Hierarchical alignments with the P. vulgaris 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 Pvu Acco Accr Adu Aed Aev Ahy_1 Ahy_2 Aip Alju Amo_1 Amo_2 Apr Arst Bach Bisa Bva Car Cca Dere Dod Enph Glsi Gma_1 Gma_2 Gso_1 Gso_2 Lal_1 Lal_2 Lal_3 Lan_1 Lan_2 Lan_3 Lapu Lasa Lele_1 Lele_2 Lele_3 Lele_4 Lja Mal Mepo Mesa Mibi Mtr Phac Phco Prci Psa Pste Pumo Rops Seca Spst Ssu Sto Tpr Trre Tsu Vian Vifa Vimu Viun Vivi Vra
Pvu11g1518 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1519 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1520 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1521 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1522 . . Adu03g01620 Aed5g1052 . . Ahy13g1753 Aip03g01957 . Amo13g2209 Amo03g0296 Apr5g0028 Arst3g02162 Bach9g00650 . Bva07g01850 Car06g01889 Cca04g01297 . Dod03g1936 . . Gma12g01270 Gma06g02413 Gso12g1152 Gso6g2195 Lal1g0547 . . . . Lan13g0560 . Lasa7g02772 . . . . . . Mepo2g02894 Mesa13g02162 . Mtr4g2610 Phac11g02008 Phco9g01653 . Psa7g3675 Pste1g03785 Pumo11g00821 Rops3g01680 Seca4g04646 Spst11g00725 Ssu3g1938 . . Trre7g02203 Tsu02g03076 Vian5g00568 Vifa6g01734 Vimu5g01061 Viun11g00996 Vivi5g03570 .
Pvu11g1523 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1524 . . Adu03g01621 Aed5g1053 . . Ahy13g1755 Aip03g01958 . Amo13g2211 . Apr5g0029 Arst3g02165 Bach9g00651 . Bva07g01849 Car06g01888 Cca04g01298 . Dod03g1934 . . Gma12g01273 Gma06g02412 Gso12g1154 Gso6g2194 Lal1g0548 Lal2g0543 Lal9g0477 Lan7g0563 . Lan13g0561 . Lasa7g02773 . . . . . . Mepo2g02895 Mesa13g02161 . Mtr4g2611 Phac11g02009 Phco9g01654 . Psa7g3674 Pste1g03787 Pumo11g00819 Rops3g01682 Seca4g04644 Spst11g00724 Ssu3g1936 . . Trre7g02204 Tsu02g03081 Vian5g00567 Vifa6g01733 Vimu5g01057 Viun11g00995 Vivi5g03572 .
Pvu11g1525 . . . . . . . . . . . Apr5g0030 . . . . Car06g01887 Cca04g01300 . Dod03g1927 . . . Gma06g02408 Gso12g1162 Gso6g2189 . . . . . . . . . . . . . . Mepo2g02897 . . Mtr4g2615 . . . . . . . . . . . . . Tsu02g03082 . . . . . Vra2g1350
Pvu11g1526 . . Adu03g01624 . . . . Aip03g01959 . Amo13g2213 . Apr5g0032 . . . . . Cca04g01302 . . . . Gma12g01279 Gma06g02405 Gso12g1164 Gso6g2187 . . . Lan7g0564 . . . . . . . . . Mal5g2451 . . . Mtr4g2616 . . . . . . . . . Ssu3g1935 . Tpr7g1993 . Tsu02g03084 . . . . . .
Pvu11g1527 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Seca Seca4g04646 Chr4 86044994 86047709 +
Pvu Pvu11g1518 Chr11 37704609 37704779 +
Pvu Pvu11g1519 Chr11 37705498 37706112 +
Pvu Pvu11g1520 Chr11 37708684 37708971 +
Pvu Pvu11g1521 Chr11 37792213 37792416 +
Pvu Pvu11g1522 Chr11 37942654 37945652 -
Adu Adu03g01620 Chr03 26204256 26208121 -
Aed Aed5g1052 Chr5 8406494 8409311 -
Ahy Ahy13g1753 Chr13 27864442 27868291 -
Aip Aip03g01957 Chr03 26794951 26798367 -
Amo Amo13g2209 Chr13 37035755 37039641 -
Amo Amo03g0296 Chr03 5628451 5632849 +
Apr Apr5g0028 Chr5 204194 207593 -
Arst Arst3g02162 Chr3 26543287 26547196 -
Bach Bach9g00650 Chr9 4495542 4497958 -
Bva Bva07g01850 Chr07 16740466 16742459 +
Car Car06g01889 Chr06 18869027 18871054 +
Cca Cca04g01297 Chr04 16207474 16210698 -
Dod Dod03g1936 Chr03 42946187 42949096 +
Gma Gma12g01270 Chr12 17484970 17489448 -
Gma Gma06g02413 Chr06 46232821 46235839 +
Gso Gso12g1152 Chr12 17209702 17213843 -
Gso Gso6g2195 Chr6 42068178 42071177 +
Lal Lal1g0547 Chr1 3517558 3520199 -
Lan Lan13g0560 Chr13 4326110 4328979 -
Lasa Lasa7g02772 Chr7 546227845 546230018 -
Mepo Mepo2g02894 Chr2 38666111 38668283 -
Mesa Mesa13g02162 Chr13 25423815 25425521 +
Mtr Mtr4g2610 Chr4 39607759 39609730 -
Phac Phac11g02008 Chr11 29532551 29535509 -
Phco Phco9g01653 Chr9 39065977 39068937 -
