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
Pvu10g1059 . . Adu02g00159 Aed2g0650 Aev02g0273 Ahy12g0096 Ahy2g0146 Aip02g00099 . . Amo02g0394 Apr10g1309 Arst2g00209 Bach6g00660 . Bva02g01931 Car07g02774 Cca01g02297 . Dod07g1972 . . Gma07g00620 Gma16g00303 Gso7g0590 Gso16g0277 . Lal22g0867 Lal18g0489 . Lan9g0706 Lan2g0157 . . . . . . Lja3g1864 Mal5g1302 Mepo1g03789 Mesa29g04411 . Mtr8g0907 Phac10g01280 . . Psa4g4878 Pste6g02027 . Rops4g01521 Seca2g00946 Spst4g01852 . . Tpr5g1325 Trre15g01136 Tsu08g01037 Vian9g00642 Vifa4g00919 Vimu9g00265 Viun10g01946 Vivi7g04387 Vra9g0549
Pvu10g1060 . . . Aed2g0649 . . . . . . . . . . . . . Cca01g02298 . . . . . Gma16g00302 . Gso16g0276 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g1061 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g1062 . . . . . . . . . . . . . . . . . Cca01g02299 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra9g0547
Pvu10g1063 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g1064 . . Adu02g00163 Aed2g0648 . Ahy12g0106 Ahy2g0153 Aip02g00102 . Amo12g0015 Amo02g0389 . Arst2g00217 Bach6g00656 . Bva02g01937 . Cca01g02301 . . . . Gma07g00618 Gma16g00301 . Gso16g0275 . . . . . . Lapu10g00146 . . . . . Lja3g1861 . . . . . . Phco1g00740 . . Pste6g02021 . Rops4g01524 Seca4g11341 Spst4g01854 Ssu4g2824 . . . . . . Vimu9g00261 Viun10g01950 . Vra9g0546
Pvu10g1065 . . Adu02g00186 Aed2g0647 Aev02g0265 Ahy12g0123 Ahy2g0162 Aip02g00128 . . . Apr10g1308 Arst2g00237 . . . Car07g02776 Cca01g02302 . Dod07g1975 . . Gma07g00617 Gma16g00300 Gso7g0589 Gso16g0274 Lal6g0984 Lal22g0875 . Lan11g0954 Lan9g0709 . Lapu10g00147 Lasa4g00889 . . . . Lja3g1860 Mal5g1300 Mepo1g03791 Mesa29g04413 . Mtr8g0905 Phac10g01284 Phco1g00739 . Psa4g4881 Pste6g02020 Pumo7g00794 Rops4g01525 Seca2g00943 Spst4g01855 Ssu4g2825 . Tpr5g1329 Trre15g01134 Tsu08g01036 Vian9g00638 Vifa4g00921 Vimu9g00260 Viun10g01951 Vivi7g04386 Vra9g0545
Pvu10g1066 . . . . . . . . . . . . . Bach6g00653 . Bva02g01941 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco1g00738 . . . . . . . . . . . . . . Vimu9g00259 . . .
