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These sequences are intended to be used for the purposes of respiratory virus surveillance and research. The recipient agrees to use them in compliance with all applicable laws and regulations. Every effort has been made to assure the accuracy of the sequences, but CDC cannot provide any warranty regarding their accuracy. The recipient can acknowledge the source of sequences in any oral presentations or written publications concerning the research project by referring to the Genomics and Diagnostics Team, Virology Surveillance and Diagnosis Branch, Influenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.
DDIDNCIRDRespiratoryPanelSARS2FluAB@cdc.gov

Tube 1: Flu SC2 Multiplex Assay: Forward and Reverse Primers
NameDescriptionOligonucleotide Sequence (5’ to 3’)Concentration/Tube
InfA-FInfA For1CAA GAC CAA TCY TGT CAC CTC TGA C3.33 µmol
InfA For2CAA GAC CAA TYC TGT CAC CTY TGA C3.33 µmol
InfA-RInfA Rev1GCA TTY TGG ACA AAV CGT CTA CG5.00 µmol
InfA Rev2GCA TTT TGG ATA AAG CGT CTA CG1.67 µmol
InfB-FInfB ForTCC TCA AYT CAC TCT TCG AGC G6.67 µmol
InfB-RInfB RevCGG TGC TCT TGA CCA AAT TGG6.67 µmol
SC2-FSC2 ForCTG CAG ATT TGG ATG ATT TCT CC6.67 µmol
SC2-RSC2 RevCCT TGT GTG GTC TGC ATG AGT TTA G6.67 µmol
RP-FRnaseP ForAGA TTT GGA CCT GCG AGC G6.67 µmol
RP-RRnaseP RevGAG CGG CTG TCT CCA CAA GT6.67 µmol
Tube 2: Flu SC2 Multiplex Assay: Probes
NameDescriptionOligonucleotide Sequence (5’>3’)Concentration/Tube
InfA-PInfA Probe15’-/5FAM/TGC AGT CCT /ZEN/ CGC TCA CTG GGC ACG/3IABkFQ/-3’1.67 µmol
InfB-PInfB Probe25’-/5YakYel/CCA ATT CGA/ZEN/ GCA GCT GAA ACT GCG GTG/3IABkFQ/-3’1.67 µmol
SC2-PSC2 Probe35’-/5TexRd-XN/ATT GCA ACA/TAO/ ATC CAT GAG CAG TGC TGA CTC/3IAbRQSp/-3’1.67 µmol
RP-PRnaseP Probe45’-/5CY5/TTC TGA CCT /TAO/ GAA GGC TCT GCG CG/3IAbRQSp/-3’1.67 µmol

1 Probe labeled at the 5′ end with the reporter molecule 6-carboxyfluorescein (FAM), with a ZEN™ quencher between the 9th and 10th nucleotide, and with an Iowa Black FQ quencher (IABkFQ ) at the 3′ end (Integrated DNA Technologies, Coralville, IA). InfA probe and primer sequences are identical to InfA sequences in the FDA-cleared CDC Human Influenza Real-Time RT-PCR Diagnostic Panel (K200370).

2 Probe labeled at the 5′ end with the Yakima Yellow (YakYel), with a ZEN™ quencher between the 9th and 10th nucleotide, and with an Iowa Black FQ quencher (IABkFQ) at the 3′ end (Integrated DNA Technologies, Coralville, IA). Probe and primer sequences are identical to InfB sequences in the FDA-cleared CDC Human Influenza Virus Real-Time RT-PCR Detection and Characterization Panel (K080570).

3 Probe labeled at the 5′-end with the Texas Red-XN (TexRd-XN), with a TAO quencher between the 9th and 10th nucleotide, and with an Iowa Black RQ quencher (IAbRQSp) at the 3′ end (Integrated DNA Technologies, Coralville, IA).

4 Probe labeled at the 5′-end with the CY5 reporter, with a TAO quencher between the 9th and 10th nucleotide, and with an Iowa Black RQ quencher (IAbRQSp) at the 3′ end (Integrated DNA Technologies, Coralville, IA).

 

Note: Oligonucleotide sequences are subject to future changes as the SARS-CoV-2 viruses evolve.



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