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
Reverse(MP00842) primer
Oligo ID:MP00841
Oligo type: PCR Denegeracy: 1
Target: N/A-N/A Tm: 52 CLength: 17
Sequence: CCATGTGCCATGTACAG
(4 other experimental conditions)
Note: First PCR amplifies BVDV1 and BVDV2

Experimental condition used for the oligonucleotide

Common Data ID: MP0084 Publication date: 02/98
PMID: 9633045 GI: N/A Taxonomy ID:136447
Virus Name: bovine viral diarrhea virus type 2, BVDV-2 Product size (PCR): N/A bp
MgCl2: N/A mM dNTPs: 0.1 mM Type: Nested RT-PCR
Temp (PCR cycle):(94C 10sec>50C 15sec>72C 30sec)*30>72C 10min
Buffer: 1x PCR buffer (Boehringer Mannheim Corp., Indianapolis, IN, USA)
Polymerase: 0.025U/microL Taq poly (Boehringer Mannheim Corp., Indianapolis, IN, USA)Cycler: N/A
Note: First PCR amplifies BVDV1 and BVDV2



Oligonucleotide information
Reverse(HCV368) primer
Oligo ID:PN00275
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
Sequence: CCATGTGCCATGTACAG
(4 other experimental conditions)
Note:

Experimental condition used for the oligonucleotide

Common Data ID: SK0060 Publication date: 10/00
PMID: 11131328 GI: 9626649 Taxonomy ID:144353
Virus Name: Bovine viral diarrhea virus, BVDV Product size (PCR):
bp
MgCl2: 4.0 mM dNTPs: 0.6 mM Type: RT-Nested PCR
Temp (PCR cycle):(94C 60sec>55C 60sec>72C 45sec)*30>72C 10min
Buffer: 1x Buffer (Promega)
Polymerase: 0.075U/microL Taq poly (Promega)Cycler:
Note:



Oligonucleotide information
Reverse(HCV 368) primer
Oligo ID:PB00490
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
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.

Experimental condition used for the oligonucleotide

Common Data ID: MP0257 Publication date: 10/00
PMID: 11131328 GI: 9629506 Taxonomy ID:31656
Virus Name: bovine viral diarrhea virus (strain SD-1), BVDV Product size (PCR): 290 bp
MgCl2: 4 mM dNTPs: 0.4 mM Type: 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: Used with BVD 100 to amplify a 290bp product.
Used with BVD 180 to amplify a 213bp product.



Oligonucleotide information
Reverse(HCV 368) primer
Oligo ID:PB00490
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
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.

Experimental condition used for the oligonucleotide

Common Data ID: MP0258 Publication date: 10/00
PMID: 11131328 GI: 9629506 Taxonomy ID:31656
Virus Name: bovine viral diarrhea virus (strain SD-1), BVDV Product size (PCR): 213 bp
MgCl2: 4 mM dNTPs: 0.4 mM Type: RT- Nested PCR 2
Temp (PCR cycle):(94C 1min>55C 1min>72C 45 sec)*30>72C 10min
Buffer: Same as first PCR
Polymerase: 0.61 U/microL Taq poly (Promega, Madison, WI)Cycler: N/A
Note: Used with BVD 100 to amplify a 290bp product.
Used with BVD 180 to amplify a 213bp product.



Oligonucleotide information
Reverse(HCV 368) primer
Oligo ID:PB00490
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
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.

Experimental condition used for the oligonucleotide

Common Data ID: MP0257 Publication date: 10/00
PMID: 11131328 GI: 9629506 Taxonomy ID:31656
Virus Name: bovine viral diarrhea virus (strain SD-1), BVDV Product size (PCR): 290 bp
MgCl2: 4 mM dNTPs: 0.4 mM Type: 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: Used with BVD 100 to amplify a 290bp product.
Used with BVD 180 to amplify a 213bp product.



Oligonucleotide information
Reverse(HCV 368) primer
Oligo ID:PB00490
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
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.

Experimental condition used for the oligonucleotide

Common Data ID: MP0258 Publication date: 10/00
PMID: 11131328 GI: 9629506 Taxonomy ID:31656
Virus Name: bovine viral diarrhea virus (strain SD-1), BVDV Product size (PCR): 213 bp
MgCl2: 4 mM dNTPs: 0.4 mM Type: RT- Nested PCR 2
Temp (PCR cycle):(94C 1min>55C 1min>72C 45 sec)*30>72C 10min
Buffer: Same as first PCR
Polymerase: 0.61 U/microL Taq poly (Promega, Madison, WI)Cycler: N/A
Note: Used with BVD 100 to amplify a 290bp product.
Used with BVD 180 to amplify a 213bp product.



Oligonucleotide information
Reverse(HCV 368) primer
Oligo ID:pc00106
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
Sequence: CCATGTGCCATGTACAG
(4 other experimental conditions)
Note: Used with BVD 100 in RT and primary PCR.
Used with BVD 180 in secondary PCR.

Experimental condition used for the oligonucleotide

Common Data ID: BM0898 Publication date: 09/01
PMID: 11665882 GI: 323205 Taxonomy ID:31656
Virus Name: bovine viral diarrhea virus (strain SD-1) Product size (PCR):
bp
MgCl2: 4.0 mM dNTPs: 0.4 mM Type: RT-Nested PCR
Temp (PCR cycle):37C 45min>35C 5min>(94C 1min>55C 1min>72C 1min)*20>72C 10min
Buffer: 1x buffer, 0.2% Triton X-100, 0.5mM DTT, 0.2U/microL RNAsin, 2U/microL MMLV RTase (all Promega)
Polymerase: 0.05U/microL Taq poly (Promega)Cycler:
Note: Used with BVD 100 in RT and primary PCR.
Used with BVD 180 in secondary PCR.



Oligonucleotide information
Reverse(HCV368) primer
Oligo ID:PN00275
Oligo type: Denegeracy: 1
Target: 389-373 Tm: 52 CLength: 17
Sequence: CCATGTGCCATGTACAG
(4 other experimental conditions)
Note:

Experimental condition used for the oligonucleotide

Common Data ID: SK0060 Publication date: 10/00
PMID: 11131328 GI: 9626649 Taxonomy ID:144353
Virus Name: Bovine viral diarrhea virus, BVDV Product size (PCR):
bp
MgCl2: 4.0 mM dNTPs: 0.6 mM Type: RT-Nested PCR
Temp (PCR cycle):(94C 60sec>55C 60sec>72C 45sec)*30>72C 10min
Buffer: 1x Buffer (Promega)
Polymerase: 0.075U/microL Taq poly (Promega)Cycler:
Note:

Total 8 Oligos
Copyright © 2001-2005 VirOligo Database Project. All rights reserved Feedback is welcome. Contact webmaster Ulrich Melcher at ulrich.melcher@okstate.edu.