Pvu10g1067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco1g00737 . . . . . . . . . . . . . . Vimu9g00258 . . Vra9g0544
Pvu10g1068 . . . Aed2g0646 . . . . . . Amo02g0369 Apr10g1307 . . . . Car07g02777 Cca01g02303 . Dod07g1978 . . Gma07g00615 Gma16g00299 Gso7g0588 Gso16g0273 . Lal22g0877 Lal18g0486 . Lan9g0711 Lan2g0160 Lapu10g00149 Lasa4g00887 . . . . Lja3g1859 Mal5g1299 Mepo1g03792 Mesa29g04416 . Mtr8g0904 Phac10g01290 Phco1g00736 . Psa4g3633 Pste6g02017 Pumo7g00792 Rops4g01526 Seca4g11344 Spst4g01856 Ssu4g2826 . Tpr5g1333 Trre15g01132 Tsu08g01034 Vian9g00635 Vifa4g00924 Vimu9g00257 Viun10g01953 Vivi7g04385 Vra9g0542
   
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Select Species Gene Chromosome Start End Strand
Pste Pste6g02027 Chr6 9482457 9485113 +
Aev Aev02g0273 Chr02 1965557 1971354 +
Lal Lal6g0984 Chr6 6986743 6991804 -
Vivi Vivi7g04386 Chr7 113791740 113795981 +
Vivi Vivi7g04387 Chr7 113827780 113832071 +
Pvu Pvu10g1059 Chr10 35872578 35878244 -
Adu Adu02g00159 Chr02 1794512 1801738 -
Aed Aed2g0650 Chr2 4694009 4697388 +
Aev Aev02g0273 Chr02 1965557 1971354 +
Ahy Ahy12g0096 Chr12 1976479 1984131 -
Ahy Ahy2g0146 Chr2 1631600 1639416 -
Aip Aip02g00099 Chr02 1778132 1791118 -
Amo Amo02g0394 Chr02 4848781 4856534 +
Apr Apr10g1309 Chr10 25409598 25413531 +
Arst Arst2g00209 Chr2 1775273 1782420 -
Bach Bach6g00660 Chr6 4863372 4868250 +
Bva Bva02g01931 Chr02 20752039 20756026 -
Car Car07g02774 Chr07 53266781 53272377 -
Cca Cca01g02297 Chr01 51432633 51439635 -
Dod Dod07g1972 Chr07 50326445 50328391 -
Gma Gma07g00620 Chr07 6359239 6363738 +
Gma Gma16g00303 Chr16 3197927 3201896 +
Gso Gso7g0590 Chr7 6236120 6240518 +
Gso Gso16g0277 Chr16 3120502 3125590 +
Lal Lal22g0867 Chr22 6672387 6676908 -
Lal Lal18g0489 Chr18 4049796 4052423 +
Lan Lan9g0706 Chr9 10806571 10816686 -
Lan Lan2g0157 Chr2 1332276 1338549 -
Lja Lja3g1864 Chr3 21284827 21288783 +
Mal Mal5g1302 Chr5 22707349 22711566 +
Mepo Mepo1g03789 Chr1 44113021 44118993 -
Mesa Mesa29g04411 Chr29 72724533 72726575 -
Mtr Mtr8g0907 Chr8 11166353 11172180 +
Phac Phac10g01280 Chr10 35318972 35324790 -
Psa Psa4g4878 Chr4 422039990 422044431 +
Pste Pste6g02027 Chr6 9482457 9485113 +
Rops Rops4g01521 Chr4 38155197 38160154 -
Seca Seca2g00946 Chr2 15240283 15245453 +
Spst Spst4g01852 Chr4 58854469 58858280 -
Tpr Tpr5g1325 Chr5 25919984 25924744 -
Trre Trre15g01136 Chr15 8797700 8801332 +
Tsu Tsu08g01037 Chr08 11376735 11381082 +
Vian Vian9g00642 Chr9 7832663 7847943 +
Vifa Vifa4g00919 Chr4 266380906 266386765 -
Vimu Vimu9g00265 Chr9 3208849 3213089 +
Viun Viun10g01946 Chr10 34154027 34158318 -
Vivi Vivi7g04387 Chr7 113827780 113832071 +
