Genome features - giffordlabcvr/Parvovirus-GLUE GitHub Wiki

The Parvovirus-GLUE core project provides a minimal set of essential data components for performing comparative genomic analysis of parvoviruses.

The data items included in the core project are:

  1. A set of parvovirus genome feature definitions covering all genera.

  2. An annotated reference genome sequence for each parvovirus genus (i.e. one species per genus).

  3. A hierarchically arranged set of multiple sequence alignments representing sequence homology among parvovirus reference sequences.

Genome Features

Parvovirus-GLUE** defines a standard set of genome features for parvoviruses and defines the locations of these genome features on genus master reference sequences.

Parvoviruses have linear, single-stranded DNA genomes ~5 kilobases (kb) in length. They are typically very compact and generally exhibit the same basic genetic organisation comprising two major gene cassettes, one (Rep/NS) that encodes the non-structural proteins, and another (Cap/VP) that encodes the structural coat proteins of the virion.

CPV genome

A schematic representation of the canine parvovirus (CPV) genome. NS=non-structural; VP=capsid; PLA2=phospholipase A2; ITR=inverted terminal repeat; Kb=kilobases

Some species and genera encode additional polypeptide gene products adjacent to these genes or overlapping them in alternative reading frames.

The genome is flanked at the 3' and 5' ends by palindromic inverted terminal repeat (ITR) sequences that are the only cis elements required for replication.