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Table 3 Primers used in the cRT-PCR assays

From: Development of one-step TaqMan® real-time reverse transcription-PCR and conventional reverse transcription-PCR assays for the detection of equine rhinitis A and B viruses

cRT-PCR Assay Name

Primer Names

Sequence 5' to 3' and Nucleotide Location (nt)

Genbank Accession Number

Reference

ERAV 5′UTR

ERAV 5′UTR F

TCAGCCCCCTGTCATTGACT (341-360)

NC_003982

This study

 

ERAV 5′UTR R

TGRaTCAGGGCTGTAACCA (769-786)

  

ERAV Poly

ERAV Poly F

TGGATGAAGTGGTTTTTGC (6384-6402)

  
 

ERAV Poly R

CAGTCAAAGCCTGGTTGTCA (6502-6521)

  

ERAV Poly2

ERAV Poly F

TGGATGAAGTGGTTTTTGC (6384-6402)

  
 

ERAV Poly R2

ACTCTCATTGCATCAGCTGC (6977-6996)

  

ERBV 5′ UTR

ERBV 5′UTR F

TTTCGTTCCWbCTTTAGCRaGG (349-368)

NC_003983

 
 

ERBV 5′UTR R

TCAGATCCGCACTCTATGAAG (764-784)

  

ERBV OUTER1

ERBV OUTER F

TTTTGATGCTTCACATTCTCC (7986-8006)

 

[27]

 

ERBV OUTER R

CGCTGTACCCTCGGTCCTACTC (8746-8767)

  

ERBV OUTER2

ERBV OUTER F

TTTTGATGCTTCACATTCTCC (7986-8006)

  
 

ERBV INNER R

GCCTCGGCGAGTGAAGAG (8721-8739)

  

ERBV INNER1

ERBV INNER F

CTTACTAYcGAATGTGARGGGGC (8117-8138)

  
 

ERBV INNER R

GCCTCGGCGAGTGAAGAG (8721-8739)

  

ERBV INNER2

ERBV INNER F

CTTACTAYGAATGTGARGGGGC (8117-8138)

  
 

ERBV OUTER R

CGCTGTACCCTCGGTCCTACTC (8746-8767)

  

ERBV Poly1

ERBV Poly F

TTGAGTTGACCCTTCTGCA (7409-7427)

 

This study

 

ERBV Poly R

TCATACTCTGAAATGRaKdTCCATTG (7530-7553)

  

ERBV Poly2

ERBV Poly F

TTGAGTTGACCCTTCTGCA (7409-7427)

  
 

ERBV Poly R2

GCTGAACCAATGCCTAATCC (7879-7898)

  
  1. a R represents A or G.
  2. b W represents A or T.
  3. c Y represents C or T.
  4. d K represents G or T.