A Simple Solution for Oligonucleotide Design


Click here for a list of viruses in the database


Two search options:
1. Search by virus name and/or primer data
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:



Oligonucleotide information
Forward(pestpr-2) primer
Oligo ID:pb00278
Oligo type: Denegeracy: 4
Target: 176-197 Tm: Max Tm 78.5 C Min Tm 74.7 C at salt 1000.0mMLength: 22
Sequence: CCTGAGTACAGG(A/G)(C/T)AGTCGTCA
(1 other experimental conditions)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.

Experimental condition used for the oligonucleotide

Common Data ID: SK0111 Publication date: 06/01
PMID: 11377717 GI: 871250 Taxonomy ID:11096
Virus Name: Classical swine fever virus Alfort/187, CSFV-Alfort/187; bovine viral diarrhea virus isolate NADL, BVDV-NADL; Hog cholera virus (strain Brescia), CSFV-Brescia Product size (PCR):
bp
MgCl2: N/A mM dNTPs: 0.2 mM Type: RT-PCR
Temp (PCR cycle):60C 60min>94C 3min>(94C 30sec>60C 60sec)*40>60C 7min
Buffer: 1x EZ buffer, 2.5mM Mn(OAc)2, 0.01mM DIG-dUTP (Boehringer Mannheim)
Polymerase: 0.1U/microL rTth DNA polyCycler: GeneAmp PCR system 2400 (Perkin Elmer)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.



Oligonucleotide information
Forward(pestpr-2) primer
Oligo ID:pb00278
Oligo type: Denegeracy: 4
Target: 176-197 Tm: Max Tm 78.5 C Min Tm 74.7 C at salt 1000.0mMLength: 22
Sequence: CCTGAGTACAGG(A/G)(C/T)AGTCGTCA
(1 other experimental conditions)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.

Experimental condition used for the oligonucleotide

Common Data ID: SK0112 Publication date: 06/01
PMID: 11377717 GI: 871250 Taxonomy ID:11096
Virus Name: Classical swine fever virus Alfort/187, CSFV-Alfort/187; bovine viral diarrhea virus isolate NADL, BVDV-NADL; Hog cholera virus (strain Brescia), CSFV-Brescia Product size (PCR):
bp
MgCl2: N/A mM dNTPs: N/A mM Type: RT-PCR
Temp (PCR cycle):48C 45min>94C 2min>(94C 30sec>60C 60sec>68C 120sec)*40>68C 7min
Buffer: 1x AMV/Tfl reaction buffer, 1mM MgSO4, 0.2mM PCR DIG labelling mix (Boehringer Mannheim)
Polymerase: 0.1U/microL Tfl DNA polyCycler: GeneAmp PCR system 2400 (Perkin Elmer)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.



Oligonucleotide information
Forward(pestpr-2) primer
Oligo ID:pb00278
Oligo type: Denegeracy: 4
Target: 176-197 Tm: Max Tm 78.5 C Min Tm 74.7 C at salt 1000.0mMLength: 22
Sequence: CCTGAGTACAGG(A/G)(C/T)AGTCGTCA
(1 other experimental conditions)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.

Experimental condition used for the oligonucleotide

Common Data ID: SK0111 Publication date: 06/01
PMID: 11377717 GI: 871250 Taxonomy ID:11096
Virus Name: Classical swine fever virus Alfort/187, CSFV-Alfort/187; bovine viral diarrhea virus isolate NADL, BVDV-NADL; Hog cholera virus (strain Brescia), CSFV-Brescia Product size (PCR):
bp
MgCl2: N/A mM dNTPs: 0.2 mM Type: RT-PCR
Temp (PCR cycle):60C 60min>94C 3min>(94C 30sec>60C 60sec)*40>60C 7min
Buffer: 1x EZ buffer, 2.5mM Mn(OAc)2, 0.01mM DIG-dUTP (Boehringer Mannheim)
Polymerase: 0.1U/microL rTth DNA polyCycler: GeneAmp PCR system 2400 (Perkin Elmer)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.



Oligonucleotide information
Forward(pestpr-2) primer
Oligo ID:pb00278
Oligo type: Denegeracy: 4
Target: 176-197 Tm: Max Tm 78.5 C Min Tm 74.7 C at salt 1000.0mMLength: 22
Sequence: CCTGAGTACAGG(A/G)(C/T)AGTCGTCA
(1 other experimental conditions)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.

Experimental condition used for the oligonucleotide

Common Data ID: SK0112 Publication date: 06/01
PMID: 11377717 GI: 871250 Taxonomy ID:11096
Virus Name: Classical swine fever virus Alfort/187, CSFV-Alfort/187; bovine viral diarrhea virus isolate NADL, BVDV-NADL; Hog cholera virus (strain Brescia), CSFV-Brescia Product size (PCR):
bp
MgCl2: N/A mM dNTPs: N/A mM Type: RT-PCR
Temp (PCR cycle):48C 45min>94C 2min>(94C 30sec>60C 60sec>68C 120sec)*40>68C 7min
Buffer: 1x AMV/Tfl reaction buffer, 1mM MgSO4, 0.2mM PCR DIG labelling mix (Boehringer Mannheim)
Polymerase: 0.1U/microL Tfl DNA polyCycler: GeneAmp PCR system 2400 (Perkin Elmer)
Note: Specific to 5'-UTR. 5' biotin-labelled probe.

Total 4 Oligos
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