A comparative genomics approach to identifying the plasticity transcriptome

Table 2 Experimental support for binding site activity

protein	gene name	site expected	site found	Dataset ^a	verification
activity-related cytoskeletal protein	arc	zif268	none	n/a^b	[83]
BDNF	bdnf	CREB	none	n/a^c	[84, 85]
beta-polymerase	polb	CREB	CREB	C	[86]
cathepsin L	ctsl	CREB	CREB	C	[87]
c-fos	fos	CREB	CREB	M	[88, 89]
early response gene 3	egr3	zif268	CREB	M	[90]
fibronectin	fn1	CREB	CREB	M	[91]
glycoprotein hormone alpha	cga	CREB	CREB	H^d	[62]
Ngfi-A binding protein 2	nab2	zif268	zif268	C	[90]
proteasome subunit, alpha type 5	psma5	zif268	zif268	M	[92]
protein phosphatase 2a, catalytic	ppp2ca	CREB	CREB	C	[93]
S100B	s100b	CREB	CREB	C	[94]
somatostatin	sst	CREB	CREB	C	[58]
steroid 11-beta hydroxylase	cyp11b1	CREB	CREB	C	[95]
synapsin I	syn1	zif268	CREB	M	[96, 97]
synapsin II	syn2	zif268	zif268	C	[61]
transporter associated with antigen processing 2	tap2	zif268	zif268	M	[92]
tropomyosin 1, alpha	tpm1	CREB	CREB+zif268	M	[37]
tyrosine hydroxylase	th	CREB	CREB	C	[59, 60]
vasoactive intestinal peptide	vip	CREB	CREB	C	[98]

^a Mouse (M), Human (H), or Conserved (C) homologene dataset where a putative binding site was found
^bA zif268 site in the mouse arc gene was identified in an earlier version of the search, but following an important correction for GC content in the gene promoter this site was no longer recognized
^c The CREB site in promoter I that has been well-characterized in rat (Tabuchi et al. 2002) did not qualify as having a binding site by the quality score criterion used in this analysis
^d Glycoprotein hormone alpha has a well documented CREB site in human that is absent in rodents based on a single bp mutation