REV pol (reverse transcriptase and integrase) reverse
- Sequence (5′ to 3′)
ACATCGTGCCCGGAGC- Reverse complement (5′ to 3′)
GCTCCGGGCACGATGT- Direction
- reverse
- Target
- REV pol
- Set
- PCR REV pol (reverse transcriptase and integrase)
- Pairs with
- REV pol (reverse transcriptase and integrase) forward
- Length
- 16 nt
- GC content
- 68.8%
- Melting temperature estimate (Tm)
- 60 °C
- Annealing temperature
- Depends on the polymerase: NEB Tm Calculator
- Used in
The melting temperature (Tm) is an estimate for comparing primers with each other, computed from the sequence with the SantaLucia (1998) unified nearest-neighbour model (SantaLucia J Jr (1998), Proc Natl Acad Sci USA 95:1460-1465) at 50 mM monovalent cation and 0.5 µM primer. These are standard reporting conditions, not those of any one reaction buffer. A sequence with an ambiguity code has no single Tm and shows none. The Tm estimate is not an annealing temperature. For the annealing temperature of a particular polymerase, use the NEB Tm Calculator.
In the literature
- Published in
- Not found: Stewart et al. 2019 does not print this primer. It cites Barbosa et al. 2007 (Virus Res 124:68-77, doi 10.1016/j.virusres.2006.10.002) for the REV pol segments; that paper and Stewart et al.'s supplement could not be read (publisher access blocked).
- Name in the paper
- Not found: The paper that prints it could not be read (see published_in).
- Sequence in the paper
- Not found: The paper that prints it could not be read (see published_in).
On the reference
- Reference
- DQ387450.1: Reticuloendotheliosis virus strain APC-566, complete genome
- Position
- 5551 to 5566, - strand, 1 mismatch (primer base 4, counted from its 5′ end)
- Product with REV pol (reverse transcriptase and integrase) forward
- 801 bp, 4766 to 5566
Positions and product sizes are computed from the sequence and the reference by the site’s own tested primer code, in the accession’s own coordinates, and are not copied from a paper. A primer is looked for exactly first, then with more mismatches up to 4, and any mismatch is shown.