BatchPrimer3 -- a high throughput web application for PCR and sequencing primer design
What you can do:
Design different types of PCR primers and sequencing primers in a high-through manner.
Highlights:
- BatchPrimer3 adopted the Primer3 core program as a major primer design engine to choose the best primer pairs.
- A new score-based primer picking module is incorporated into BatchPrimer3 and used to pick position-restricted primers.
- BatchPrimer3 v1.0 implements several types of primer designs including generic primers, SSR primers together with SSR detection, and SNP genotyping primers (including single-base extension primers, allele-specific primers, and tetra-primers for tetra-primer ARMS PCR), as well as DNA sequencing primers.
- DNA sequences in FASTA format can be batch read into the program.
- The basic information of input sequences, as a reference of parameter setting of primer design, can be obtained by pre-analysis of sequences.
- The input sequences can be pre-processed and masked to exclude and/or include specific regions, or set targets for different primer design purposes as in Primer3Web and primer3Plus.
- A tab-delimited or Excel-formatted primer output also greatly facilitates the subsequent primer-ordering process.
Keywords:
- PCR primers
- primer design
- sequencing primers
- Primer3
- position-restricted primers
- SSR primer
- SNP primer
Literature & Tutorials:
This record last updated: 04-17-2014