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
Pvu9g2718 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g03084 . . . . . . . . . . . . . . Vimu10g00009 . . Vra5g0008
Pvu9g2719 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g0001 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g0002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g0003 Acco07g2045 . Adu02g01963 Aed2g1124 Aev02g1852 Ahy12g2041 Ahy2g1768 Aip02g02275 Alju05g0147 Amo12g2300 Amo02g2531 Apr10g0739 Arst2g02560 Bach6g01717 Bisa06g0208 Bva02g00339 Car06g02505 Cca01g01897 Dere11g0171 Dod07g1542 Enph10g0773 Glsi07g2046 Gma03g00446 Gma01g01226 Gso1g1020 Gso3g0700 . . . . . . . . Lele37g1318 Lele38g1212 Lele39g0093 Lele40g1151 Lja3g3323 Mal7g0349 Mepo2g00446 Mesa13g05049 Mibi04g2031 Mtr4g0416 . Phco1g01295 Prci12g0174 Psa7g5629 Pste6g00782 Pumo7g01545 Rops4g00995 Seca2g01517 . Ssu4g2377 Sto1g2258 Tpr4g0737 Trre7g00440 Tsu06g00421 Vian9g01052 Vifa2g05344 Vimu9g00771 Viun10g01207 Vivi5g00628 Vra9g1250
Pvu10g0004 . . Adu02g01960 Aed2g1128 Aev02g1848 Ahy12g2039 Ahy2g1765 Aip02g02270 . Amo12g2295 Amo02g2528 Apr10g0738 . . . Bva02g00337 Car06g02506 Cca01g01895 . Dod07g1539 . . Gma03g00450 . . Gso3g0462 Lal14g0013 . . Lan12g0230 . . . . . . . . Lja3g3322 . . . . Mtr4g0418 . . . Psa7g5689 . . . . . Ssu4g2376 Sto1g2263 . . . . . . . . Vra9g1251
Pvu10g0005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu10g0006 Acco07g2039 Accr6g01720 Adu02g01959 Aed2g1134 Aev02g1847 Ahy12g2036 Ahy2g1764 Aip02g02269 Alju05g0152 Amo12g2289 Amo02g2526 Apr10g0737 Arst2g02554 Bach6g01713 Bisa06g0214 Bva02g00335 Car06g02507 Cca01g01893 Dere11g0175 Dod07g1538 Enph10g0778 Glsi07g2042 Gma03g00456 . . Gso3g0466 . . . . . . . . Lele37g1313 . Lele39g0099 Lele40g1147 Lja3g3321 . Mepo2g00451 . Mibi04g2025 Mtr4g0419 . Phco1g01411 Prci12g0178 Psa7g5623 Pste6g00808 Pumo7g01541 Rops4g00993 Seca2g01527 . Ssu4g2375 Sto1g2265 Tpr4g0739 Trre7g00444 . Vian9g01056 Vifa2g05342 Vimu9g00778 . Vivi5g00610 Vra9g1254
Pvu10g0007 . . Adu02g01958 Aed2g1135 Aev02g1846 Ahy12g2035 Ahy2g1763 Aip02g02268 . Amo12g2285 Amo02g2525 Apr10g0736 Arst2g02553 . . Bva02g00334 Car06g02508 Cca01g01892 . Dod07g1537 . . Gma03g00458 . . Gso3g0467 Lal14g0012 . . Lan12g0231 . . . . . . . . Lja3g3319 . Mepo2g00452 . . Mtr4g0420 . . . Psa7g5618 Pste6g00814 . Rops4g00992 Seca2g01529 . Ssu4g2373 . Tpr4g0740 Trre7g00447 Tsu06g00524 . Vifa2g05341 . Viun10g01203 Vivi5g00611 .
