Skip to main content
. Author manuscript; available in PMC: 2016 Mar 15.
Published in final edited form as: Exp Physiol. 2009 Aug 14;94(12):1163–1173. doi: 10.1113/expphysiol.2009.049692

Table 1.

Sequences of oligonucleotides, wild-type and various mutations used in electrophoretic mobility shift assays (see Fig. 2A)

–1967 SEF NF1 RAR/TR RAR/TR GR GATA TTF1
CAAAGCCTGGTTTTTGTCGCTTGGACCTGACCCAGGCTGACCCAATGTTCTCAGTGCCTTATCATGCCCTCAAGAGCTTG
WT –1967 to –1887
CAAAGCCTGGTTTTTGTCGCTTGGACCTGACCCAGGCTGACCCAATGTTCTCAGTGCCTTATCATGCCCTCAAGAGCTTG
SEFmut
CAAAGCCTGGTcTcTGTCGCTTGGACCTGACCCAGGCTGACCCAATGTTCTCAGTGCCTTATCATGCCCTCAAGAGCTTG
NF1/CTFmut
CAAAGCCTGGTTTTTGTCGCTaGGACCTGACCaAGGCTGACCCAATGTTCTCAGTGCCTTATCATGCCCTCAAGAGCTTG
RARmut
CAAAGCCTGGTTTTTGTCGCTTGGACCcGtaCCAGGCcGtaCCAATGTTCTCAGTGCCTTATCATGCCCTCAAGAGCTTG
GRmut
CAAAGCCTGGTTTTTGTCGCTTGGACCTGACCCAGGCTGACCCAATGcTCTCAGTGCCTTATCATGCCCTCAAGAGCTTG
GATAmut
CAAAGCCTGGTTTTTGTCGCTTGGACCTGACCCAGGCTGACCCAATGTTCTCAGTGCCTTgaCATGCCCTCAAGAGCTTG
TTF1mut
CAAAGCCTGGTTTTTGTCGCTTGGACCTGACCCAGGCTGACCCAATGTTCTCAGTGCCTTATCATGCCtTCAgGAGCTTG

The top sequence shows the 80 bp sequence and location of all putative binding sites. Underlined characters depict boundaries of binding sites. Six different oligonucleotides harboured a mutation of a different binding site located serially along the sequence. WT is the wild-type sequence. A site that is mutated is bold and underlined, while a mutated base is in lowercase. Putative transcription factor consensus binding sites were identified using Internet sources (TESS, MatInspector, www.cbil.upenn.edu/cgi-bin/tess/tess)