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Database Content
The GSC Resequencing Primer Database stores PCR and sequencing primers designed to amplify and sequence annotated genes. Currently, primers have been designed for more than fourteen-thousand known or predicted human genes.
Primer information can be requested from the Search Page. Queries may be initiated by entering the EntrezGene ID, HUGO Official Symbol, or NCBI Build 35 chromosome and coordinates for regions of interest.
Primer Design
PrimerDesign is a Perl script that designs targeted PCR primers for
genome resequencing projects using the functionality of
Primer3.
PrimerDesign includes several additional optimizing features. Primer
pairs are designed to avoid amplification of untargeted repeat regions
and no primers are designed across dbSNP sites.
PrimerDesign performs primer specificity analysis to reduce the
co-amplification of homologs and pseudogenes. In addition it
identifies sequence features such as simple repeats and homopolymeric
runs that may reduce the fidelity of PCR and sequencing reactions. In
areas of predicted sequence difficulty, PrimerDesign generates
internal sequencing primers to more readily sequence these areas.
PrimerDesign was developed with flexibility in mind. Amplicon sizes can
be altered with regard to template quality, and localized GC-content.
Primer length and Tm are easily modified. Primers can be designed to
amplify specific exons or introns, selected genic regions, chromosomes,
or the entire genome of any sequenced species.
Acknowledgments
Steve Rozen and Helen J. Skaletsky (2000)
Primer3 on the WWW for general users and for biologist programmers.
In: Krawetz S, Misener S (eds) Bioinformatics Methods and Protocols: Methods in Molecular Biology.
Humana Press, Totowa, NJ, pp 365-386
Source code available at http://fokker.wi.mit.edu/primer3/.
Disclaimer
THE PRIMERS PROVIDED BY THIS WEB PAGE ARE FOR RESEARCH USE ONLY AND NOT
FOR DIAGNOSTIC USE. THE PRIMERS ARE PROVIDED BY THE GENOME SEQUENCING
CENTER OF WASHINGTON UNIVERSITY IN ST. LOUIS "AS IS" AND ANY EXPRESS
OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL WASHINGTON UNIVERSITY IN ST. LOUIS BE
LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR
BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE OR THE
PRIMERS IT DESIGNS, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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