PCR primers, oligos databases and design tools
Carry out simulated RT-PCR to detect transcript variants.
Search for comprehensive information on qPCR related technologies, products, vendors and services.
Design PCR primers on aligned groups of DNA sequences.
Examine multiple PCR primers for primer-dimer and hairpin structures.
Design different types of PCR primers and sequencing primers in a high-through manner.
Design degenerate PCR primers based on multiple protein sequences alignments.
Automated pipeline for RT-PCR primer design, targeted at exon-junction sites.
Automated pipeline for RT-PCR primer design, targeted to span intronic sequences.
Search for validated PCR primers for DNA methylation analysis.
Conduct a variety of analysis of DNA and protein sequences.
Design PCR primers for protein-protein interaction experiments.
Implementation of the automated pipeline for Southern Blot probe design, described by Croning et al.
Design PCR primers to amplify sets of cross-species genetic marker candidates targeting either legumes or grasses.
Design oligonucleotides to support the development of in vitro gene synthesis.
Use to create genetic constructs
Advanced Oligo Design and Analysis.
Search for information on oligonucleotides or primers of the immunoglobulins (IG) and T cell receptors (TR).
Evaluate the specificity of PCR primers.
A fast thermodynamics-based program for checking PCR primer specificity.
A database of sequence-tagged sites (STSs) and a user interface for mapping partial deletions in the male-specific region of the human Y chromosome (MSY).
Design PCR primers for methylation PCR.
Examine the comprehensive database of 16S rDNA prokaryotic multiple sequence alignment.
Design primers for PCR-direct sequencing project.
Analyze primers for melting temperature, secondary structures including hairpins, self-dimers, and cross-dimers in primer pairs.
Identify the optimal normalization gene among a set of candidates.
An online tool to estimate and display hybridizations of oligonucleotides onto DNA sequences.
Search for information about pangenomic oligonucleotide microarray probe sets.
Calculate DNA and RNA single-stranded and double-stranded properties, including molecular weight, solution concentration, melting temperature, estimated absorbance coefficients, inter-molecular self-complementarity estimation and intra-molecular hairpin loop formation.
Design optimal LNA (locked nucleic acid) substituted oligonucleotides for functional genomics applications.
Select gene-specific fragments and then design PCR primer pairs to amplify fragments suitable for microarray probes.
Design various PCR primers on PC, Mac or Linux based system.
Design PCR primers based on multiple sequence alignment of homologous DNA sequences.
Find conserved PCR primers across multiple species based on a multiple nucleotide alignments.
Find conserved PCR primers across multiple species based on a multiple nucleotide alignments.
Design and evaluate PCR primers.
Use Primer3 algorithm to batch design PCR primers for Fluorescence Polarization (FP) experiments.
Design optimum PCR primers from nucleotide sequences.
Design PCR primers with this easy to use and powerful new web interface for Primer3.
Obtain human and mouse primer pairs for PCR.
Design highly specific and accurate multiplex genomic PCR primer for human genome.
Design PCR primers for site-directed mutagenesis using DNA or protein sequences.
Design primers for genes and human SNPs.
Design PCR primers for amplifying probes for cDNA arrays, with the goal of reducing or eliminating cross-hybridizations.
Automatically position contigs from an unfinished prokaryotic genome onto (parts of) a template genome of a closely related strain or species in order to close a significant number of remaining gaps in the late stages of a genome sequencing project.
Align, visualize and quantify bisulfite sequence data for CpG methylation analysis.
Search for validated real time PCR primer and probe sequences.
Automatically design PCR primers for large-scale amplification and sequencing projects aimed at constructing single nucleotide polymorphisms (SNPs) maps.
Evaluated SNP genotyping primers by mapping primers to (batch) SNPs' amplicons/gDNA sequence.
Conduct genome-wide identification of SNPs in microorganisms.
Perform gene specific SNPs analysis for human genes.
Use a collection of bioinformatics tools at this portal site.
Search for various information and analyze repeats in genomic DNA.
Design of primer sets encompassing single nucleotide polymorphisms (SNPs), all exons of a single gene, all open reading frames in a list of cDNAs or the creation of overlapping PCR products.
Use to develop oligonucleotide primers for LCR and PCR.
Map the locations of a pair of PCR primers in the genome of a model organism.
A web-based relational database of microsatellites present in unigene sequences covering 80 genomes.
Search for virus specific oligonucleotides.
Calculate a consensus melting temperature (Tm) for any given short DNA sequence (16-30 nts).
Accurately normalize the real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes.
Find primer binding sites and analyze specificity of PCR based assays that use bisulfite converted DNA as input material, including bisulfite sequencing, methylation-specific PCR (MSP), combined bisulfite restriction analysis (COBRA), bisulfite-PCR-SCCP (BiPS), methylation-sensitive single-nucleotide primer extension (Ms-SNuPE).
Design PCR primers for DNA from different species.
Evaluate probe and primer specificity.
Search for qRT PCR primers for human RefSeq sequences.
Search for qRT PCR primers for mouse RefSeq sequences.