . . . Viun9g03563 . Vivi3g00376 . . Vra5g1569
Vvi18g1031 . . . . Adu08g00029 . . Aed9g0308 Aev08g0288 . Ahy17g2408 . Aip07g02578 . . . . . . Apr5g1573 Arst8g00047 . . . . . Bva06g02015 Bva10g00804 . Car05g03187 . Cca07g00374 . . . . . . . . Gma04g00314 Gma06g00299 . . Gso4g0293 Gso4g0293 . . Lal4g0104 . . . . . Lan14g0917 . . . . . Lapu9g02209 . Lasa5g04417 . . . . . . . . . Lja1g3605 . . Mal2g0578 Mepo3g07948 . . . . . . Mtr3g4175 . . Phco7g00385 . . . . . Pste2g00852 . . . . . . . Pvu9g0587 . Rops10g02364 . Seca4g00571 . Spst9g00389 . . . Sto5g0254 . . Tpr7g0318 Trre5g05569 . . Tsu07g00350 Vian4g02305 . Vifa2g04370 . Vimu10g03387 . Viun9g03564 . Vivi3g00377 . . Vra5g1570
Vvi18g1032 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1033 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1034 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1035 . Acco05g2872 . Accr3g00178 . . Aed11g0132 . . Aev07g0775 . Ahy16g3639 . Aip06g03895 . Alju07g2827 . Amo16g3955 Apr9g0496 . . Arst6g04238 . . . Bisa05g0735 Bva06g02014 Bva10g00805 Car04g03497 . Cca05g00261 . . Dere05g2678 . Dod08g2165 . Enph7g1399 . Glsi10g0249 . . Gma14g00654 Gma17g02384 . . . . . . . . Lal10g0784 . . . . . . . . Lapu8g00943 . . . . . . Lele25g0150 Lele26g0164 Lele27g1931 Lele28g0165 . Lja5g3224 Mal1g5895 . . Mepo4g01760 . . . Mibi08g2522 Mtr1g0597 . . . . Phco2g00177 . Prci2g0251 . . . . . . Pte3g01357 . . Pumo9g00161 . Pvu1g0159 . Rops9g02306 . . . Spst8g01889 Ssu5g0162 . Sto5g0253 . Tpr1g3758 . . Trre1g00212 Tsu01g00323 . . Vian7g00803 . Vifa3g05025 . . . Viun8g00224 . Vivi4g05765 Vra6g1933 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev08g0290 Chr08 1586589 1589268 +
Ahy Ahy17g2409 Chr17 115560730 115564717 +
Aip Aip07g02580 Chr07 107255702 107259429 +
Amo Amo17g2267 Chr17 116082967 116086857 +
Gma Gma16g01291 Chr16 31491889 31496039 +
Vvi Vvi18g1026 Chr18 10357647 10358765 -
Sto Sto9g3622 Chr9 34860479 34860952 -
Vvi Vvi18g1027 Chr18 10363578 10366849 -
Vvi Vvi18g1028 Chr18 10370740 10384207 -
Aed Aed11g0133 Chr11 999917 1001570 +
Cca Cca05g00260 Chr05 5534239 5537679 -
Gma Gma17g02383 Chr17 41877701 41880618 -
Lal Lal8g0591 Chr8 4098206 4101033 +
Lal Lal10g0785 Chr10 15563880 15567509 +
Ssu Ssu5g0163 Chr5 3190006 3192577 +
Vra Vra6g1932 Chr6 35930649 35933433 -
Vvi Vvi18g1029 Chr18 10387939 10388232 -
Vvi Vvi18g1030 Chr18 10395587 10398012 -
Adu Adu08g00028 Chr08 321571 325335 -
Aed Aed9g0309 Chr9 2158225 2161978 +
Aev Aev08g0290 Chr08 1586589 1589268 +
Ahy Ahy17g2409 Chr17 115560730 115564717 +
