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
Vvi19g0520 . . . . Adu08g01844 . Aed1g0721 . Aev10g2312 . Ahy18g1061 . Aip08g01112 . . . Amo18g1217 . . . Arst8g02540 . . Bach9g00622 . . Bva09g00750 Bva07g01878 Car01g02139 . Cca10g00978 . . . Dod10g1126 . . . . . . . Gma12g02016 Gma13g02542 . . . . . . . . . . . . . . . . . . Lasa1g05140 Lasa7g02736 . . . . . . . . . . Mal4g0953 . Mepo6g03259 Mepo2g02867 Mesa5g01278 Mesa13g02185 . . Mtr2g2760 . Phac5g01342 . Phco10g01038 Phco9g01597 . . Psa5g5793 . . . . . . . Pumo4g03225 . Pvu5g0951 Pvu11g1451 Rops7g01150 . Seca4g04695 . Spst5g00982 Spst11g00790 Ssu8g1020 . . . Tpr7g3660 . Trre11g03585 Trre7g02162 Tsu02g04556 . Vian11g00906 . Vifa1g02626 . Vimu4g01221 Vimu5g01117 Viun5g02779 . . Vivi5g03507 . .
Vvi19g0521 . . . . . . Aed1g0722 . Aev10g2311 . Ahy18g1057 . Aip08g01107 . . . Amo18g1212 . . . . . . . . . . . Car01g02140 . Cca10g00977 . . . Dod10g1129 . . . . . . . Gma12g02015 . . . . . . . . . . . . . . . . . Lapu10g01224 . . . . . . . . . . . . . Mal4g0952 . . . . . . . Mtr2g2761 . . . . . Prci7g2015 . . . . . . Pte15g01928 . . Pumo4g03224 . Pvu5g0952 . . . . . . . Ssu8g1019 . Sto7g0407 . Tpr7g3661 . . . Tsu02g04557 . . . . . Vimu4g01217 . . . . . . .
Vvi19g0522 . . . . . . Aed1g0725 . . . . . . . . . . . . . . . . . . . . . Car01g02141 . Cca10g00972 . . . . . . . . . . . Gma12g02014 Gma13g02545 . . . . . Lal22g0097 . . . . . . . . . . . . . . . . . . . . . . . . Mal4g0950 . . . . . . . Mtr2g2763 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1018 . . . Tpr7g3664 . . . Tsu02g04558 . . . . . . . . . . . . .
Vvi19g0523 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g00748 Bva09g00748 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0410 . . . . . . . . . . . . . . . . . . .
Vvi19g0524 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0420 . . . . . . . . . . . . . . . . . .
Vvi19g0525 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0526 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0527 . . . . Adu04g00357 . . . Aev10g2309 . Ahy18g1051 . Aip08g01095 . . . Amo18g1202 . . . . . . . . . Bva09g00746 Bva07g01881 Car01g02143 . . Cca04g01263 . . Dod10g1134 . . . . . Gma06g02482 Gma12g01219 . . Gso6g2236 Gso6g2236 . . . . Lal6g0082 . . . . . . . . . . . . . . . . . . . . . Lja3g3833 . Mal4g0939 . . . Mesa5g03790 . . . Mtr2g2767 . . . . . . . Psa5g5794 . . . . . . . . . Pvu6g1582 . . . . . . . . Ssu3g1992 Sto7g0414 . Tpr7g3666 . . . Tsu02g04563 . . . . . . . . . . . . .
