- DNA translator - Translates a plane format of the DNA sequence (first ORF only) to amino acid sequence. Provides numbering of every 10th AA and every 30th bp and align them by codon.
- Graphical Codon Usage Analyzer - Displays the codon quality in two different ways, codon usage frequency or relative adaptiveness values. FAQ included.
- LIC Generator - Generates primers for Ligation Independent Cloning (LIC).
- NEBcutter - Provides a DNA sequence analysis to find restriction enzymes sites. Finds also non-overlapping open reading frames using the E.coli genetic code.
- Oligo Calc: Oligonucleotide Properties Calculator - Provides reverse complement sequence for DNA or RNA primer strands, self complementarity check, physical and thermodynamic constants, melting temperature (Tm). Includes calculation formulas.
- ORF Finder - Identifies all ORFs using the standard or alternative genetic codes. Provides an interactive, graphical interface and allow for saving of a deduced amino acid sequence in various formats. Allows searching against the sequence database using the BLAST server.
- PlasMapper - Offers server generated plasmid maps and image files, from input DNA sequences up to 20,000 bp. Includes citation, and dowloadable source code. Maintained by the University of Alberta, USA.
- Primer-BLAST - Provides primers specific to the PCR template sequence. Includes primer pair specificity checking against a selected database.
- QualTrace Online - Analyses up to three trace files collected on the ABI 3730 and 3730xl DNA sequencers.
- RaCC: Rare Codon Calculator - Determines the number and highlights a rare E. coli codons in a provided DNA sequence. Maintained by UCLA, USA.
- Rare Codon Analysis - Provides graphical and numerical representation of the codon adaptation index, frequency distribution and GC content of the DNA sequence. Maintained by the GenScript, USA.
- Readseq - Converts amino acid and nucleotide sequence data formats including FASTA, GenBank, Phylip and others. Maintained by NIH, USA.
- REBASE - The restriction enzyme database. Maintained by the New England Biolabs, USA.
- REBsites - Provides restriction enzyme digest analysis of the input DNA sequence. Results are presented graphically as a "virtual gel".
- RestrictionMapper - Finds restriction enzyme cleavage sites in linear and circular DNA sequences. Provides also a virtual digest function.
- Silent - Silent mutation restriction enzyme scan. Finds new restriction sites to insert (mutate) with no translation change.
- StarORF - A Java application that facilitates the identification of potential ORFs, based on provided DNA sequence and probable ORF length.
- TACG - DNA restriction enzyme analysis. Provides a number of hits per enzyme and a list of non-cutters. Allows for selection of the enzymes and parameters.
- WatCut - Provides restriction analysis, silent mutation scanning and SNP-RFLP analysis. Allows for utilization of all commercially available type II restriction enzymes.
- Webcutter 2.0 - Provides a map of restriction enzyme sites and a list of non-cutting enzymes for a corresponding DNA sequence.
Last update: Apr 28, 2012 18:35:00. Phy.org is a private web site, powered by the Open Directory Project.
