| AMIGene | Annotation of Microbial Genes |
| Benchling | Online tools for vector editing, restriction analysis, primer search, multi-sequence alignment, and more. |
| Clustal Omega | Multiple sequence alignment of DNA or protein sequences. Clustal Omega replaces the older ClustalW alignment tools. |
| Countcodon | Generates a codon usage table for the input sequence. |
| CpGplot | Program to plot CpG rich areas in a nucleic acid sequence |
| DNAWorks | A web tool for optimizing melting temperature during gene synthesis. |
| EGassember | Aligns and merges sequence fragments resulting from shotgun sequencing or gene transcripts (EST) fragments in order to reconstruct the original segment or gene |
| ENA | The European Nucleotide Archive (ENA) provides a comprehensive record of the world’s nucleotide sequencing information, covering raw sequencing data, sequence assembly information and functional annotation |
| GeneMark | A family of gene prediction programs, Eucaryotes; Bacteria; viruses… |
| Genome Compiler | Allows you to manipulate genetic information; from genes to plasmids to whole genomes. You can rapidly access extensive libraries of genetic parts, and easily order your final design from a variety of providers. |
| GeneDesign | Collection of online tools for codon optimization and shuffling, restriction site editing, and so on. |
| Genscan | Predicting the locations and exon-intron structures of genes in genomic sequences from a variety of organisms. |
| make-na | Automatic production of DNA double helix with sequence input. |
| NEB Cutter | Tool for finding restriction sites. |
| ORF Finder | ORF Finder (Open Reading Frame Finder). |
| RNA/DNA secondary structure prediction and design | PairFold predicts the minimum free energy secondary structure formed by two input DNA or RNA molecules. |
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Molecular Medicine Israel
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