Table 4 Selection of cDNAs classified as "bad_multiple_exon_cdna" by CAFTAN.
From: CAFTAN: a tool for fast mapping, and quality assessment of cDNAs
| Â | cDNA_Name | Signal | VEGA_matcht | VEGA match | Problem |
|---|---|---|---|---|---|
1 | OTTHUMT00000002088 | No signal | perfect | TNFRSF14-001 | The sequence ends with the poly A signal AAUAUA |
2 | OTTHUMT00000002210 | No signal | perfect | SLC35E2-001 | Partial Sequence in the 3' UTR end. The sequence is longer and for that reason is not possible to find the polyA signal |
3 | OTTHUMT00000003581 | No signal | perfect | PARK7-005 | Partial Sequence in the 3' UTR end. The sequence is longer and for that reason is not possible to find the polyA |
4 | OTTHUMT00000003582 | No signal | perfect | PARK7-006 | RPL20 Gen, eventually (A)ATGAA(A) signal |
5 | OTTHUMT00000004064 | No signal | perfect | C1orf86-001 | Not a perfect cDNA, the last exon fails and for that reason it is not possible to find a polyA signal |
6 | OTTHUMT00000004201 | No signal | perfect | PHF13-001 | False 3' end (artefact), the real 3' end is upstream from this point and is supported by many ESTs and a canonical polyA signal |
7 | OTTHUMT00000005013 | No signal | perfect | CTNNBIP1-002 | Good cDNA, this cDNA does not have canonical or typical non-canocial polyA signals checked in CAFTAN. Putative polyA signal: ATGTAAATAT |
8 | OTTHUMT00000005014 | No signal | perfect | CTNNBIP1-003 | The real 3' UTR is a little bit longer and contains a canonical polyA signal 20 bp upstream from the polyA tail. |
9 | OTTHUMT00000005015 | No signal | perfect | CTNNBIP1-004 | Partial Sequence in the 3' UTR end, fail the terminal bases, which make a perfect canonical polyA signal (AAUAAA) 15 bp upstream from the polyA tail |
10 | OTTHUMT00000005017 | No signal | perfect | UBE4B-002 | Partial Sequence in the 3' UTR end, fail many terminal bases, which make a perfect canonical polyA signal (AAUAAA) |
11 | OTTHUMT00000005070 | No signal | perfect | SDF4-002 | Partial Sequence in the 3' UTR end, fail almost all the 3 'UTR |
12 | OTTHUMT00000005103 | No signal | perfect | KIF1B-002 | Partial Sequence in the 3' UTR end, fail almost all the 3 'UTR |
13 | OTTHUMT00000005105 | No signal | perfect | KIF1B-004 | Partial Sequence in the 3' UTR end, fail almost all the 3 'UTR |
14 | OTTHUMT00000005430 | No signal | perfect | UBE2J2-001 | Partial Sequence in the 3' UTR end, fail almost all the 3 'UTR |