A Simple Solution for Oligonucleotide Design

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2. Search by PMID, VirOligoID, or taxonomy ID;

Virus name:

Oligo Sequence:

Tm:
°C± °C
Oligo length:
bp± bp



PMID:

Common Data ID:

Taxonomy ID:

GI Number:

CommonData ID: BM0483Publication date: 03/92
PMID: 1313822GI: 61076 Taxonomy ID: 73482
Virus Name: Foot-and-mouth disease virus (strain O1); Foot-and-mouth disease virus Asia 1Product size (PCR):
bp
MgCl2: 1.5 mMdNTPs: mMType: RT-PCR
Temp (PCR cycle):(93C 30sec>55C 30sec>72C 60sec)*35>72C 9min
Buffer: 10mM Tris-HCl (pH 8.3) 50mM KCl
Polymerase: 0.08U/microL Taq DNA poly (IBI)Cycler: programmable thermal controller (MJ Research Inc.)
Note: Primers amplify following viruses:
Strain O1 [Taxonomy:73482].
Asia 1 [Taxonomy:110195].

Total RT volume is 20microL containing RNA, 20U/microL RNasin (Promega), 0.5mM dNTPs (Pharmacia), 0.815U/microL AMV RTase (Life Science Inc.), 1x buffer (Life Science Inc.).
Article does not mention concentration of Oligo 2 used for RT.
RT temperature: 42C 1hr.

Total PCR volume is 50microL containing 1microL cDNA and 20microM each primer.
Article does not mention final concentration of dNTPs for PCR.

For other PCRs in this article, [see BM0482] and [see BM0484].
Reverse(Oligo 2) primer
Oligo type: Degeneracy: 1
Target: 3603-3585Tm: 71.5 C at salt 1000.0mMLength:
Sequence: AGTTCGACCTAACGTCGGA
(1 other experimental conditions)
Note:
Forward(Oligo 5) primer
Oligo type: Degeneracy: 1
Target: 6700-6719Tm: 76.1 C at salt 1000.0mMLength:
Sequence: TTCGAAACGGCACGGTCGGA
(0 other experimental conditions)
Note: Sequence given in article lacks a "G" between positions 6704 and 6705 when compared with BLAST.
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