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 Plasmodium |
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Entrez Map Viewer Gets a Home Page The Entrez Map Viewer displays combinations of physical, genetic and sequence-based chromosomal maps for a variety of organisms ranging from yeast and Plasmodium falciparum to plants such as Arabidopsis thaliana, insects such as Drosophila melanogaster to mammals such as Mus musculus and Homo sapiens. Map Viewer displays for over a dozen organisms can now be accessed from a single Map Viewer home page using either a pull-down menu or a phylogenetic diagram. Links to genomic BLAST searches, in which BLAST results are displayed in their genomic context using the Map Viewer, are also provided. Searches for genetic loci for any of the genomes displayed in the Map Viewer may be launched directly from the home page. The new Map Viewer home page is accessible via the “Map Viewer” link under “Hot Spots” on the NCBI home page. Drosophila Release 3 in GenBank and on Display in the Map Viewer Release 3 of the annotated genomic assembly of the euchromatic arms of the six Drosophila melanogaster chromosomes is now available in GenBank. Annotated on this assembly are 13,500 genes, encoding at least 18,000 proteins. The genome may be viewed in the Map Viewer using an array of 5 maps including a “Band” map showing detailed chromosomal banding patterns; a “ contig” map, showing the position of NCBI NT contigs on the chromosome; a “component” map, showing the disposition of the components that were assembled to construct the contigs; a “transcript” map showing the alignment of transcripts to the genomic sequence; and a “genes_seq” map, showing the positions of annotated genes. Links to the NCBI Sequence Viewer (sv) and Sequence Downloader (seq) are available when the “genes _seq” map is the master. When the “transcript” map is made the master, links to best hit Anopheles gambiae proteins are shown along with links to BLAST2 Sequences alignment displays. The Drosophila Map Viewer can be accessed from the Map Viewer home page. The version 3 Drosophila GenBank chromsomal records with annotations are available at:
In addition, a new Whole Genome Shotgun (WGS) submission of Drosophila contigs sequenced at Celera is available under WGS project accession AABU00000000. New Map in Mouse Map Viewer and Updated Genomic Assembly The mouse Map Viewer has been updated with NCBI’s new annotation of the Mouse Genome Sequencing Consortium’s Whole Genome Shotgun assembly (MGSCv3). This update includes many more contigs assembled from finished BAC sequences, which are displayed in a new “Strain” map that shows those portions of the genome that are covered by sequence arising from various mouse strains. The strain whose sequence is currently on display is indicated by a blue line on the strain map; alternative strain sequences are indicated by orange lines. The current strain is set by clicking on the strain name on the strain map after which the Map Viewer display will be refreshed with the display of the selected strain sequence.
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