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
Pvu11g0288 . . . . . . . . . . . . . . . . . . . . . . . . . Gso11g0848 . . . . . . Lapu11g00914 . . . . . Lja3g0300 . . . . . . Phco9g00326 . . . . . . . . . Tpr3g2553 . . . . Vimu5g02557 . Vivi5g03056 Vra2g0276
Pvu11g0289 . . Adu03g00731 . Aev04g3543 . Ahy13g0943 Aip03g01021 . . . Apr5g0470 Arst3g00933 . . . Car06g02137 Cca04g00270 . Dod03g3332 . . Gma12g00243 Gma11g00919 Gso12g0219 Gso11g0849 . . Lal9g0092 . Lan8g1865 . Lapu11g00913 Lasa7g02385 . . . . Lja3g0302 Mal7g2820 Mepo2g02558 Mesa13g02460 . Mtr4g2318 . Phco9g00327 . . Pste1g01117 . . Seca6g00581 Spst2g02715 Ssu3g3036 . Tpr3g2551 Trre7g02500 Tsu02g02700 . Vifa6g01432 Vimu5g02555 . Vivi5g03055 Vra2g0277
Pvu11g0290 . . . . Aev04g3542 . . . . . . . . . . . . Cca04g00273 . Dod03g3329 . . . . . . . . . . . . Lapu11g00909 . . . . . Lja3g0311 . . . . . . . . . . Pumo11g02020 Rops3g00350 . Spst2g02713 . . . . . Vian5g01643 Vifa6g01431 . Viun11g02670 . .
Pvu11g0291 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g00329 . . . . . . . . . . . . . . . . . .
Pvu11g0292 . . . . . . . . . . . . . . . . . . . . . . Gma12g00244 Gma11g00920 Gso12g0220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g3034 . . . . . . Vimu5g02554 . . Vra2g0278
Pvu11g0293 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g0294 . . . . . . . . . . . . . . . . . . . . . . Gma12g00245 . Gso12g0221 . . . . . . . . . . . . . . . . . . . . Phco9g00330 . . . . . . . Ssu3g3032 . . . . . . Vimu5g02552 . . Vra2g0280
Pvu11g0295 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g0296 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g0297 . . Adu03g00728 Aed5g0260 Aev04g3540 . Ahy13g0940 Aip03g01018 . Amo13g1365 . Apr5g0467 Arst3g00928 . . . . Cca04g00281 . Dod03g3327 . . Gma12g00246 . Gso12g0222 . Lal1g0117 . . . . Lan13g0139 Lapu11g00907 . . . . . Lja3g0313 . . . . . . Phco9g00336 . . Pste1g01127 Pumo11g02014 Rops3g00357 Seca6g00588 Spst2g02710 Ssu3g3030 . . . . Vian5g01634 . Vimu5g02550 Viun11g02648 . Vra2g0284
   
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Select Species Gene Chromosome Start End Strand
Vifa Vifa6g01431 Chr6 520758096 520762334 -
Pvu Pvu11g0288 Chr11 2255247 2255662 -
Gso Gso11g0848 Chr11 7586831 7594971 -
Lapu Lapu11g00914 Chr11 11700863 11707212 +
Lja Lja3g0300 Chr3 3123590 3131300 -
Phco Phco9g00326 Chr9 2210326 2219368 -
Tpr Tpr3g2553 Chr3 24695097 24703194 +
Vimu Vimu5g02557 Chr5 35958359 35963757 +
Vivi Vivi5g03056 Chr5 118942352 118947858 +
Vra Vra2g0276 Chr2 2076215 2081581 -
Pvu Pvu11g0289 Chr11 2261183 2264750 -
Adu Adu03g00731 Chr03 6798427 6800713 -
Aev Aev04g3543 Chr04 33472748 33474534 +
Ahy Ahy13g0943 Chr13 10049849 10052149 -
Aip Aip03g01021 Chr03 9783327 9785612 -
Apr Apr5g0470 Chr5 4745292 4748146 -
Arst Arst3g00933 Chr3 6804010 6806279 -
Car Car06g02137 Chr06 21790312 21792757 +
Cca Cca04g00270 Chr04 2605669 2606660 +
Dod Dod03g3332 Chr03 65975472 65978611 -
Gma Gma12g00243 Chr12 1885191 1888439 +
Gma Gma11g00919 Chr11 7695608 7698891 +
Gso Gso12g0219 Chr12 1857618 1867401 +
Gso Gso11g0849 Chr11 7599607 7602951 +
Lal Lal9g0092 Chr9 585458 589772 +
Lan Lan8g1865 Chr8 24945667 24948134 -
