Web Bench

Genetic Code Nucleotide Symbols Sequence Formats
& Conversions DNA Analysis Software Codon Usage DNA Properties Oligos & Primers Restriction Enzymes Sequencing Plasmids & Vectors E. coli Strains

MolBio

Manipulation of Nucleic Acid Sequences
	Properties
	DNA Molecular Weight	Calculate the molecular weight of DNA; single-stranded sequences are counted with a 5'-P.
	Reverse Complement	Convert a DNA sequence into its reverse, complement, or reverse-complement.
	Alignments
	Pairwise DNA Alignment	Align two DNA sequences and color the resulting global alignment.
	ORFs, Codons & Translation
	Translation Map	Generate a textual representation of DNA translation in varied reading frames.
	Translate	Translate one or more provided DNA sequence in the desired reading frames.
	Back Translate	Back Translate generates a DNA sequence representing the most likely non-degenerate coding sequence from a protein sequence and draw the corresponding translation map.
	Codon Usage	Calculate the number and frequency of each codon.
	ORF Finder	Search for open reading frames (ORFs) in the provided DNA sequences.
	Transseq	Translate DNA in varied formats (GCG, FASTA, EMBL, GenBank, PIR, NBRF or Phylip).
	Translate DNA	Online tool with varied graphical output options.
	Restriction Enzymes
	Restriction Map	Create a sequence map showing the positions of restriction endonuclease cut sites.
	Restriction Summary	Summary of number and positions of commonly used restriction endonuclease cut sites.
	Restriction Digest	Determine the DNA sequences resulting from a restriction digest.
	PCR and Primers
	Primer Map	Create a sequence map showing annealing positions of PCR primers, protein translation, and common restriction sites.
	PCR Products	Generate the PCR product from a DNA sequence and 2 primers.
	Oligonucleotide Analysis	Determine standard primer properties, including melting temperature, percent GC content, and PCR suitability.
	Sequence Statistics, Patterns & Motifs
	DNA Pattern Search	Locate DNA patterns and motifs along the two strands of a DNA sequence.
	CpG Islands	Detect potential CpG island regions using a 200 bp window according to the method of Gardiner-Garden and Frommer (1987).
	DNA Stats	DNA Stats analyzes occurrences and frequency of each nucleotide and dinulceotides in the sequence.
	Random Sequences
	Random DNA	Generates a random DNA sequence.
	Random Coding DNA	Generates a random coding DNA sequence.
	Shuffle DNA	Randomly shuffles a DNA sequence.
	Seqmake	Online tool to generate random sequences.
	Format Conversion
	Genbank to FASTA	Convert a Genbank-formatted DNA sequence in FASTA format.
	EMBL to FASTA	Convert an EMBL-formatted DNA sequence in FASTA format.
	Genbank Feature Extractor	Extract sequence features from a Genbank-formatted DNA sequence.
	EMBL Feature Extractor	Extract sequence features from an EMBL-formatted DNA sequence.
	Filter DNA	Removes non-DNA characters from text including text marks, numbers, and spaces.
	Format DNA	Format DNA sequence output with selected line length, segments, and base numbering.
	Combine FASTA	Assemble multiple FATA sequences in a single sequence.

Manipulation of Protein Sequences
	Properties
	Protein Molecular Weight	Convert a Genbank-formatted DNA sequence in FASTA format.
	Protein Isoelectric Point	Calculate the theoretical isoelectric point of a protein sequence.
	Protein GRAVY	Calculate the GRAVY (grand average of hydropathy) value for a protein sequence.
	Alignments
	Pairwise Protein Alignment	Align two protein sequences and color the resulting global alignment.
	Protein Statistics, Patterns & Motifs
	Protein Pattern Search	Locate patterns and motifs along the polypeptide sequence of a protein.
	Protein Stats	Calculate the number of occurrences of each residue in a polypeptide sequence.
	Random Sequences
	Random Protein	Generate random protein sequences.
	Shuffle Protein	Shuffle protein sequences.
	RandSeq	Online tool to generate a random protein sequence.
	Format Conversion
	GenBank Trans Extractor	Extract each of the protein translations described in a Genbank file.
	EMBL Trans Extractor	Extract each of the protein translations described in an EMBL file.
	Three to One	Convert three letter translations to single letter translations.
	One to Three	Convert single letter translations to three letter translations.
	Filter Protein	Removes non-protein characters from sequence text including text marks, numbers, and spaces.
	Format Protein	Format protein sequence with specific group size, line length and adds numbering.