Aip Aip07g02580 Chr07 107255702 107259429 +
Amo Amo17g2267 Chr17 116082967 116086857 +
Apr Apr9g0495 Chr9 6937266 6943919 -
Apr Apr5g1572 Chr5 19544655 19547831 -
Arst Arst8g00046 Chr8 321556 324693 -
Bach Bach12g00180 Chr12 1236986 1239717 +
Bva Bva06g02016 Chr06 13501126 13501923 +
Bva Bva10g00803 Chr10 6350493 6352452 -
Car Car05g03186 Chr05 76732192 76736039 -
Cca Cca07g00375 Chr07 4859626 4862694 +
Gma Gma04g00315 Chr04 2683944 2687186 +
Gma Gma06g00300 Chr06 2612948 2615792 +
Gma Gma16g01291 Chr16 31491889 31496039 +
Lal Lal17g0085 Chr17 521615 524541 +
Lal Lal21g0155 Chr21 1055046 1060063 +
Lasa Lasa5g04415 Chr5 661238884 661241366 -
Mal Mal2g0579 Chr2 6664266 6668214 +
Mepo Mepo3g07949 Chr3 92393439 92393977 +
Mtr Mtr3g4174 Chr3 55653744 55657483 -
Phco Phco7g00386 Chr7 2717554 2719964 +
Pste Pste2g00855 Chr2 9159443 9162715 +
Pvu Pvu9g0586 Chr9 10419646 10422701 -
Rops Rops10g02363 Chr10 41676436 41679172 -
Spst Spst9g00391 Chr9 3460289 3462860 +
Sto Sto9g3623 Chr9 34862676 34866498 -
Tpr Tpr7g0319 Chr7 2574342 2577649 +
Trre Trre5g05568 Chr5 56055350 56057455 -
Tsu Tsu07g00351 Chr07 2637565 2640510 +
Vian Vian4g02304 Chr4 39886106 39888607 -
Vifa Vifa2g04369 Chr2 1284294938 1284298037 -
Viun Viun9g03563 Chr9 41351869 41355131 -
Vivi Vivi3g00376 Chr3 6633742 6636673 -
Vra Vra5g1569 Chr5 22272937 22275880 -
Vvi Vvi18g1031 Chr18 10404285 10425574 -
Adu Adu08g00029 Chr08 388151 395960 -
Aed Aed9g0308 Chr9 2140109 2153821 +
Aev Aev08g0288 Chr08 1577764 1582982 +
Ahy Ahy17g2408 Chr17 115410611 115417070 +
Aip Aip07g02578 Chr07 107124165 107130659 +
Apr Apr5g1573 Chr5 19553424 19561479 -
Arst Arst8g00047 Chr8 390816 396914 -
Bva Bva06g02015 Chr06 13488511 13495107 +
Bva Bva10g00804 Chr10 6354852 6361436 -
Car Car05g03187 Chr05 76737380 76746680 -
Cca Cca07g00374 Chr07 4829057 4839910 +
Gma Gma04g00314 Chr04 2667210 2674811 +
Gma Gma06g00299 Chr06 2593901 2602347 +
Gso Gso4g0293 Chr4 2618419 2626753 +
Gso Gso4g0293 Chr4 2618419 2626753 +
Lal Lal4g0104 Chr4 639870 647511 +
Lan Lan14g0917 Chr14 15673521 15679895 -
Lapu Lapu9g02209 Chr9 36801512 36812048 -
Lasa Lasa5g04417 Chr5 661388939 661397425 -
Lja Lja1g3605 Chr1 44765168 44773059 +
Mal Mal2g0578 Chr2 6642871 6651617 +
Mepo Mepo3g07948 Chr3 92378035 92387984 +
Mtr Mtr3g4175 Chr3 55666150 55676453 -
Phco Phco7g00385 Chr7 2699196 2708043 +
Pste Pste2g00852 Chr2 9130419 9138408 +
Pvu Pvu9g0587 Chr9 10426826 10436286 -
Rops Rops10g02364 Chr10 41705776 41715126 -
Seca Seca4g00571 Chr4 9235120 9241754 +
Spst Spst9g00389 Chr9 3439588 3454712 +
Sto Sto5g0254 Chr5 1481539 1490672 +