Psa Psa7g3675 Chr7 310784988 310787172 +
Pste Pste1g03785 Chr1 18686779 18690001 -
Pumo Pumo11g00821 Chr11 29486103 29489244 +
Rops Rops3g01680 Chr3 27417230 27419615 -
Seca Seca4g04646 Chr4 86044994 86047709 +
Spst Spst11g00725 Chr11 30414811 30416842 +
Ssu Ssu3g1938 Chr3 61772690 61774952 +
Trre Trre7g02203 Chr7 17557620 17559740 -
Tsu Tsu02g03076 Chr02 34119223 34121767 -
Vian Vian5g00568 Chr5 20399505 20401961 +
Vifa Vifa6g01734 Chr6 650518987 650520831 +
Vimu Vimu5g01061 Chr5 17166023 17167070 +
Viun Viun11g00996 Chr11 20660536 20663354 +
Vivi Vivi5g03570 Chr5 128292212 128294084 -
Pvu Pvu11g1523 Chr11 37969088 37971331 -
Pvu Pvu11g1524 Chr11 38006130 38007938 -
Adu Adu03g01621 Chr03 26265674 26268254 +
Aed Aed5g1053 Chr5 8412808 8415590 -
Ahy Ahy13g1755 Chr13 27956283 27958960 -
Aip Aip03g01958 Chr03 26883018 26885615 -
Amo Amo13g2211 Chr13 37127505 37130103 -
Apr Apr5g0029 Chr5 213571 215305 -
Arst Arst3g02165 Chr3 26604712 26607213 +
Bach Bach9g00651 Chr9 4499961 4501177 -
Bva Bva07g01849 Chr07 16738051 16739295 +
Car Car06g01888 Chr06 18860546 18862409 +
Cca Cca04g01298 Chr04 16223398 16226477 -
Dod Dod03g1934 Chr03 42823463 42824375 -
Gma Gma12g01273 Chr12 17520929 17523105 -
Gma Gma06g02412 Chr06 46220796 46222625 +
Gso Gso12g1154 Chr12 17244659 17246802 -
Gso Gso6g2194 Chr6 42056153 42058372 +
Lal Lal1g0548 Chr1 3524422 3526194 -
Lal Lal2g0543 Chr2 3265057 3267778 -
Lal Lal9g0477 Chr9 3173486 3175299 -
Lan Lan7g0563 Chr7 4296731 4298556 +
Lan Lan13g0561 Chr13 4334716 4336330 -
Lasa Lasa7g02773 Chr7 546270910 546272058 -
Mepo Mepo2g02895 Chr2 38674242 38675922 -
Mesa Mesa13g02161 Chr13 25412818 25414106 +
Mtr Mtr4g2611 Chr4 39612399 39614223 -
Phac Phac11g02009 Chr11 29588935 29591449 -
Phco Phco9g01654 Chr9 39104793 39106284 -
Psa Psa7g3674 Chr7 310738590 310741001 +
Pste Pste1g03787 Chr1 18702728 18704682 -
Pumo Pumo11g00819 Chr11 29469888 29471172 +
Rops Rops3g01682 Chr3 27452210 27453719 -
Seca Seca4g04644 Chr4 86022130 86023939 +
Spst Spst11g00724 Chr11 30407352 30408959 +
Ssu Ssu3g1936 Chr3 61723853 61725319 +
Trre Trre7g02204 Chr7 17564263 17565752 -
Tsu Tsu02g03081 Chr02 34283871 34285646 -
Vian Vian5g00567 Chr5 20380022 20381523 +
Vifa Vifa6g01733 Chr6 650466622 650467664 +
Vimu Vimu5g01057 Chr5 17126777 17129086 +
Viun Viun11g00995 Chr11 20623672 20625583 +
Vivi Vivi5g03572 Chr5 128313851 128315124 -
Pvu Pvu11g1525 Chr11 38136903 38141286 -
Apr Apr5g0030 Chr5 219160 231525 +
Car Car06g01887 Chr06 18847409 18851106 -
Cca Cca04g01300 Chr04 16281190 16285201 +
Dod Dod03g1927 Chr03 42446929 42472617 -
Gma Gma06g02408 Chr06 46168317 46179894 -
Gso Gso12g1162 Chr12 17386684 17402027 -
Gso Gso6g2189 Chr6 41941091 41945086 -
Mepo Mepo2g02897 Chr2 38744455 38747651 +
Mtr Mtr4g2615 Chr4 39651542 39655670 +
Tsu Tsu02g03082 Chr02 34302902 34306731 +
Vra Vra2g1350 Chr2 21497947 21503686 +
Pvu Pvu11g1526 Chr11 38170069 38176211 -
Adu Adu03g01624 Chr03 26380282 26388715 +
Aip Aip03g01959 Chr03 27003811 27012014 +
Amo Amo13g2213 Chr13 37290879 37298627 +
Apr Apr5g0032 Chr5 240929 244305 +
Cca Cca04g01302 Chr04 16353063 16356956 +
Gma Gma12g01279 Chr12 17651465 17666744 -
Gma Gma06g02405 Chr06 46116173 46122909 -
Gso Gso12g1164 Chr12 17603080 17607142 +
Gso Gso6g2187 Chr6 41915481 41919179 +
Lan Lan7g0564 Chr7 4331536 4335219 -
Mal Mal5g2451 Chr5 67711411 67714572 +
Mtr Mtr4g2616 Chr4 39655765 39676444 +
Ssu Ssu3g1935 Chr3 61670190 61672776 -
Tpr Tpr7g1993 Chr7 24456065 24459674 -
Tsu Tsu02g03084 Chr02 34319004 34322252 +
Pvu Pvu11g1527 Chr11 38220960 38221439 -
Tpr Tpr7g1993 Chr7 24456065 24459674 -
Vra Vra2g1350 Chr2 21497947 21503686 +