Vra Vra9g0549 Chr9 5981346 5987180 +
Pvu Pvu10g1060 Chr10 35897953 35899928 +
Aed Aed2g0649 Chr2 4688559 4690055 -
Cca Cca01g02298 Chr01 51459141 51461039 +
Gma Gma16g00302 Chr16 3191886 3194184 -
Gso Gso16g0276 Chr16 3115429 3117712 -
Pvu Pvu10g1061 Chr10 35908242 35910360 +
Pvu Pvu10g1062 Chr10 35914907 35916655 +
Cca Cca01g02299 Chr01 51477398 51479633 +
Vra Vra9g0547 Chr9 5944801 5946407 -
Pvu Pvu10g1063 Chr10 35918682 35920511 +
Pvu Pvu10g1064 Chr10 35927257 35928843 +
Adu Adu02g00163 Chr02 1832585 1836049 +
Aed Aed2g0648 Chr2 4685530 4686893 -
Ahy Ahy12g0106 Chr12 2085776 2087625 -
Ahy Ahy2g0153 Chr2 1706675 1708380 +
Aip Aip02g00102 Chr02 1811372 1815466 +
Amo Amo12g0015 Chr12 324966 344001 -
Amo Amo02g0389 Chr02 4814178 4817031 -
Arst Arst2g00217 Chr2 1874725 1876122 +
Bach Bach6g00656 Chr6 4844501 4845793 +
Bva Bva02g01937 Chr02 20772211 20773491 -
Cca Cca01g02301 Chr01 51482555 51483022 +
Gma Gma07g00618 Chr07 6351573 6351943 -
Gma Gma16g00301 Chr16 3187487 3188961 -
Gso Gso16g0275 Chr16 3110522 3112535 -
Lapu Lapu10g00146 Chr10 3256072 3257427 +
Lja Lja3g1861 Chr3 21211245 21212576 -
Phco Phco1g00740 Chr1 6762607 6763962 -
Pste Pste6g02021 Chr6 9448534 9449889 -
Rops Rops4g01524 Chr4 38186910 38187653 +
Seca Seca4g11341 Chr4 252007348 252008727 +
Spst Spst4g01854 Chr4 58873720 58875415 +
Ssu Ssu4g2824 Chr4 72085734 72086330 +
Vimu Vimu9g00261 Chr9 3133746 3135098 -
Viun Viun10g01950 Chr10 34227933 34229424 +
Vra Vra9g0546 Chr9 5932194 5934677 -
Pvu Pvu10g1065 Chr10 35929255 35932467 -
Adu Adu02g00186 Chr02 2184395 2190552 +
Aed Aed2g0647 Chr2 4681014 4686932 +
Aev Aev02g0265 Chr02 1918619 1922808 -
Ahy Ahy12g0123 Chr12 2513488 2519922 +
Ahy Ahy2g0162 Chr2 1913955 1920353 +
Aip Aip02g00128 Chr02 2250257 2256274 +
Apr Apr10g1308 Chr10 25401661 25406337 +
Arst Arst2g00237 Chr2 2165140 2171281 +
Car Car07g02776 Chr07 53331419 53336351 -
Cca Cca01g02302 Chr01 51483669 51487601 -
Dod Dod07g1975 Chr07 50522462 50528945 -
Gma Gma07g00617 Chr07 6345773 6350838 +
Gma Gma16g00300 Chr16 3181334 3186133 +
Gso Gso7g0589 Chr7 6223035 6228109 +
Gso Gso16g0274 Chr16 3104936 3109754 +
Lal Lal6g0984 Chr6 6986743 6991804 -
Lal Lal22g0875 Chr22 6784192 6789437 -
Lan Lan11g0954 Chr11 9771188 9776453 -
Lan Lan9g0709 Chr9 10871872 10878615 -
Lapu Lapu10g00147 Chr10 3257563 3261535 -
Lasa Lasa4g00889 Chr4 43096877 43100184 +
Lja Lja3g1860 Chr3 21206461 21211217 +
Mal Mal5g1300 Chr5 22679974 22685356 +
Mepo Mepo1g03791 Chr1 44144076 44148771 -
Mesa Mesa29g04413 Chr29 72760915 72765496 -
Mtr Mtr8g0905 Chr8 11142716 11147077 +
Phac Phac10g01284 Chr10 35375260 35378579 -
Phco Phco1g00739 Chr1 6759141 6761875 +