Tpr Tpr7g0318 Chr7 2561966 2569721 +
Trre Trre5g05569 Chr5 56060810 56069092 -
Tsu Tsu07g00350 Chr07 2627459 2635843 +
Vian Vian4g02305 Chr4 39897232 39905772 -
Vifa Vifa2g04370 Chr2 1284653426 1284661963 -
Vimu Vimu10g03387 Chr10 43880211 43887723 -
Viun Viun9g03564 Chr9 41360557 41369501 -
Vivi Vivi3g00377 Chr3 6679344 6688613 -
Vra Vra5g1570 Chr5 22283110 22292169 -
Vvi Vvi18g1032 Chr18 10430833 10432146 +
Vvi Vvi18g1033 Chr18 10436482 10444964 +
Vvi Vvi18g1034 Chr18 10446349 10464840 -
Vvi Vvi18g1035 Chr18 10478268 10480223 -
Acco Acco05g2872 Chr05 43634767 43636725 -
Accr Accr3g00178 Chr3 1952118 1954040 +
Aed Aed11g0132 Chr11 994884 996854 +
Aev Aev07g0775 Chr07 5121182 5123110 +
Ahy Ahy16g3639 Chr16 154251046 154253531 -
Aip Aip06g03895 Chr06 136672507 136683011 -
Alju Alju07g2827 Chr07 53531608 53534995 -
Amo Amo16g3955 Chr16 151450608 151453017 -
Apr Apr9g0496 Chr9 6951143 6953561 -
Arst Arst6g04238 Chr6 110510681 110513101 -
Bisa Bisa05g0735 Chr05 12126669 12128633 +
Bva Bva06g02014 Chr06 13485184 13487415 +
Bva Bva10g00805 Chr10 6361977 6364353 -
Car Car04g03497 Chr04 64118520 64121220 -
Cca Cca05g00261 Chr05 5548912 5551379 -
Dere Dere05g2678 Chr05 37571299 37573263 -
Dod Dod08g2165 Chr08 49408045 49411256 -
Enph Enph7g1399 Chr7 19326984 19328943 -
Glsi Glsi10g0249 Chr10 1692910 1696526 +
Gma Gma14g00654 Chr14 6391327 6393714 +
Gma Gma17g02384 Chr17 41888582 41891737 -
Lal Lal10g0784 Chr10 15559091 15561025 +
Lapu Lapu8g00943 Chr8 27616186 27618546 -
Lele Lele25g0150 Chr25 927598 929559 +
Lele Lele26g0164 Chr26 940872 942902 +
Lele Lele27g1931 Chr27 23795600 23797561 -
Lele Lele28g0165 Chr28 953550 955580 +
Lja Lja5g3224 Chr5 62374344 62376766 -
Mal Mal1g5895 Chr1 136620556 136622502 -
Mepo Mepo4g01760 Chr4 22868660 22870867 -
Mibi Mibi08g2522 Chr08 42927478 42929442 -
Mtr Mtr1g0597 Chr1 6853443 6855825 -
Phco Phco2g00177 Chr2 1399422 1401377 +
Prci Prci2g0251 Chr2 1796603 1799064 +
Pte Pte3g01357 Chr3 11855377 11857407 -
Pumo Pumo9g00161 Chr9 2186696 2189212 +
Pvu Pvu1g0159 Chr1 1300585 1302874 +
Rops Rops9g02306 Chr9 42580082 42582467 -
Spst Spst8g01889 Chr8 23752886 23754838 -
Ssu Ssu5g0162 Chr5 3176036 3177985 +
Sto Sto5g0253 Chr5 1478287 1480224 +
Tpr Tpr1g3758 Chr1 41659005 41661475 -
Trre Trre1g00212 Chr1 1566059 1568014 +
Tsu Tsu01g00323 Chr01 2642282 2644558 +
Vian Vian7g00803 Chr7 16324863 16326830 -
Vifa Vifa3g05025 Chr3 1463440057 1463442012 -
Viun Viun8g00224 Chr8 1424176 1426659 +
Vivi Vivi4g05765 Chr4 194101157 194103556 -
Vra Vra6g1933 Chr6 35934301 35936695 -