Pvu10g0008 Acco07g2037 . Adu02g01957 Aed2g1136 Aev02g1845 Ahy12g2034 Ahy2g1762 Aip02g02267 Alju05g0155 Amo12g2284 Amo02g2524 Apr10g0735 Arst2g02552 Bach6g01712 Bisa06g0215 Bva02g00333 Car06g02509 Cca01g01891 Dere11g0177 Dod07g1535 Enph10g0780 Glsi07g2040 Gma03g00459 . . Gso3g0468 . Lal7g0119 . . . . . . Lele37g1310 Lele38g1204 Lele39g0101 Lele40g1145 Lja3g3318 . Mepo2g00453 . Mibi04g2023 Mtr4g0421 . Phco1g01291 Prci12g0182 Psa7g5617 Pste6g00817 Pumo7g01540 Rops4g00990 Seca4g10780 . Ssu4g2372 Sto1g2267 Tpr4g0741 Trre7g00448 . Vian9g01057 Vifa2g05340 Vimu9g00779 Viun10g01195 Vivi5g00612 Vra9g1255
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu9g2718 Chr9 37452716 37454011 -
Phco Phco7g03084 Chr7 49289351 49299214 -
Vimu Vimu10g00009 Chr10 83807 93320 -
Vra Vra5g0008 Chr5 75968 86149 -
Pvu Pvu9g2719 Chr9 37457507 37463349 -
Pvu Pvu10g0001 Chr10 45184 45298 -
Pvu Pvu10g0002 Chr10 46508 46904 -
Pvu Pvu10g0003 Chr10 72496 74257 -
Acco Acco07g2045 Chr07 38230445 38232462 +
Adu Adu02g01963 Chr02 81809618 81811203 +
Aed Aed2g1124 Chr2 9229685 9231806 -
Aev Aev02g1852 Chr02 20453402 20454940 +
Ahy Ahy12g2041 Chr12 104465389 104467072 +
Ahy Ahy2g1768 Chr2 89983945 89985593 +
Aip Aip02g02275 Chr02 95016786 95018399 +
Alju Alju05g0147 Chr05 2149701 2151287 -
Amo Amo12g2300 Chr12 103821043 103822453 +
Amo Amo02g2531 Chr02 79289301 79290907 +
Apr Apr10g0739 Chr10 18736615 18738507 +
Arst Arst2g02560 Chr2 81259614 81261081 +
Bach Bach6g01717 Chr6 26944565 26946239 +
Bisa Bisa06g0208 Chr06 5356157 5357659 -
Bva Bva02g00339 Chr02 5118373 5120071 +
Car Car06g02505 Chr06 28926601 28928529 -
Cca Cca01g01897 Chr01 44488781 44491274 +
Dere Dere11g0171 Chr11 2871246 2873703 -
Dod Dod07g1542 Chr07 41901085 41908805 +
Enph Enph10g0773 Chr10 10343617 10345588 -
Glsi Glsi07g2046 Chr07 64685607 64686921 +
Gma Gma03g00446 Chr03 7856369 7858410 -
Gma Gma01g01226 Chr01 43179491 43180851 -
Gso Gso1g1020 Chr1 41475091 41477035 -
Gso Gso3g0700 Chr3 21471322 21472825 -
Lele Lele37g1318 Chr37 22238515 22239942 +
Lele Lele38g1212 Chr38 23106009 23107486 +
Lele Lele39g0093 Chr39 630173 631603 -
Lele Lele40g1151 Chr40 21586069 21587557 +
Lja Lja3g3323 Chr3 65501422 65503113 +
Mal Mal7g0349 Chr7 7567185 7568884 -
Mepo Mepo2g00446 Chr2 5269969 5271786 -
Mesa Mesa13g05049 Chr13 80563884 80565946 +
Mibi Mibi04g2031 Chr04 51412127 51414196 +
Mtr Mtr4g0416 Chr4 4991169 4993450 -
Phco Phco1g01295 Chr1 26657144 26662934 +
Prci Prci12g0174 Chr12 1288727 1290340 -
Psa Psa7g5629 Chr7 478522578 478524050 +
Pste Pste6g00782 Chr6 2989464 2991159 -
Pumo Pumo7g01545 Chr7 39383785 39385187 +
Rops Rops4g00995 Chr4 27077113 27078713 +
Seca Seca2g01517 Chr2 26750181 26751763 -
Ssu Ssu4g2377 Chr4 58477155 58478475 +
Sto Sto1g2258 Chr1 30586979 30588216 -
Tpr Tpr4g0737 Chr4 6879267 6881427 -
Trre Trre7g00440 Chr7 2757326 2758685 -
Tsu Tsu06g00421 Chr06 3597170 3604453 -
Vian Vian9g01052 Chr9 21370047 21371400 -
Vifa Vifa2g05344 Chr2 1590765588 1590766583 +
Vimu Vimu9g00771 Chr9 11863744 11865103 -
Viun Viun10g01207 Chr10 22433821 22435714 +
Vivi Vivi5g00628 Chr5 11539484 11541525 +
Vra Vra9g1250 Chr9 19681984 19684195 -
Pvu Pvu10g0004 Chr10 176098 179443 -