Vvi19g0528 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0529 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma06g02482 Chr06 47289632 47292505 +
Sto Sto7g0414 Chr7 3024028 3030897 +
Aev Aev10g2309 Chr10 23032405 23037638 -
Ahy Ahy18g1051 Chr18 15314745 15316856 -
Aip Aip08g01095 Chr08 14497050 14501616 -
Amo Amo18g1202 Chr18 20791742 20794252 -
Cca Cca04g01263 Chr04 15341657 15344313 -
Dod Dod10g1134 Chr10 30688939 30692874 +
Ssu Ssu3g1992 Chr3 65234574 65235796 +
Vvi Vvi19g0520 Chr19 5818604 5819221 -
Adu Adu08g01844 Chr08 30376485 30377129 +
Aed Aed1g0721 Chr1 8335544 8336224 -
Aev Aev10g2312 Chr10 23054296 23054946 +
Ahy Ahy18g1061 Chr18 15774557 15775575 +
Aip Aip08g01112 Chr08 14923322 14923966 +
Amo Amo18g1217 Chr18 21209312 21212290 +
Arst Arst8g02540 Chr8 34727431 34728295 +
Bach Bach9g00622 Chr9 4305210 4305827 -
Bva Bva09g00750 Chr09 3821250 3822210 -
Bva Bva07g01878 Chr07 16887109 16887729 +
Car Car01g02139 Chr01 46981636 46982479 -
Cca Cca10g00978 Chr10 11514052 11515154 +
Dod Dod10g1126 Chr10 30566879 30568294 -
Gma Gma12g02016 Chr12 40821827 40822913 +
Gma Gma13g02542 Chr13 40276058 40277191 -
Lasa Lasa1g05140 Chr1 829435041 829435676 -
Lasa Lasa7g02736 Chr7 544298271 544298927 -
Mal Mal4g0953 Chr4 12579948 12580607 +
Mepo Mepo6g03259 Chr6 44547748 44549115 -
Mepo Mepo2g02867 Chr2 38463273 38464177 -
Mesa Mesa5g01278 Chr5 18125013 18125678 +
Mesa Mesa13g02185 Chr13 25665675 25666352 +
Mtr Mtr2g2760 Chr2 40912463 40913511 -
Phac Phac5g01342 Chr5 32019173 32020617 -
Phco Phco10g01038 Chr10 30906500 30907156 -
Phco Phco9g01597 Chr9 37492219 37492836 -
Psa Psa5g5793 Chr5 502621904 502623334 -
Pumo Pumo4g03225 Chr4 66560313 66561652 +
Pvu Pvu5g0951 Chr5 26351115 26352300 -
Pvu Pvu11g1451 Chr11 33408757 33409383 -
Rops Rops7g01150 Chr7 15420475 15421325 +
Seca Seca4g04695 Chr4 87422575 87423225 +
Spst Spst5g00982 Chr5 9502644 9503300 +
Spst Spst11g00790 Chr11 31708184 31708831 +
Ssu Ssu8g1020 Chr8 17542835 17543479 +
Tpr Tpr7g3660 Chr7 45369899 45370933 -
Trre Trre11g03585 Chr11 49041334 49041972 -
Trre Trre7g02162 Chr7 17199779 17200432 -
Tsu Tsu02g04556 Chr02 54543307 54544644 -
Vian Vian11g00906 Chr11 10495235 10495885 +
Vifa Vifa1g02626 Chr1 412586750 412587391 +
Vimu Vimu4g01221 Chr4 11283059 11285836 +
Vimu Vimu5g01117 Chr5 18805593 18806216 -
Viun Viun5g02779 Chr5 39303280 39304335 -
Vivi Vivi5g03507 Chr5 127227633 127228743 -
Vvi Vvi19g0521 Chr19 5852014 5864139 -
Aed Aed1g0722 Chr1 8342382 8346409 -
Aev Aev10g2311 Chr10 23048259 23050475 +
Ahy Ahy18g1057 Chr18 15583360 15588703 +
Aip Aip08g01107 Chr08 14750485 14754500 +
