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Integrating Genetics and Genomics to Advance Soybean Research



Sequences for the PCR Primers Used to Amplify SSR Loci in Soybean

These primers were developed by Perry Cregan (Soybean and Alfalfa Research Laboratory, USDA-ARS, Beltsville, MD) with extramural financial support from the United Soybean Board and the able technical assistance of Edward Fickus, Sarah Hyatt, Charles Quigley, Patrick Elia, Susan Fogarty, Jason Kenworthy, and Chris Lee.

PCR conditions for using these primers can be found here.

You can browse through the entire list or use these links to go to a particular section

SattSatScttSctSatgtScaaStagaOther Types

Click on an entry to view the primer sequences

Satt001Satt002Satt005Satt006Satt009Satt012Satt014Satt020Satt022Satt030
Satt031Satt032Satt038Satt041Satt042Satt045Satt046Satt049Satt050Satt052
Satt055Satt063Satt066Satt070Satt071Satt072Satt073Satt076Satt077Satt079
Satt080Satt082Satt083Satt089Satt094Satt095Satt100Satt102Satt114Satt115
Satt117Satt119Satt122Satt123Satt124Satt125Satt126Satt127Satt128Satt129
Satt130Satt131Satt132Satt133Satt134Satt135Satt136Satt137Satt138Satt139
Satt141Satt142Satt143Satt144Satt145Satt146Satt147Satt148Satt149Satt150
Satt151Satt152Satt153Satt154Satt155Satt156Satt157Satt158Satt159Satt160
Satt161Satt162Satt163Satt164Satt165Satt166Satt167Satt168Satt169Satt170
Satt172Satt173Satt174Satt175Satt177Satt178Satt179Satt180Satt181Satt182
Satt183Satt184Satt185Satt186Satt187Satt188Satt189Satt190Satt191Satt192
Satt193Satt194Satt195Satt196Satt197Satt198Satt199Satt200Satt201Satt202
Satt203Satt204Satt206Satt207Satt208Satt209Satt210Satt211Satt212Satt213
Satt215Satt216Satt217Satt218Satt220Satt221Satt222Satt225Satt226Satt227
Satt228Satt229Satt230Satt231Satt232Satt233Satt234Satt235Satt236Satt237
Satt238Satt239Satt240Satt241Satt242Satt243Satt244Satt245Satt247Satt248
Satt249Satt250Satt251Satt252Satt253Satt254Satt255Satt256Satt257Satt258
Satt259Satt260Satt262Satt263Satt264Satt266Satt267Satt268Satt269Satt270
Satt271Satt272Satt273Satt274Satt275Satt276Satt277Satt278Satt279Satt280
Satt281Satt282Satt283Satt284Satt285Satt286Satt287Satt288Satt289Satt290
Satt291Satt292Satt293Satt294Satt295Satt296Satt298Satt300Satt301Satt302
Satt303Satt304Satt305Satt306Satt307Satt308Satt309Satt310Satt311Satt312
Satt313Satt314Satt315Satt316Satt317Satt318Satt319Satt320Satt321Satt322
Satt323Satt324Satt325Satt326Satt327Satt328Satt329Satt330Satt331Satt332
Satt333Satt334Satt335Satt336Satt337Satt338Satt339Satt340Satt341Satt342
Satt343Satt345Satt346Satt347Satt348Satt349Satt350Satt352Satt353Satt354
Satt355Satt356Satt357Satt358Satt359Satt361Satt362Satt363Satt364Satt365
Satt367Satt368Satt369Satt370Satt371Satt372Satt373Satt374Satt375Satt376
Satt377Satt378Satt380Satt381Satt382Satt383Satt384Satt385Satt386Satt387
Satt388Satt389Satt390Satt393Satt394Satt395Satt396Satt397Satt398Satt399
Satt400Satt402Satt403Satt404Satt405Satt406Satt407Satt408Satt409Satt411