Psa Psa4g4881 Chr4 422115715 422119482 -
Pste Pste6g02020 Chr6 9443990 9447955 +
Pumo Pumo7g00794 Chr7 14016055 14021122 +
Rops Rops4g01525 Chr4 38188248 38192459 -
Seca Seca2g00943 Chr2 15194464 15200773 +
Spst Spst4g01855 Chr4 58882611 58885523 -
Ssu Ssu4g2825 Chr4 72090083 72095691 -
Tpr Tpr5g1329 Chr5 25997653 26003783 -
Trre Trre15g01134 Chr15 8784090 8788188 +
Tsu Tsu08g01036 Chr08 11361584 11367019 +
Vian Vian9g00638 Chr9 7803875 7806707 +
Vifa Vifa4g00921 Chr4 267448879 267452806 -
Vimu Vimu9g00260 Chr9 3130259 3135514 +
Viun Viun10g01951 Chr10 34231110 34234357 -
Vivi Vivi7g04386 Chr7 113791740 113795981 +
Vra Vra9g0545 Chr9 5928523 5932062 +
Pvu Pvu10g1066 Chr10 35935425 35937264 +
Bach Bach6g00653 Chr6 4831586 4832677 -
Bva Bva02g01941 Chr02 20782766 20784185 +
Phco Phco1g00738 Chr1 6754635 6755690 -
Vimu Vimu9g00259 Chr9 3110975 3112039 -
Pvu Pvu10g1067 Chr10 35938015 35938383 -
Phco Phco1g00737 Chr1 6752828 6754434 +
Vimu Vimu9g00258 Chr9 3109242 3109628 +
Vra Vra9g0544 Chr9 5910658 5911034 +
Pvu Pvu10g1068 Chr10 35939785 35945693 +
Aed Aed2g0646 Chr2 4675728 4680233 -
Amo Amo02g0369 Chr02 4534038 4536960 +
Apr Apr10g1307 Chr10 25390912 25396480 -
Car Car07g02777 Chr07 53342852 53348345 +
Cca Cca01g02303 Chr01 51498906 51515734 +
Dod Dod07g1978 Chr07 50564759 50574647 +
Gma Gma07g00615 Chr07 6335214 6339016 -
Gma Gma16g00299 Chr16 3173798 3178032 -
Gso Gso7g0588 Chr7 6212225 6216616 -
Gso Gso16g0273 Chr16 3097086 3102443 -
Lal Lal22g0877 Chr22 6820483 6825276 +
Lal Lal18g0486 Chr18 4028930 4034303 +
Lan Lan9g0711 Chr9 10965387 10969476 +
Lan Lan2g0160 Chr2 1356561 1361855 -
Lapu Lapu10g00149 Chr10 3266547 3272121 +
Lasa Lasa4g00887 Chr4 43054216 43057696 -
Lja Lja3g1859 Chr3 21195502 21200697 -
Mal Mal5g1299 Chr5 22651182 22655788 -
Mepo Mepo1g03792 Chr1 44156136 44161973 +
Mesa Mesa29g04416 Chr29 72793425 72797141 +
Mtr Mtr8g0904 Chr8 11132604 11138474 -
Phac Phac10g01290 Chr10 35387117 35392830 +
Phco Phco1g00736 Chr1 6745352 6751094 -
Psa Psa4g3633 Chr4 305211093 305217060 +
Pste Pste6g02017 Chr6 9432667 9438316 -
Pumo Pumo7g00792 Chr7 13999890 14007532 -
Rops Rops4g01526 Chr4 38215870 38221837 +
Seca Seca4g11344 Chr4 252024152 252030667 +
Spst Spst4g01856 Chr4 58901157 58906175 +
Ssu Ssu4g2826 Chr4 72123413 72128383 +
Tpr Tpr5g1333 Chr5 26042815 26047959 +
Trre Trre15g01132 Chr15 8776552 8780782 -
Tsu Tsu08g01034 Chr08 11352105 11357064 -
Vian Vian9g00635 Chr9 7779309 7783771 -
Vifa Vifa4g00924 Chr4 268977467 268979274 +
Vimu Vimu9g00257 Chr9 3102948 3107123 -
Viun Viun10g01953 Chr10 34242385 34247547 +
Vivi Vivi7g04385 Chr7 113767021 113770984 -
Vra Vra9g0542 Chr9 5903717 5908826 -