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:

CommonData ID: MP0257Publication date: 10/00
PMID: 11131328GI: 9629506 Taxonomy ID: 31656
Virus Name: bovine viral diarrhea virus (strain SD-1), BVDVProduct size (PCR): 290 bp
MgCl2: 4 mMdNTPs: mMType: RT-Nested PCR 1
Temp (PCR cycle):37C 45min>95C 5min>(94C 1min>55C 1min>72C 1min)*20>72C 10min
Buffer: 1x PCR buffer, 0.2% stock Triton X-100, 0.5mM dithiothreitol
Polymerase: 0.05 U/microL Taq poly (Promega, Madison, WI)Cycler: N/A
Note: This is single tube RT-PCR the ingrediants for the internal PCR were stored in the lid of the test tube they are as follows: 9.75microM primer BVD 180 and primer HCV 368, 4.88mM dNTP, 0.6U/microL Taq poly (Promega, Madison, WI)
RT-PCR mix: 1microL each primer BVD 100 and HCV 368, 0.2U/microL RNAsin, and 2U/microL Moloney murine leukemia virus reverse transcripase.
For internal reaction of Nested PCR [see MP0258].
Forward(BVD 100) primer
Oligo type: Degeneracy: 1
Target: 100-117Tm: 58 CLength:
Sequence: GGCTAGCCATGCCCTTAG
(4 other experimental conditions)
Note: Used with HCV 368 to amplify a 290bp product.
Reverse(HCV 368) primer
Oligo type: Degeneracy: 1
Target: 389-373Tm: 52 CLength:
Sequence: CCATGTGCCATGTACAG
(4 other experimental conditions)
Note: Used with BVD 100 to amplify a 290bp product.
Used with BVD 180 to amplify a 213bp product.
Copyright © 2001-2005 VirOligo Database Project. All rights reserved Feedback is welcome. Contact webmaster Ulrich Melcher at ulrich.melcher@okstate.edu.