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Table 1 Examples of transcriptome annotations available on the public QuantPrime server

From: QuantPrime – a flexible tool for reliable high-throughput primer design for quantitative PCR

  Annotated features included in QuantPrime   
Species Genomic sequences Splice variants Keyword search Annotation source Reference
254 different species or crosses No No Yes TIGR plant transcript assemblies [22]
91 different species or crosses No No Yes UniGene [23]
Arabidopsis thaliana Yes Yes Yes TAIR release 7 [24]
Aspergillus niger Yes No No* JGI assembly v1.0 Non-published data
Bos taurus Yes No Yes NCBI RefSeq [25]
Chlamydomonas reinhardtii Yes No No* JGI assembly v3.1 [26]
Danio rerio Yes No Yes NCBI RefSeq [25]
Drosophila melanogaster Yes Yes Yes FlyBase release 5.4 [27]
Homo sapiens Yes No Yes NCBI RefSeq [25]
Homo sapiens Yes Yes Yes H-Invitational Database 5.0 [28]
Mus musculus Yes No Yes NCBI RefSeq [25]
Oryza sativa ssp japonica Yes Yes Yes TIGR release 5 [29]
Ostreococcus lucimarinus Yes No No* JGI assembly v2.0 Non-published data
Physcomitrella patens ssp patens Yes No No* JGI assembly v1.1 [30]
Populus trichocarpa Yes No No* JGI assembly v1.1 [31]
Rattus norvegicus Yes No Yes NCBI RefSeq [25]
Saccharomyces cerevisiae Yes No Yes Saccharomyces Genome Database [32]
Selaginella moellendorffii Yes No No* JGI assembly v1.0 Non-published data
Vitis vinifera Yes No No Genoscope assembly [33]
Xenopus tropicalis Yes No Yes NCBI RefSeq [25]
  1. The latest versions of the annotations were added, and are updated regularly as updates become available.
  2. * Protein IDs are searchable.