Amo Amo18g1212 Chr18 21057531 21061807 +
Car Car01g02140 Chr01 46987933 46992635 -
Cca Cca10g00977 Chr10 11481359 11483262 +
Dod Dod10g1129 Chr10 30641438 30645593 -
Gma Gma12g02015 Chr12 40810122 40813899 +
Lapu Lapu10g01224 Chr10 15629021 15633546 +
Mal Mal4g0952 Chr4 12522395 12526854 +
Mtr Mtr2g2761 Chr2 40923391 40933308 +
Prci Prci7g2015 Chr7 34401237 34404662 -
Pte Pte15g01928 Chr15 25325194 25328356 +
Pumo Pumo4g03224 Chr4 66527776 66532004 +
Pvu Pvu5g0952 Chr5 26407504 26410933 -
Ssu Ssu8g1019 Chr8 17511844 17515549 +
Sto Sto7g0407 Chr7 2986164 2988614 -
Tpr Tpr7g3661 Chr7 45378135 45381872 -
Tsu Tsu02g04557 Chr02 54551861 54560450 -
Vimu Vimu4g01217 Chr4 11134242 11137022 +
Vvi Vvi19g0522 Chr19 5864698 5866734 -
Aed Aed1g0725 Chr1 8370867 8373694 -
Car Car01g02141 Chr01 47004116 47008998 -
Cca Cca10g00972 Chr10 11388379 11392828 +
Gma Gma12g02014 Chr12 40745095 40749980 +
Gma Gma13g02545 Chr13 40324225 40327035 -
Lal Lal22g0097 Chr22 604376 609803 -
Mal Mal4g0950 Chr4 12472087 12484040 +
Mtr Mtr2g2763 Chr2 40946737 40952883 -
Ssu Ssu8g1018 Chr8 17434979 17440710 +
Tpr Tpr7g3664 Chr7 45413335 45425917 +
Tsu Tsu02g04558 Chr02 54649445 54656928 +
Vvi Vvi19g0523 Chr19 5890905 5892050 +
Bva Bva09g00748 Chr09 3814676 3816595 -
Bva Bva09g00748 Chr09 3814676 3816595 -
Sto Sto7g0410 Chr7 3007051 3008196 +
Vvi Vvi19g0524 Chr19 5915878 5917251 +
Sto Sto10g0420 Chr10 3397966 3399111 +
Vvi Vvi19g0525 Chr19 5919018 5919440 -
Vvi Vvi19g0526 Chr19 5927873 5928400 -
Vvi Vvi19g0527 Chr19 5929703 5931402 +
Adu Adu04g00357 Chr04 4190326 4192788 +
Aev Aev10g2309 Chr10 23032405 23037638 -
Ahy Ahy18g1051 Chr18 15314745 15316856 -
Aip Aip08g01095 Chr08 14497050 14501616 -
Amo Amo18g1202 Chr18 20791742 20794252 -
Bva Bva09g00746 Chr09 3809360 3812242 -
Bva Bva07g01881 Chr07 16898425 16900834 +
Car Car01g02143 Chr01 47060766 47063680 +
Cca Cca04g01263 Chr04 15341657 15344313 -
Dod Dod10g1134 Chr10 30688939 30692874 +
Gma Gma06g02482 Chr06 47289632 47292505 +
Gma Gma12g01219 Chr12 15920923 15926303 -
Gso Gso6g2236 Chr6 43245584 43247982 +
Gso Gso6g2236 Chr6 43245584 43247982 +
Lal Lal6g0082 Chr6 487363 492377 +
Lja Lja3g3833 Chr3 75485108 75487788 +
Mal Mal4g0939 Chr4 12078956 12080931 -
Mesa Mesa5g03790 Chr5 65697533 65699600 -
Mtr Mtr2g2767 Chr2 41019102 41022822 +
Psa Psa5g5794 Chr5 502689636 502691401 +
Pvu Pvu6g1582 Chr6 26513566 26516595 -
Ssu Ssu3g1992 Chr3 65234574 65235796 +
Sto Sto7g0414 Chr7 3024028 3030897 +
Tpr Tpr7g3666 Chr7 45441329 45444439 +
Tsu Tsu02g04563 Chr02 54675292 54678764 +
Vvi Vvi19g0528 Chr19 5931656 5931828 +
Vvi Vvi19g0529 Chr19 5950752 5951093 -