Adu Adu02g01960 Chr02 81581513 81586512 -
Aed Aed2g1128 Chr2 9298000 9302338 +
Aev Aev02g1848 Chr02 20307026 20312345 -
Ahy Ahy12g2039 Chr12 104236200 104241394 -
Ahy Ahy2g1765 Chr2 89802529 89807751 -
Aip Aip02g02270 Chr02 94812999 94819074 -
Amo Amo12g2295 Chr12 103676199 103681365 -
Amo Amo02g2528 Chr02 79107889 79113072 -
Apr Apr10g0738 Chr10 18607195 18610787 -
Bva Bva02g00337 Chr02 5070908 5074187 -
Car Car06g02506 Chr06 29024428 29030007 +
Cca Cca01g01895 Chr01 44303689 44307512 -
Dod Dod07g1539 Chr07 41802641 41806187 -
Gma Gma03g00450 Chr03 8010321 8014179 +
Gso Gso3g0462 Chr3 8246869 8251054 +
Lal Lal14g0013 Chr14 183717 187995 -
Lan Lan12g0230 Chr12 4687533 4691846 +
Lja Lja3g3322 Chr3 65413191 65417220 -
Mtr Mtr4g0418 Chr4 5043136 5049082 +
Psa Psa7g5689 Chr7 480335776 480340221 -
Ssu Ssu4g2376 Chr4 58249770 58253460 -
Sto Sto1g2263 Chr1 30639728 30642538 +
Vra Vra9g1251 Chr9 19779606 19782593 -
Pvu Pvu10g0005 Chr10 373046 373546 -
Pvu Pvu10g0006 Chr10 376690 379801 -
Acco Acco07g2039 Chr07 38105795 38108592 +
Accr Accr6g01720 Chr6 52056587 52057051 -
Adu Adu02g01959 Chr02 81547881 81551892 +
Aed Aed2g1134 Chr2 9383603 9386939 -
Aev Aev02g1847 Chr02 20294248 20297413 +
Ahy Ahy12g2036 Chr12 104134942 104138992 +
Ahy Ahy2g1764 Chr2 89767393 89771445 +
Aip Aip02g02269 Chr02 94732803 94736937 +
Alju Alju05g0152 Chr05 2228363 2235074 -
Amo Amo12g2289 Chr12 103300493 103304659 +
Amo Amo02g2526 Chr02 79072756 79076949 +
Apr Apr10g0737 Chr10 18543526 18546419 +
Arst Arst2g02554 Chr2 80997851 81001706 +
Bach Bach6g01713 Chr6 26838804 26842639 +
Bisa Bisa06g0214 Chr06 5478269 5482668 -
Bva Bva02g00335 Chr02 5038625 5043220 +
Car Car06g02507 Chr06 29064051 29067666 -
Cca Cca01g01893 Chr01 44253068 44260892 +
Dere Dere11g0175 Chr11 2940451 2943386 -
Dod Dod07g1538 Chr07 41750726 41760005 +
Enph Enph10g0778 Chr10 10416573 10420577 -
Glsi Glsi07g2042 Chr07 64622239 64625841 +
Gma Gma03g00456 Chr03 8077341 8080946 -
Gso Gso3g0466 Chr3 8314139 8317605 -
Lele Lele37g1313 Chr37 22194043 22197901 +
Lele Lele39g0099 Chr39 674188 677155 -
Lele Lele40g1147 Chr40 21528300 21535580 +
Lja Lja3g3321 Chr3 65387677 65391167 +
Mepo Mepo2g00451 Chr2 5347219 5351117 -
Mibi Mibi04g2025 Chr04 51292350 51295239 +
Mtr Mtr4g0419 Chr4 5054920 5058542 -
Phco Phco1g01411 Chr1 47308422 47311090 -
Prci Prci12g0178 Chr12 1383003 1386282 -
Psa Psa7g5623 Chr7 478339853 478343298 +
Pste Pste6g00808 Chr6 3110009 3114403 -
Pumo Pumo7g01541 Chr7 39250317 39253846 +
Rops Rops4g00993 Chr4 26914542 26917743 +
Seca Seca2g01527 Chr2 27063349 27068632 -
Ssu Ssu4g2375 Chr4 58122619 58124575 +
Sto Sto1g2265 Chr1 30655240 30658583 -
Tpr Tpr4g0739 Chr4 6918777 6921993 -
Trre Trre7g00444 Chr7 2771332 2773566 -
Vian Vian9g01056 Chr9 21590413 21593258 +
Vifa Vifa2g05342 Chr2 1590613280 1590615893 +
Vimu Vimu9g00778 Chr9 12158667 12160639 +
Vivi Vivi5g00610 Chr5 11132146 11135160 -
Vra Vra9g1254 Chr9 19922309 19925554 +
Pvu Pvu10g0007 Chr10 385574 389675 -
Adu Adu02g01958 Chr02 81542528 81546356 +
Aed Aed2g1135 Chr2 9390595 9395444 -
Aev Aev02g1846 Chr02 20284577 20286934 +
Ahy Ahy12g2035 Chr12 104112927 104116722 +
Ahy Ahy2g1763 Chr2 89761988 89765696 +
