title: MPSS 17bp [DpnII: Mus musculus] signature list
status: Public on Jan 01 2007
contact.city: Boston
contact.first: Winston
contact.middle: Patrick 
contact.last: Kuo
contact.email: wkuo@genetics.med.harvard.edu
contact.state: MA
contact.address: 188 Longwood Avenue
contact.department: Genetics
contact.country: USA
contact.institute: Harvard Medical School
organism: Mus musculus
description: 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