Supporting information for Yoon et al. (2002) Proc. Natl. Acad. Sci. USA, 10.1073/pnas.242597299
Table 3. Results of the computational search for p53 response elements in the selected genes
Gene | Accession no. | Position | 1st half-site (score)† *gap* 2nd half-site (score) | Confidence (mismatches)‡ |
GNA13 | L22075 | Promoter | AGcCAAGTTT (0.56) *6 bp* AGGCAAGCTT (0.71) | High (1) |
CSPG2 § | U16306 | Intron 1 | AGACTTGCCa (0.50) *1 bp* AGACAAGTCC (0.72) | High (1) |
Intron 1 | tAcCAAGaCT (0.35) *6 bp* AGACAAGTCC (0.72) | High (3) | ||
PDE6A | M26061 | Intron 1 | AGAaATGTCC (0.33) *8 bp* GGGCTTGTCT (0.74) | High (1) |
CD47 | Z25521 | Intron 1 | tGACAAGTCC (0.67) *1 bp* AGcCATGCTC (0.58) | High (2) |
Intron 1 | tGGCAAGCCT (0.74) *5 bp* tGGCATGaCT (0.21) | High (3) | ||
PPT1 | U44772 | Intron 1 | GGGgAAGCCT (0.45) *3 bp* GGACAAGCTg (0.62) | High (2) |
Intron 1 | AAACAAGTCT (0.61) *1 bp* GGGCTAGgaC (0.48) | High (2) | ||
Intron 1 | AAACAAGTCT (0.61) *7 bp* GGACAAGaTg (0.43) | High (2) | ||
HMGCS1 | L25798 | Intron 1 | cAcCATGCCT (0.46) *5 bp* GAACTAGaCT (0.48) | High (3) |
MAGEB1 | X83539 | Intron 1 | AGACAAGgCT (0.57) *0 bp* tAtCAAGCTC (0.35) | High (3) |
PDE6B | S41458 | Intron 2 | tGcCATGTCC (0.50) *7 bp* cGGCcAGCTC (0.52) | High (4) |
F5 | M16967 | Promoter | AGcCATGCag (0.41) *14 bp* GGACAAGTCa (0.58) | High (4) |
PXMP3 | M86852 | Intron 1 | tGACAAGgCa (0.36) *2 bp* tAGCAAGTCT (0.55) | High (4) |
†
Score represents a likelihood score and ranges from 0 to 1. The higher the score, the more likely it is to be a p53 binding site.‡
Confidence: High, if the sum of the two half-site scores was ³ 0.9 and no mismatches in the core region or sum of the two half-site scores was >1. No more than four mismatches are allowed with, at most, one mismatch in the core region.§CSPG2 gene that we studied in more detail.