Satt412Satt413Satt414Satt415Satt416Satt417Satt418Satt419Satt420Satt421
Satt422Satt423Satt424Satt425Satt426Satt427Satt428Satt429Satt430Satt431
Satt432Satt433Satt434Satt435Satt436Satt437Satt439Satt440Satt441Satt442
Satt443Satt444Satt445Satt446Satt447Satt448Satt449Satt450Satt451Satt452
Satt453Satt454Satt455Satt456Satt457Satt458Satt459Satt460Satt461Satt462
Satt463Satt464Satt466Satt467Satt468Satt469Satt470Satt471Satt472Satt473
Satt474Satt475Satt476Satt477Satt478Satt479Satt480Satt481Satt482Satt483
Satt484Satt485Satt486Satt487Satt488Satt489Satt490Satt491Satt492Satt493
Satt494Satt495Satt496Satt497Satt498Satt499Satt500Satt501Satt502Satt503
Satt504Satt505Satt506Satt507Satt508Satt509Satt510Satt511Satt513Satt514
Satt515Satt516Satt517Satt518Satt519Satt520Satt521Satt522Satt523Satt524
Satt525Satt526Satt527Satt528Satt529Satt530Satt531Satt532Satt533Satt534
Satt536Satt537Satt538Satt539Satt540Satt541Satt542Satt543Satt544Satt545
Satt546Satt547Satt548Satt549Satt550Satt551Satt552Satt553Satt554Satt555
Satt556Satt557Satt558Satt559Satt560Satt561Satt562Satt563Satt564Satt565
Satt566Satt567Satt568Satt569Satt570Satt571Satt572Satt573Satt574Satt575
Satt576Satt577Satt578Satt579Satt580Satt581Satt582Satt583Satt584Satt585
Satt586Satt587Satt588Satt589Satt590Satt591Satt592Satt593Satt594Satt595
Satt596Satt597Satt598Satt599Satt600Satt601Satt602Satt603Satt604Satt605
Satt606Satt607Satt608Satt610Satt611Satt612Satt613Satt614Satt615Satt617
Satt618Satt619Satt620Satt621Satt622Satt623Satt624Satt625Satt626Satt628
Satt629Satt631Satt632Satt633Satt634Satt635Satt636Satt637Satt638Satt640
Satt641Satt643Satt644Satt646Satt648Satt649Satt650Satt651Satt652Satt653
Satt654Satt655Satt656Satt657Satt658Satt659Satt660Satt661Satt662Satt663
Satt664Satt665Satt666Satt669Satt670Satt671Satt672Satt673Satt674Satt675
Satt676Satt677Satt678Satt679Satt680Satt681Satt682Satt683Satt684Satt685
Satt686Satt687Satt688Satt690Satt691Satt693Satt694Satt697Satt698Satt699
Satt700Satt701Satt702Satt703Satt706Satt707Satt708Satt710Satt711Satt712
Satt713Satt715Satt716Satt717Satt718Satt720Satt723Satt724Satt725Satt726
Satt727Satt728
Sat_001Sat_003Sat_009Sat_020Sat_022Sat_033Sat_036Sat_038Sat_039Sat_040
Sat_042Sat_043Sat_044Sat_062Sat_064Sat_069Sat_071Sat_074Sat_076Sat_077
Sat_083Sat_084Sat_085Sat_086Sat_087Sat_088Sat_089Sat_090Sat_091Sat_092
Sat_093Sat_094Sat_095Sat_096Sat_097Sat_099Sat_103Sat_104Sat_105Sat_106
Sat_107Sat_108Sat_109Sat_110Sat_111Sat_112Sat_113Sat_114Sat_115Sat_116
Sat_117Sat_118Sat_119Sat_120Sat_121Sat_122Sat_123Sat_124Sat_125Sat_126
Sat_127Sat_128Sat_129Sat_130Sat_131Sat_132Sat_133Sat_134Sat_135Sat_136
Sat_137Sat_138Sat_139Sat_140Sat_141Sat_142Sat_143Sat_144Sat_145Sat_147
Sat_148Sat_149Sat_150Sat_151Sat_153Sat_154Sat_155Sat_156Sat_157Sat_158
Sat_159Sat_160Sat_162Sat_163Sat_164Sat_165Sat_166Sat_167Sat_168Sat_169
Sat_170Sat_171Sat_172Sat_173Sat_174Sat_175Sat_177Sat_180Sat_181Sat_182
Sat_183Sat_185Sat_186Sat_187Sat_189Sat_190Sat_191Sat_192Sat_193Sat_194
