MPSS signatures detected in Lynx mouse transcriptome analysis experiment.
To generate a complete, annotated mouse signature database, we extracted all the possible signatures (“virtual signatures”) from the mouse genome sequence (NCBI build 33) and the mouse UniGene sequences (UniGene build #145). Each virtual signature is ranked based on its position and orientation in the original sequence. The annotation for that sequence is then assigned to the signature and the resulting signature database is used to annotate the data from the experiments, using our “TopHit” algorithm.
Virtual Signature Class| mRNA Orientation| Poly-Adenelation| Features| Position ------------------------------------------------------------------------------------------ 0 Either - Repeat Warning Not applicable Not applicable 1 Forward Strand Poly-A Signal, Poly-A Tail 3' most 2 Forward Strand Poly-A Signal 3' most 3 Forward Strand Poly-A Tail 3' most 4 Forward Strand None 3' most 5 Forward Strand None Not 3' most 6 Forward Strand Internal Poly-A Not 3' most 11 Reverse Strand Poly-A Signal, Poly-A Tail 5' most 12 Reverse Strand Poly-A Signal 5' most 13 Reverse Strand Poly-A Tail 5' most 14 Reverse Strand None 5' most 15 Reverse Strand None Not 5' most 16 Reverse Strand Internal Poly-A Not 3' most 22 Unknown Poly-A Signal Last before signal 23 Unknown Poly-A Tail Last before tail 24 Unknown None Last in sequence 25 Unknown None Not last 26 Unknown Internal Poly-A Not 3' most 1000 Unknown - Derived from Genomic Sequence Not applicable Not applicable
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