NCBI’s Genome resources include information on large-scale genomics projects, genome sequences and assemblies, and mapped annotations, such as variations, markers and data from epigenomics studies. The Genome database contains sequence and map data from the whole genomes of over 1000 species or strains. The genomes show both completely sequenced genomes and those with sequencing in-progress. All three main domains of life (bacteria, archaea, and eukaryotes) are represented, as well as many viruses, phages, viroids, plasmids, and organelles.
Sources that support our data at Genome in NCBI are;
Genome: contain information about organisms’ genomes
Assembly: genome assembly statistics
Nucleotide: genome sequences in the Nucleotide repository
SRAhigh-throughput DNA sequences
GSS: genome survey sequences
Genome BLAST: sequence search tool for genome sequences
Other custom resources at NCBI are;
- Human Genome
- Prokaryotic reference genomes
A recent release of the GenBank database, version 210.0 (released on October 15, 2015), Genome contains over 621 billion base pairs from 2,557 eukaryal genomes, 432 archaeal genomes, and 7,474 bacterial genomes, as well as tens of thousands of viral genomes, organellar genomes, and plasmid sequences
GEO DataSets: functional genomics study data
GEO2R: identifies differentially expressed genes in GEO datasets
Genome Annotation and Analysis are also done at NCBI of following genomes;
- Eukaryotic Genome Annotation
- Prokaryotic Genome Annotation
- Pairwise Sequence Comparison
- BLAST the Human Genome
- Microbial Nucleotide BLAST
Basic Features of Genome
- Loading a Genome
- Six Frame Translations
- Search and View a Gene
- Move and Dock Windows
- Phylogenetic Trees
- Window Masker
- Import BAM and Export Selected Alignments
- Using ProSplign
- Multiple Sequence Aligners in Genome Workbench
- Genome Workbench: The Update Sequence Feature
The history of Genome at NCBI is intimately tied to the history of GenBank and RefSeq. NCBI’s early commitment to reliably and robustly support the simple request to download, view, or analyze a genome resulted in a large suite of resources, tools, and shareable code-base. Complete Human Genome Resource is also present at NCBI.
To search any genome of an organism listed at the Genome database in NCBI, we search for its name by selecting the Genome database. A complete reference page for that organism is opened containing genomic information, genomic features, taxonomic importance, downloaded resources, lineages, NCBI annotations, Releases of that organism, publications and all the complete genome information in the form of chromosomes.
We can obtain the genomic sequence, gene marker sequence by setting the bp numbers in the change region show option according to our need at Gene Table option.
To use the download service, run a search in Assembly, use facets to refine the set of genome assemblies of interest, open the “Download Assemblies” menu, choose the source database (GenBank or RefSeq), choose the file type, then click the Download button to start the download for that genome.