TABLE 1.

Representative p53 consensus binding sites and candidate target genes

Gene or DNA fragmenta	GenBank accession no.	Description	p53 binding siteb	Matchc	Locationd	Distance from exon 1 (kb)	Chromosome locationf
			PPPCWWGYYY-x-PPPCWWGYYYe
CDKN1A	NM_078467	Cyclin dependent kinase inhibitor 1A (p21, Cip1)	cAACATGTTg-0-GGACATGTTC	18	5′	2.2	6p21.2
CDKN1A	NM_078467	Cyclin dependent kinase inhibitor 1A (p21, Cip1)	AGACTgGgCa-0-tGtCTgGgCa	12	5′	1.3	6p21.2
MDM2	NM_002392	Murine double minute 2, p53 binding protein	GGtCAAGTTC-0-AGACAcGTTC	18	Intron 1	<1	12q14.3-15
DDB2	NM_000107	Damage-specific DNA binding protein 2 (p48)	GAACAAGCCC-1-GGGCATGTTT	20	Exon 1	<1	11p12-p11
AKAP6	NM_004274	A kinase anchor protein 6	AGACATGCCC-0-AAACATGTCT	20	Intron 1	16	14q12
FLJ32800†	NM_152647	Predicted	AGGCATGTCT-0-GGACATGTTT	20	5′	4	15q21.1-.2
MDS009†	NM_020234	DTWD1 (DTW domain containing 1)			Intron 2	2.5	15q21.2
H955	NAg	NA	GGACATGCCC-0-GGACAAGCCT	20	NA	NA	13q14.3
H1160	NA	NA	AGACATGCCC-0-GGGCATGCCT	20	NA	NA	1q25.3
RHOC‡	NM_175744	Ras homolog gene family product, member C	GAACATGCCT-0-GAGCAAGCCC	20	Intron 2	3	1p13.1
MGC19531‡	NM_005167	PPM1J (protein phosphatase 1J, PP2C domain containing)			3′	11	1p13.1
PPP2R3A	NM_002718	Protein phosphatase 2, regulatory subunit B, alpha	AGACATGTCT-2-AGACATGCCC	20	Intron 14	176	3q22.1
TMEM30A	NM_018247	Transmembrane protein 30A	GGACTTGCTT-0-GGGCTTGTCC	20	Intron 1	12	6q14.1
UBTD1§	NM_024954	Ubiquitin domain containing 1	tGACAAGTCT-0-GGGCTTGCTC	19	Intron 1	50	10q24.1-.2
ANKRD2§	NM_020349	Ankyrin repeat domain 2			5′	22	10q24.2
H1026	NA	NA	GGGCATGTTg-0-GGGCATGTCC	19	NA	NA	5p15.3
LOC441968	XM_497787	Similar to extensin-like protein	GGGCATGCCa-0-GGACATGTCT	19	5′	6	21q22.3
PDGFC	NM_016205	Platelet-derived growth factor, isoform C	GGtCATGTTC-0-AGACTTGCCC	19	Intron 4	200	4q32
ANKRD11	NM_013275	Ankyrin repeat domain protein 11	AGACATGaCC-0-tGGCATGTTC	18	Intron 1	50	16q24.3
EDN-2	NM_001956	Endothelin-2	ctGCAAGCCC-0-GGGCATGCCC	18	Intron 3	2	1p34
FLJ12484¶	NM_022767	ISG20L1 (interferon-stimulated exonuclease 20 kDa-like 1)			5′	<1	15q26.1
ISG20¶	NM_002201	Interferon-stimulated exonuclease, 20 kDa	ccACATGCCC-0-GGGCAAGCCC	18	5′	17	15q26
LOC388171¶	XM_373647	Predicted			3′	17	15q26.1
PTPN14	NM_005401	Protein tyrosine phosphatase, nonreceptor type 14	AAACATGTTg-0-cAACATGTCC	18	Intron 3	115	1q32.2
VTI1A	NM_145206	Vesicle transport through interaction with t-SNARE homolog 1A	cAACATGTCT-0-tGGCATGTTC	18	Intron 7	270	10q25.2
H1634	NA	NA	tGGCATGTCC-11-cAACATGCCT	18	NA	NA	12q23.3
C9ORF88	XM_497077	Chromosome 9 open reading frame 88 product	tGGCAAGCag-0-AGGCTTGTTT	17	Intron 1	3	9q34.11
RBM19	NM_016196	RNA binding motif protein 19	GtACATGTCa-0-GGGCATGTTg	17	Intron 24	127	12q24.13-21
RPS27L	NM_015920	Ribosomal protein S27-like (40S ribosomal protein S27 isoform)	GGGCATGTag-0-tGACTTGCCC	17	Intron 1	2	15q22.2
SMARCC1	NM_003074	SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin	GGGCATGaTg-4-AtGCcTGTaa	14	Intron 7	65	3p23-21

^aThe four items above the space are known p53 target genes; those below the space are products of candidate genes, except for H955, H1160, H1026, and H1634, which are DNA fragments that aligned to areas of the genome that did not contain any candidate genes within the criterion range. Items with the same symbol (†, ‡, §, or ¶) are products of multiple candidate genes identified within the criterion range of a single binding site.

^bLowercase letters indicate consensus binding site mismatches.

^cNumber of base pairs (out of 20) in the putative p53 binding site that match the consensus binding site.

^dLocation of the p53 binding site in relation to the known/candidate target gene.

^ep53 consensus binding site, where P = purine (A/G), W = A/T, Y = pyrimidine (C/T), and x = 0- to 13-bp spacer region.

^fLocation of the candidate target gene or binding site (if a candidate gene was not identified).

^gNA, not applicable.