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Table 2 Sequences of single-stranded oligonucleotides binding at the hprt coding strand

From: Simultaneous targeted exchange of two nucleotides by single-stranded oligonucleotides clusters within a region of about fourteen nucleotides

Oligonucleotide

Sequence

Oligonucleotides with a first mismatch at position 153 and a second mismatch at position 147 in different distances to the 3'-end

C47-153-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCG AGTCTT-3'

C53-153-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCG AGTCTTTCAGTC-3'

C59-153-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCG AGTCTTTCAGTCCTACAA-3'

C65-153-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCG AGTCTTTCAGTCCTACAAAAATAG-3'

C71-153-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCG AGTCTTTCAGTCCTACAAAAATAGAATCAC-3'

Oligonucleotides with a first mismatch at position 151 and a second mismatch in various distance to the first

H1-151

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCTCG GGCAAGTCTTTCAGTCCTACAA-3'

H7-151-141

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCTCG GGCAAGTCTC TCAGTCCTACAA-3'

H5-151-144

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCTCG GGCAAGC CTTTCAGTCCTACAA-3'

H3-151-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCTCG GGCG AGTCTTTCAGTCCTACAA-3'

H2-151-150

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCTCGA GCAAGTCTTTCAGTCCTACAA-3'

H4-151-156

5'-TATATCCCCATATA CCCATCTCTTTCATGACG TCTCG GGCAAGTCTTTCAGTCCTACAA-3'

H6-151-159

5'-TATATCCCCATATA CCCATCTCTTTCATA ACATCTCG GGCAAGTCTTTCAGTCCTACAA-3'

H8-151-165

5'-TATATCCCCATATA CCCATCTCC TTCATGACATCTCG GGCAAGTCTTTCAGTCCTACAA-3'

H9-151-168

5'-TATATCCCCATATA CCCATT TCTTTCATGACATCTCG GGCAAGTCTTTCAGTCCTACAA-3'

Oligonucleotides with a first mismatch at position 153 and a second mismatch in various distance to the first

H153-1T

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCAAGTCTTTCAGTCCTACAA-3'

C153-147

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAGGCG AGTCTTTCAGTCCTACAA-3'

C153-150

5'-TATATCCCCATATA CCCATCTCTTTCATGACATCG CAA GCAAGTCTTTCAGTCCTACAA-3'

C153-156

5'-TATATCCCCATATA CCCATCTCTTTCATGACG TCG CAGGCAAGTCTTTCAGTCCTACAA-3'

C153-159

5'-TATATCCCCATATA CCCATCTCTTTCATA ACATCG CAGGCAAGTCTTTCAGTCCTACAA-3'

Oligonucleotides with a first mismatch at position 151 and a second mismatch in various distance to the first

O45-151-147

5'-C*C*C*A*TCTCTTTCATGACATCTCG GGCG AGTCTTTCAGTCCT*A*C*A*A-3'

O45-151-150

5'-C*C*C*A*TCTCTTTCATGACATCTCGA GCAAGTCTTTCAGTCCT*A*C*A*A-3'

O42-151-156

5'-T*C*C*C*ATCTCTTTCATGACG TCTCG GGCAAGTCTTTCAG*T*C*C*T-3'

O45-151-159

5'-C*C*C*A*TCTCTTTCATA ACATCTCG GGCAAGTCTTTCAGTCCT*A*C*A*A-3'

Oligonucleotides in different length with a first mismatch at position 151 and a second mismatch at position 159

O-25-151C-159T

5'-T*T*T*C*ATA ACATCTCG GGCAAG*T*C*T*T-3'

O-30-151C-159T

5'-C*T*C*T*T TCATA ACATCTCG GGCAAGTC*T*T*T*C-3'

O-45-151C-159T

5'-C*C*C*A*TCTCTTTCATA ACATCTCG GGCAAGTCTTTCAGTCCT*A*C*A*A-3'

O-48-151C-159T

5'-C*C*T*C*CCATCTCTTTCATA ACATCTCG GGCAAGTCTTTCAGTCCT*A*C*A*A-3'

  1. The 5' TA-clamps are indicated in italics and the phosphorothioates are indicated by asterisks. The positions of the first and second mismatch are indicated in bold and underlined.
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BMC Molecular Biology

ISSN: 1471-2199

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