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Table 3 Oligonucleotides

From: Gain and loss of an intron in a protein-coding gene in Archaea: the case of an archaeal RNA pseudouridine synthase gene

name

sequence (5' to 3')*

target (peptide sequence)**

P-486

GAGCGGATAACAATTTCACACAGG

pUC/M13 rv

P-517

CCTACCCCATGAGAGGCCGTTGGA

A. pernix, fw

P-518

GGCCTATGGAGCTGCATCACGCA

A. pernix, rv

P-583

GTTTTCCCAGTCACGACGTTGTA

pUC/M13 fw

P-1516

gagcggataacaatttcacacaggaVKGGKGGYYTYTGRTADAT

cbf5, rv (IYQ(K/R)PP(L/V))

P-1607

gttttcccagtcacgacgttgtaGGKCCKACKTCKCAYGARGT

cbf5, fw (GPTSHEV)

P-1608

gttttcccagtcacgacgttgtaGGKCCKACKAGYCAYGARGT

cbf5, fw (GPTSHEV)

P-1609

gagcggataacaatttcacacaggARYTCKCCYTTNAGNGT

cbf5, rv (TLKGEL)

P-1610

gagcggataacaatttcacacaggARYTCKCCYTTYAANGT

cbf5, rv (TLKGEL)

P-1835

gttttcccagtcacgacgttgtaGGKCCKACNAGYCAYGA

cbf5 fw (GPTSHE)

P-1838

gagcggataacaatttcacacaggTKGGRTCNAGNGTNCC

cbf5 rv (TTLDP(K/N/R))

P-1856

GGTTGTAGCGTGGCTTAGGAAGCT

T. pendens, fw

P-1857

GCTCCTAGGGATAGAGAGAATAGC

T. pendens, fw

P-1860

TCGAACCTCCCTCTTCACAGCAGA

Thermofilum, rv

P-1862

CAGCTTCGCACCAGACATGGAGGA

Thermofilum, rv

P-1911

gttttcccagtcacgacgttgtaGGKCCKAGYAGYCAYGA

cbf5, fw (GPSSHE)

  1. *; sequencing primer binding site is shown in lower case.
  2. **; fw; forward, rv; reverse
  3. K = G or T; R = G or A; Y = T or C; N = T, C, G or A; D = T, G, or A; V = C, G or A; S = C or G.