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Fig. 5. Neurod1 and p27Kip1 are direct Cux2 targets
in the embryonic nervous system. Complexes isolated from E12.5 mouse
brains were immunoprecipitated with either anti-Cux2 or anti-RNA polymerase II
antibodies followed by reverse cross-linking of protein and DNA, and PCR
amplification of a 248 bp fragment of the Neurod1 promoter spanning
+48 to -201 (A), or a 227 bp fragment of the p27Kip1
promoter spanning -707 to -481 (C), relative to the transcription start sites.
(A) Inverse image of ethidium-stained agarose gel showing PCR
amplification of a 248 bp Neurod1 product from genomic DNA (lane 2),
input DNA (lane 5), following ChIP with antibody directed against RNA
polymerase II (lane 8), indicating that the Neurod1 gene is
transcriptionally active, and following ChIP with 5 µl (lane 9) or 10 µl
(lane 10) of anti-Cux2 antibodies, indicating that Cux2 interacts with the
Neurod1 promoter in vivo. (B) To control for non-specific
chromatin immunoprecipitation, a 250 bp product from -5557 to -5308 relative
to the Neurod1 transcription start site was amplified from input DNA
(lane 2), following ChIP with an anti-RNA polymerase II antibody (lane 6), and
following ChIP with 10 µl (lane 7) of anti-Cux2 antibodies. (C) PCR
amplification of a 227 bp p27Kip1 product from genomic DNA (lane
2), input DNA (lane 5), following ChIP with anti-RNA polymerase II antibodies
(lane 8), indicating that p27Kip1 is transcriptionally active, and
following ChIP with 10 ml (lane 9) or 5 ml (lane 10) of anti-Cux2 antibodies,
indicating that Cux-2 interacts with the p27Kip1 promoter in vivo.
(D) To control for non-specific chromatin immunoprecipitation, a 148 bp
product from -5241 to -5094 relative to the p27Kip1
transcription start site was amplified from input DNA (lane 2), following ChIP
with anti-RNA polymerase II antibodies (lane 6), and following ChIP with 10
µl (lane 7) of anti-Cux2 antibodies. In both A and C, controls were water
(lane 3), no antibody (lane 4), normal mouse IgG (lane 6) and normal rabbit
IgG (lane 7). In both B and D, controls were water (lane 3), no antibody (lane
4) and normal rabbit IgG (lane 5).
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