Lapu Lapu11g00913 Chr11 11693325 11696418 -
Lasa Lasa7g02385 Chr7 519444070 519447076 -
Lja Lja3g0302 Chr3 3149351 3152746 +
Mal Mal7g2820 Chr7 90711759 90714881 -
Mepo Mepo2g02558 Chr2 35261718 35264686 -
Mesa Mesa13g02460 Chr13 28982755 28985371 +
Mtr Mtr4g2318 Chr4 36654825 36657660 -
Phco Phco9g00327 Chr9 2223226 2226234 -
Pste Pste1g01117 Chr1 3600121 3603626 +
Seca Seca6g00581 Chr6 17380351 17384374 +
Spst Spst2g02715 Chr2 26989051 26992414 -
Ssu Ssu3g3036 Chr3 85849842 85853719 -
Tpr Tpr3g2551 Chr3 24686642 24690445 -
Trre Trre7g02500 Chr7 20549808 20552971 +
Tsu Tsu02g02700 Chr02 28564908 28567995 -
Vifa Vifa6g01432 Chr6 520948629 520951574 +
Vimu Vimu5g02555 Chr5 35947413 35950427 -
Vivi Vivi5g03055 Chr5 118925976 118929102 -
Vra Vra2g0277 Chr2 2084008 2087486 +
Pvu Pvu11g0290 Chr11 2289009 2298616 +
Aev Aev04g3542 Chr04 33464027 33469694 +
Cca Cca04g00273 Chr04 2646656 2649710 +
Dod Dod03g3329 Chr03 65962267 65969142 +
Lapu Lapu11g00909 Chr11 11670517 11675898 -
Lja Lja3g0311 Chr3 3234443 3237946 -
Pumo Pumo11g02020 Chr11 52259564 52268918 +
Rops Rops3g00350 Chr3 4354975 4362050 -
Spst Spst2g02713 Chr2 26972012 26973967 +
Vian Vian5g01643 Chr5 38942677 38947967 +
Vifa Vifa6g01431 Chr6 520758096 520762334 -
Viun Viun11g02670 Chr11 39566062 39574598 +
Pvu Pvu11g0291 Chr11 2299673 2300878 -
Phco Phco9g00329 Chr9 2234950 2238921 -
Pvu Pvu11g0292 Chr11 2305788 2311130 +
Gma Gma12g00244 Chr12 1890987 1897212 -
Gma Gma11g00920 Chr11 7699715 7705120 -
Gso Gso12g0220 Chr12 1869515 1876014 -
Ssu Ssu3g3034 Chr3 85834243 85838776 +
Vimu Vimu5g02554 Chr5 35942414 35946282 +
Vra Vra2g0278 Chr2 2088073 2092530 -
Pvu Pvu11g0293 Chr11 2339341 2343072 -
Pvu Pvu11g0294 Chr11 2354898 2357294 -
Gma Gma12g00245 Chr12 1901137 1906711 -
Gso Gso12g0221 Chr12 1879752 1885336 -
Phco Phco9g00330 Chr9 2246337 2248665 -
Ssu Ssu3g3032 Chr3 85800148 85817713 +
Vimu Vimu5g02552 Chr5 35920070 35922127 -
Vra Vra2g0280 Chr2 2107511 2110187 +
Pvu Pvu11g0295 Chr11 2377173 2377400 -
Pvu Pvu11g0296 Chr11 2430822 2434630 -
Pvu Pvu11g0297 Chr11 2464935 2467681 +
Adu Adu03g00728 Chr03 6769612 6771949 +
Aed Aed5g0260 Chr5 1782995 1784023 +
Aev Aev04g3540 Chr04 33455215 33456987 +
Ahy Ahy13g0940 Chr13 10022944 10025269 +
Aip Aip03g01018 Chr03 9761214 9763547 +
Amo Amo13g1365 Chr13 18181094 18183427 -
Apr Apr5g0467 Chr5 4659191 4662098 +
Arst Arst3g00928 Chr3 6775204 6777563 +
Cca Cca04g00281 Chr04 2718517 2722622 -
Dod Dod03g3327 Chr03 65930245 65932644 +
Gma Gma12g00246 Chr12 1911264 1913782 -
Gso Gso12g0222 Chr12 1889898 1892422 -
Lal Lal1g0117 Chr1 787463 792372 -
Lan Lan13g0139 Chr13 814250 817064 -
Lapu Lapu11g00907 Chr11 11658126 11660723 +
Lja Lja3g0313 Chr3 3264022 3266822 -
Phco Phco9g00336 Chr9 2333051 2335157 -
Pste Pste1g01127 Chr1 3632563 3635000 -
Pumo Pumo11g02014 Chr11 52199112 52201641 +
Rops Rops3g00357 Chr3 4444748 4446816 -
Seca Seca6g00588 Chr6 17575313 17581715 -
Spst Spst2g02710 Chr2 26901202 26903283 +
Ssu Ssu3g3030 Chr3 85783211 85785460 +
Vian Vian5g01634 Chr5 38882839 38884915 +
Vimu Vimu5g02550 Chr5 35888493 35894036 +
Viun Viun11g02648 Chr11 39311239 39313693 +
Vra Vra2g0284 Chr2 2154628 2156946 -