Sat_195Sat_196Sat_197Sat_198Sat_199Sat_200Sat_201Sat_202Sat_203Sat_205
Sat_206Sat_207Sat_208Sat_209Sat_210Sat_211Sat_212Sat_213Sat_214Sat_215
Sat_216Sat_217Sat_218Sat_219Sat_220Sat_221Sat_222Sat_223Sat_224Sat_226
Sat_227Sat_228Sat_229Sat_230Sat_231Sat_232Sat_233Sat_234Sat_235Sat_236
Sat_238Sat_239Sat_240Sat_241Sat_242Sat_243Sat_244Sat_245Sat_246Sat_247
Sat_250Sat_251Sat_252Sat_253Sat_254Sat_255Sat_256Sat_258Sat_259Sat_260
Sat_261Sat_262Sat_263Sat_264Sat_265Sat_266Sat_267Sat_268Sat_270Sat_271
Sat_272Sat_273Sat_274Sat_275Sat_276Sat_277Sat_279Sat_280Sat_281Sat_282
Sat_283Sat_284Sat_285Sat_286Sat_287Sat_288Sat_289Sat_290Sat_291Sat_292
Sat_293Sat_294Sat_295Sat_296Sat_297Sat_298Sat_299Sat_300Sat_301Sat_303
Sat_304Sat_305Sat_306Sat_307Sat_308Sat_309Sat_310Sat_311Sat_312Sat_313
Sat_315Sat_316Sat_317Sat_318Sat_319Sat_320Sat_321Sat_322Sat_324Sat_325
Sat_326Sat_330Sat_331Sat_332Sat_333Sat_334Sat_336Sat_337Sat_338Sat_339
Sat_340Sat_341Sat_342Sat_343Sat_344Sat_345Sat_346Sat_347Sat_348Sat_349
Sat_350Sat_351Sat_352Sat_353Sat_354Sat_355Sat_356Sat_357Sat_358Sat_359
Sat_360Sat_361Sat_362Sat_363Sat_364Sat_365Sat_366Sat_367Sat_368Sat_369
Sat_370Sat_371Sat_372Sat_373Sat_374Sat_375Sat_376Sat_377Sat_378Sat_379
Sat_380Sat_381Sat_382Sat_383Sat_384Sat_385Sat_387Sat_388Sat_389Sat_390
Sat_391Sat_392Sat_393Sat_394Sat_395Sat_396Sat_397Sat_399Sat_400Sat_401
Sat_402Sat_403Sat_404Sat_405Sat_406Sat_407Sat_408Sat_409Sat_410Sat_411
Sat_412Sat_413Sat_414Sat_415Sat_416Sat_417Sat_418Sat_419Sat_420Sat_421
Sat_422Sat_423Sat_424
Sctt008Sctt009Sctt010Sctt011Sctt012
Sct_001Sct_010Sct_026Sct_028Sct_033Sct_034Sct_046Sct_064Sct_065Sct_067
Sct_094Sct_137Sct_147Sct_186Sct_187Sct_188Sct_189Sct_190Sct_191Sct_192
Sct_193Sct_194Sct_195Sct_196Sct_199
Satg001Satg002
Scaa001Scaa003
Staga001Staga002
AB002807AF162283AF186183AI794821AI856415AQ851479AQ851518AW132402
AW186493AW277661AW310961AW508247AW620774AW734043AW734137AW756935
AW781285AZ254740AZ302047AZ536570BE021153BE347343BE475343BE801128
BE801538BE806308BE806387BE820148BE823543BF008905BF070293GMABAB
GMAC7LGMENOD2BGMHSP179GMLPSI2
PCR Reagents for Soybean SSR Amplification
   1. 30 ng genomic soybean DNA
   2. Buffer:
         1. 50 mM KCl
         2. 10 mM Tris-HCl (pH 9.0 at 25o C)
         3. 0.1 % Triton X-100
   3. 1.5 mM MgCl2
   4. 0.15 mM for each of the NTPs
   5. 1 unit Taq DNA Polymerase
Thermocycling Profile for Amplification of Soybean SSRs
   1. 2 min at 95o C
   2. 33 cycles of
         1. Denaturation: 92o C
         2. Annealing: opimum temperature or 47o C if not known
               1. For better, but still specific amplification, 46o C will also work quite well
         3. Extension: 68o C
      Use equal times for denaturation, annealing, and extension. Time depends on PCR machine, volume of reaction, etc.





Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA
 
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