Pseudorabies virus

Pseudorabies virus (PRV)
Gene Image Map The DNA sequence of Pseudorabies Virus (PRV), also called Suid Herpesvirus 1, presented here is based on the Kaplan strain with segments incorporated from five other strains and several new sequences. This sequence comes from a strategy by the Mettenleiter lab in Germany and the Enquist lab at Princeton University to solve the difficulty of precision sequencing a genome with 74% G+C content. The key publication describing this integrated genome is "The Complete Annotated Sequence of the Pseudorabies Virus Genome" by Klupp, Hengartner, Mettenleiter and Enquist, Journal of Virology (in press 2003).

Pseudorabies virus, a non-human pathogen, is included in this collection because of its importance as an alphaherpesvirus model, both in cell biology and pathogenesis. In addition, the PRV genome provides a close, almost one to one, correspondence of genes to HSV-1, a sexually transmitted infection, and VZV, a common childhood infection causing chicken pox. The low sequence similarity of genes, but similar function, provides useful comparisons of gene action. The close relationship between transcript arrangement of PRV, HSV-1, and VZV increases the importance of this comparison. A comprehensive list of PRV References from Medline (1993-2003) is provided. General properties of herpesviruses are reviewed here, Herpesviridae Properties

A graphic overview of the genome is available through the Gene Image Map. The core information in this database is the table of annotated records, one for each gene. Each gene record is identified by a gene id, PRV001 - PRV077. Simple summaries of specific information are available below in the Predefined Database Searches including a complete UTR Table. A program called Tandem Repeats Finder located 77 exact and inexact tandem repeats (mi nimum alignment score 50). Fifty-eight exact direct repeats and 15 more with inverted components, (minimum length 20 bp) were located with Reputer.

The power of a relational database is demonstrated in the ability to search its information. We provide five search tools, each with different characteristics.The Basic Search allows a simple query of many fields for a text term. The Intermediate Search allows the user to search specific tables, to search a range of molecular weights or isoelectric points and to search the protein or nucleotide sequences for simple patterns. The Advanced SQL Search allows those who understand Structured Query Language to construct cross table and more specific queries and the Protein Motif Search allows searching protein sequences for sophisticated amino acid patterns.

User Defined Database Searches
Basic Search
Intermediate Search
Advanced SQL Search
Protein Motif Search
Sequence Search

Predefined Database Searches
Definition Table
Functional Classes Table
Cellular Homolog Table
UTR Table
EC Table

Repeat Tables
           Tandem
           Inverted
           Direct
           All

Visualization
Gene Image Map
PRV - VZV Proteome Comparison
PRV Transcript and Gene Organization