Primers for amplification and sequencing

C. trachomatis and C. pneumoniae

Target geneForward primerReversed primer
gatAGCTTTAGAATTARSARAWGCTGATCCTCCGGTATCYGATCC
oppA_3ATGCGCAAGATATCAGTGGGAAAGCTCCRSTWGMTATMGGWAG
hflXGCTTCTARAGTACTTTTAAATGTATTTRGAAATYTTTKCSAGYCG
gidAGGAGTCWCTACWAAAGAAGGTCGTAYTGYACATCRAAAGG
enoACCTATGATGAATCTKATCAATGGTCTTCTTCRGCWAGMCCATCT
hemNAGATCTTCTTCWGGRGGWAGAGATTCYTTCAKAACSTAGGTTTT
fumCATTAAAAAATGTGCTGCTCCTTCAGGAACATTYAACCC

R = A or G; S = G or C; W = A or T; Y = C or T; M = A or C; K = G or T;

MLST Chlamydiales

These primers work with: C. abortus, C. psittaci, C. caviae, C. felis, C. muridarum and C. pecorum (they should also work with C. trachomatis and C. pneumoniae).

Set 1

GenePrimer nameSequence
enoAYPenoA55-CCWATGATGAAYCTYATTAACGG-3
YPenoA65-TCTTCYTCAGCRAGGCCATCT-3
fumCYPfumC55-ATYAAAMAATGTGCWGCT-3
YPfumC65-CCWTYAGGAACATTYAATCC-3
gatAYPgatA55-GCYTTAGAGTTAAGARATGCT-3
YPgatA65-GAKCCWCCWGTATCAGAWCC-3
gidAYPgidA55-GGYGTYACMACRAAAGAAGG-3
YPgidA65-TYATAYTGCACATCRAAAGG-3
hemNYPhemN55-AGATCTTCTTCAGGRGGRAGRG-3
YPhemN65-TTTMTYCAGWMCYTWGGATTTAA-3
hflXYPhflX55-GCTTCTARRGTACTTTTAAATG-3
YPhflX65-ATWTTAGAGATCTTTGCTAGYCG-3
oppAYPoppA55-ATGCGCAAGATATCAWTGGG-3
YPoppA65-AARGCRCTACTSGCRATMGGSARG-3

Set 2

GenePrimer nameSequence
enoAYPenoA35-CCTATGATGAATCTCATTAATGG-3
YPenoA45-CCCAACCATCAAAATCTTCTTCCG -3
fumCYPfumC35-GCTGCTAAGGCAAATCGTG-3
YPfumC45-CAGGAACATTTAATCCTGTTCC-3
gatAYPgatA35-GCCTTAGAGTTAAGAAATGCCG-3
YPgatA45-CCCCCTGTATCGGAACCTAACGC-3
gidAYPgidA55-GGYGTYACMACRAAAGAAGG-3
YPgidA65-TYATAYTGCACATCRAAAGG-3
hemNAvdEhemN75-GTTTATTTGATCTTTCCGAAGC-3
AvdEhemN95-GGCATTTTGCAAATATATGCCACGG-3
hflXYPhflX55-GCTTCTARRGTACTTTTAAATG-3
YPhflX65-ATWTTAGAGATCTTTGCTAGYCG-3
oppAYPoppA35-ATGCGCAAGATATCAATGGG-3
YPoppA45-GGCAAGGTTTGGTGTAACTCGC-3

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Citing the database

The preferred format for citing this website in publications is:

This publication made use of the Chlamydiales MLST website (http://pubmlst.org/ chlamydiales/) developed by Keith Jolley and sited at the University of Oxford (Jolley & Maiden 2010, BMC Bioinformatics, 11:595). The development of this site has been funded by the Wellcome Trust.

Status

Sequence database
Sequences: 130
Profiles (MLST): 46
Last updated: 2010-04-14

Isolate database
Isolates: 133
Last updated: 2010-10-19