Aip Aip02g02268 Chr02 94710910 94714807 +
Amo Amo12g2285 Chr12 103278590 103282497 +
Amo Amo02g2525 Chr02 79067364 79071151 +
Apr Apr10g0736 Chr10 18515760 18521468 +
Arst Arst2g02553 Chr2 80992406 80996045 +
Bva Bva02g00334 Chr02 5033920 5037084 +
Car Car06g02508 Chr06 29072049 29075968 -
Cca Cca01g01892 Chr01 44233508 44237141 +
Dod Dod07g1537 Chr07 41735853 41739683 +
Gma Gma03g00458 Chr03 8131917 8136838 -
Gso Gso3g0467 Chr3 8360521 8365462 -
Lal Lal14g0012 Chr14 157312 163569 +
Lan Lan12g0231 Chr12 4738449 4741053 -
Lja Lja3g3319 Chr3 65365688 65369355 +
Mepo Mepo2g00452 Chr2 5356335 5360280 -
Mtr Mtr4g0420 Chr4 5063530 5067437 -
Psa Psa7g5618 Chr7 478204129 478206985 +
Pste Pste6g00814 Chr6 3123853 3128761 -
Rops Rops4g00992 Chr4 26891133 26894771 +
Seca Seca2g01529 Chr2 27130777 27134497 -
Ssu Ssu4g2373 Chr4 58088382 58091964 +
Tpr Tpr4g0740 Chr4 6925704 6929056 -
Trre Trre7g00447 Chr7 2780717 2783799 -
Tsu Tsu06g00524 Chr06 4413735 4415899 +
Vifa Vifa2g05341 Chr2 1590115790 1590118902 +
Viun Viun10g01203 Chr10 22073664 22077635 -
Vivi Vivi5g00611 Chr5 11140917 11144070 -
Pvu Pvu10g0008 Chr10 394815 416387 -
Acco Acco07g2037 Chr07 38078378 38096440 +
Adu Adu02g01957 Chr02 81527869 81540167 +
Aed Aed2g1136 Chr2 9397482 9411997 -
Aev Aev02g1845 Chr02 20269967 20281964 +
Ahy Ahy12g2034 Chr12 104098678 104111419 +
Ahy Ahy2g1762 Chr2 89747160 89759596 +
Aip Aip02g02267 Chr02 94677495 94690160 +
Alju Alju05g0155 Chr05 2243131 2255705 -
Amo Amo12g2284 Chr12 103264536 103274757 +
Amo Amo02g2524 Chr02 79052615 79065144 +
Apr Apr10g0735 Chr10 18466512 18495107 +
Arst Arst2g02552 Chr2 80977712 80990028 +
Bach Bach6g01712 Chr6 26817805 26834035 +
Bisa Bisa06g0215 Chr06 5499640 5516879 -
Bva Bva02g00333 Chr02 5017602 5033123 +
Car Car06g02509 Chr06 29124575 29141457 -
Cca Cca01g01891 Chr01 44215701 44228475 +
Dere Dere11g0177 Chr11 2952567 2973752 -
Dod Dod07g1535 Chr07 41718572 41732207 +
Enph Enph10g0780 Chr10 10430303 10446509 -
Glsi Glsi07g2040 Chr07 64595238 64611956 +
Gma Gma03g00459 Chr03 8202990 8224908 -
Gso Gso3g0468 Chr3 8412069 8427968 -
Lal Lal7g0119 Chr7 1301566 1307278 -
Lele Lele37g1310 Chr37 22176136 22189075 +
Lele Lele38g1204 Chr38 23027246 23032568 +
Lele Lele39g0101 Chr39 681991 698553 -
Lele Lele40g1145 Chr40 21518048 21522076 +
Lja Lja3g3318 Chr3 65344930 65364478 +
Mepo Mepo2g00453 Chr2 5368916 5382671 -
Mibi Mibi04g2023 Chr04 51271843 51283573 +
Mtr Mtr4g0421 Chr4 5071816 5086753 -
Phco Phco1g01291 Chr1 23401945 23433198 +
Prci Prci12g0182 Chr12 1398364 1411448 -
Psa Psa7g5617 Chr7 478176095 478197554 +
Pste Pste6g00817 Chr6 3138767 3155172 -
Pumo Pumo7g01540 Chr7 39220326 39235753 +
Rops Rops4g00990 Chr4 26833859 26858103 +
Seca Seca4g10780 Chr4 244959430 244976902 +
Ssu Ssu4g2372 Chr4 58066304 58082079 +
Sto Sto1g2267 Chr1 30666636 30679066 -
Tpr Tpr4g0741 Chr4 6932850 6946703 -
Trre Trre7g00448 Chr7 2787101 2799422 -
Vian Vian9g01057 Chr9 21602259 21643709 +
Vifa Vifa2g05340 Chr2 1590072509 1590087419 +
Vimu Vimu9g00779 Chr9 12181671 12185062 +
Viun Viun10g01195 Chr10 21897521 21928887 +
Vivi Vivi5g00612 Chr5 11150400 11167601 -
Vra Vra9g1255 Chr9 19934348 19962472 +
Phco Phco1g01295 Chr1 26657144 26662934 +