A Simple Solution for Oligonucleotide Design

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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:

CommonData ID: SK0058Publication date: 07/99
PMID: 10423142GI: 415598 Taxonomy ID: 10510
Virus Name: Bovine adenovirus type 3, BAV3Product size (PCR):
bp
MgCl2: 2.5 mMdNTPs: mMType: RT-PCR
Temp (PCR cycle):(95C 1min>45C 1.5min>72C 3min)*33
Buffer: PCR Buffer (BRL)
Polymerase: 2.5U Taq DNA poly (BRL)Cycler: DNA thermal cycler (Perkin-Elmer)
Note: Article does not mention final volume of the RT and PCR mixtures.
RT is performed using 1microg BAV3 RNA, 100U Superscript RTase (BRL), and 0.2microg primer AB3822 in first-strand buffer (BRL) containing 10mM DTT and 1.5mM dNTPs.
RT temperature: 37C 1hr.

PCR is performed with 0.2microg each primer in a set (AB6220/AB2646, AB6220/AB3107, AB2820/AB2646, AB6221/AB2647, AB6220/AB2647, AB2977/AB2647, and AB6221/AB2953).
Forward(AB3822) primer
Oligo type: Degeneracy: 1
Target: N/A-N/ATm: 67.3 C at salt 1000.0mMLength:
Sequence: GGGTCGACTTTTTTTTTTTTTTTTT
(0 other experimental conditions)
Note: RT primer complementary to poly(A) tail of mRNA.
Article does not mention target, and BLASTdoes not produce a target.
Forward(AB2646) primer
Oligo type: Degeneracy: 1
Target: 965-981Tm: 50 CLength:
Sequence: TGATCCCTGGCTAAATG
(0 other experimental conditions)
Note:
Forward(AB2647) primer
Oligo type: Degeneracy: 1
Target: 1478-1494Tm: 50 CLength:
Sequence: GGATCACTTAAGCGTTC
(0 other experimental conditions)
Note:
Reverse(AB2820) primer
Oligo type: Degeneracy: 1
Target: 2023-2007Tm: 50 CLength:
Sequence: GTAACTGATGTGCTCGA
(0 other experimental conditions)
Note:
Forward(AB2953) primer
Oligo type: Degeneracy: 1
Target: 2946-2962Tm: 48 CLength:
Sequence: TGTACAAAGTGCTGAGA
(0 other experimental conditions)
Note:
Reverse(AB2977) primer
Oligo type: Degeneracy: 1
Target: 2853-2837Tm: 58 CLength:
Sequence: GGCAGGGCTACAGTCCC
(0 other experimental conditions)
Note:
Forward(AB3107) primer
Oligo type: Degeneracy: 1
Target: 601-617Tm: 52 CLength:
Sequence: CCACCATGAAGTACCTG
(0 other experimental conditions)
Note:
Reverse(AB6220) primer
Oligo type: Degeneracy: 1
Target: 3568-3552Tm: 56 CLength:
Sequence: GGGGTTAACTTGGCCGC
(0 other experimental conditions)
Note:
Reverse(AB6221) primer
Oligo type: Degeneracy: 1
Target: 3551-3535Tm: 54 CLength:
Sequence: CCACAAGGTTAGCCTGC
(0 other experimental conditions)
Note:
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