Primer3 protocols

Primer3 specifications

Information


Unique identifier OMICS_02325
Name Primer3
Alternative names Primer3Plus, Primer3-web, Primer3web, Primer_core
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Perl
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

Download


Versioning


Add your version

Documentation


Additional information


http://primer3plus.com/cgi-bin/dev/primer3plus.cgi http://primer3plus.com/primer3web/primer3web_input.htm

Information


Unique identifier OMICS_02325
Name Primer3
Alternative names Primer3Plus, Primer3-web, Primer3web, Primer_core
Interface Web user interface
Restrictions to use None
Programming languages C, Perl
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Additional information


http://primer3plus.com/cgi-bin/dev/primer3plus.cgi http://primer3plus.com/primer3web/primer3web_input.htm

Publications for Primer3

Primer3 IN pipelines

 (212)
2018
PMCID: 5756416
PMID: 29304740
DOI: 10.1186/s12864-017-4301-6

[…] 134499216 bases, 26.8-fold coverage). we aimed to close the gaps in the 454 assembly using pcr amplification and sanger sequencing of gap regions. we therefore designed sequencing primers using primer3 [33]. for some gaps, the sequence was unobtainable. sanger sequencing of pcr products was discontinued when the pacbio assembly became available. the 454 contigs were ordered and combined […]

2018
PMCID: 5800670
PMID: 29408927
DOI: 10.1371/journal.pone.0192253

[…] kobas software., to verify the accuracy and repeatability of the transcription sequencing results, 10 differentially expressed genes were randomly selected to be detected using qrt-pcr. designed by primer3 (http://fokker.wi.mit.edu/primer3/input.htm), the primer sequences were shown in s1 file. the housekeeping gene gapdh was used to correct the mrna levels of differentially expressed genes. […]

2018
PMCID: 5800670
PMID: 29408927
DOI: 10.1371/journal.pone.0192253

[…] and repeatability of the transcription sequencing results, 10 differentially expressed genes were randomly selected to be detected using qrt-pcr. designed by primer3 (http://fokker.wi.mit.edu/primer3/input.htm), the primer sequences were shown in s1 file. the housekeeping gene gapdh was used to correct the mrna levels of differentially expressed genes. qrt-pcr was carried […]

2018
PMCID: 5803220
PMID: 29416074
DOI: 10.1038/s41598-018-20830-2

[…] sequence alignment was conducted using muscle55, by including sequences of the same or closely related species obtained from genbank database56 (table s1). primers (table 1), designed using the primer3 website57, were optimised and tested for cross-reactivity against the other insects used in the laboratory experiments and additional non-target invertebrates, most of them occurring […]

2018
PMCID: 5860705
PMID: 29558483
DOI: 10.1371/journal.pone.0194282

[…] sequencing method. svs primer pairs for pcr were designed based on 500-bp upstream or downstream of the insertion/deletion breakpoints of the svs based on the reference genome sequence using the primer3 algorithm (http://frodo.wi.mit.edu/primer3/) (s2 table). the genomic dnas were taking as /templates for validation by pcr detection. a total volume of 20 μl was used for pcr taking 1 μl […]

Primer3 institution(s)
Zentrum für Molekulare Biologie der Universität Heidelberg, DKFZ-ZMBH Alliance, Heidelberg, Germany

Primer3 reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Primer3