Identifies the conserved domains present in a protein sequence. CD-Search uses RPS-BLAST (Reverse Position-Specific BLAST) to compare a query sequence against position-specific score matrices that have been prepared from conserved domain alignments present in the Conserved Domain Database (CDD).

The Entrez Programming Utilities (E-utilities) are a set of eight server-side programs that provide a stable interface into the Entrez query and database system at the National Center for Biotechnology Information (NCBI). The E-utilities use a fixed URL syntax that translates a standard set of input parameters into the values necessary for various NCBI software components to search for and retrieve the requested data. The E-utilities are therefore the structured interface to the Entrez system, which currently includes 38 databases covering a variety of biomedical data, including nucleotide and protein sequences, gene records, three-dimensional molecular structures, and the biomedical literature. Technical Documentation at http://www.ncbi.nlm.nih.gov/books/NBK25501/

A tool that allows users to construct an E-utility analysis pipeline using an online form, and then generates a Perl script to execute the pipeline.

UniVec and UniVec_Core databases in FASTA format.

The BioSample database contains descriptions of biological source materials used in experimental assays.

Provides an overview of the C++ language with a focus on its use in accessing resources of the National Center for Biotechnology Information at the National Library of Medicine, National Institutes of Health.

An automated analytical system for producing organized views of the transcriptome from a growing number of organisms. UniGene was retired in July 2019; however, you will continue to be able to access archived data.

Sequence databases in FASTA format for use with the stand-alone BLAST programs. These databases must be formatted using formatdb before they can be used with BLAST.

Whole Genome Shotgun (WGS) projects are genome assemblies of incomplete genomes or incomplete chromosomes of prokaryotes or eukaryotes that are generally being sequenced by a whole genome shotgun strategy. WGS projects may be annotated, but annotation is not required. NCBI has a Prokaryotic Genomes Annotation Pipeline that may be requested at the time the genome files are submitted to GenBank. This pipeline generates a submission-ready annotated file that is posted back to the submitter for review and which the submitter could edit prior to data release.

The public WGS projects are at the list of WGS projects. https://www.ncbi.nlm.nih.gov/Traces/wgs/

Three dimensional structures provide a wealth of information on the biological function and the evolutionary history of macromolecules. They can be used to examine sequence-structure-function relationships, interactions, active sites, and more.