These leaderless mRNAs include not only hundreds of previously annotated genes but also a high number of additional transcripts for novel peptides and proteins.
Such annotations will include details of additional transcripts and information for mapping the LRG sequence onto genome assemblies (for example, currently NCBI 36 and Genome Reference Consortium Human (GRCh) 37) as well as cross-referencing of features in the fixed-annotation layer to legacy coordinate systems.
Bioinformatic searches in various databases (i.e. http://www.ensembl.org/) revealed that for many loci additional transcripts were described, including transcripts from both strands (e.g. HLXB9, TAC3, SEC13, CHIT1 and COL22A), which could influence the results.
Three additional transcripts, for which corresponding EST sequences were identified in the S. gregaria database, were also evaluated as (putative) positive controls in this study (Table 5).
The AllFam database indicated five additional transcripts for allergenic proteins.
There were three additional transcripts for which we could adequately design a real-time PCR assay and for which probe alignments are shown [see Additional file 3].
Finally, we rehybridized our original biological samples to an updated microarray to expand the depth of our screen, and chose additional transcripts for analysis (n = 162).
For some researchers, information about additional transcripts with lower scores (which also align uniquely to a single-copy protein) may be of particular interest.
Production of HIV-derived lentiviral vectors is performed by transfecting vectors harbouring self-inactivating long terminal repeat (LTR) regions together with the transgene on one vector (the transfer vector), while the additional transcripts required for packaging (Gag/Pro/Pol) and encapsulation (Env) are encoded on separate vectors [ 3].
Four additional transcripts encoding for stress related gene (stress-induced protein – STI1) and components of the NF-kB pathway (tumor necrosis factor receptor-associated factor – TRAF-6, Toll like receptor – TLR) and complement system (C1q-TNF related protein) were selected from the hemocyte library.
