Table 1 Classification of the MPSS cDNA signatures. The signature classification used for annotation is shown * The Class 0 signatures are the signatures that hit genome more than 100 times, which is treated as a "repeat sequence". ** The polyA tail is defined as a stretch of A's (at least 13 out of 15 bases) that is no more than 50 bases away from the end of the source sequence. The polyA signal is either AATAAA or ATTAAA that has at least one base within the last 50 base before the end of the source sequence or the polyA tail. *** All the virtual signatures extracted from the genomic sequences are classified as class 1000 signatures.
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 | Â | Poly-A Signal | 3' most |
3 | Â | Poly-A Tail | 3' most |
4 | Â | None | 3' most |
5 | Â | None | Not 3' most |
6 | Â | Internal Poly-A | Not 3' most |
11 | Reverse Strand | Poly-A Signal, Poly-A Tail | 5' most |
12 | Â | Poly-A Signal | 5' most |
13 | Â | Poly-A Tail | 5' most |
14 | Â | None | 5' most |
15 | Â | None | Not 5' most |
16 | Â | Internal Poly-A | Not 5' most |
22 | Unknown | Poly-A Signal | Last before signal |
23 | Â | Poly-A Tail | Last before tail |
24 | Â | None | Last in sequence |
25 | Â | None | Not last |
26 | Â | Internal Poly-A | Not 3' most |
1000*** | Unknown – Derived from Genomic Sequence | Not applicable | Not applicable |