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Table 1 List of predicted p53-REs mapped nearby miR genes

From: Identification of new p53 target microRNAs by bioinformatics and functional analysis

miR name p53-RE Genomic location p53-RE distance miRNA Overlapping transcript Distance from sense transcript TSS p53- RE organization
DIMER 1 Spacer DIMER 2
Consensus - - - - RRRCATGYYY N = 0 - 13 RRRCATGYYY
miR-34a Chr 1 - 9242203 - 30,476 bp Intergenic + 123 bp GGGCTTGCCT - GGGCTTGTTC
miR-10b Chr 2 - 177013750 - 1,281 bp HOXD3 + 12,065 bp TAACTCGTTG GCTTTGACCTGTCT GAACAAGTCG
miR-23b Chr 9 - 97818687 - 28,803 bp C9orf3 + 135 bp AGGTCAGTCA TG GGACATGTCC
miR-106a Chr X - 133309906 - 5,678 bp Intergenic - GTTATGTTC ATGTGCTCAT GTGCATGCCC
miR-145 Chr 5 - 148786372 - 23,837 bp Intergenic + 68 bp GCACCCGCCT CGCCCCAATACG GGGCTTGCCT
miR-151a Chr 8 - 141734774 - 2,349 bp PTK2 - 75,874 bp TGGCTTGTTT - TGGCAAGTTC
miR-191 Chr 3 - 49063594 - 5,543 bp DARLD3 + 5,103 bp GACCTTGTCT TGCTTCC AGCCATGTCA
miR-198 Chr 3 - 120112741 + 1,774 bp FSTL1 - 57,359 bp AGGCAAGCTT - CAACAAGCCG
miR-202 Chr 10 - 135058647 + 2,368 bp RP13-49115.5 - 2,748 bp GGGCATGTCT - TGGCAAGCCT
miR-221 Chr X - 45599946 + 5,639 bp Intergenic - GAACATGCAT - GCACATGTTT
miR-455 Chr 9 - 116880600 - 91,114 bp COL27A1 - 49,395 bp CTTCCTGCAT AAGGCTTGGCGG GCGCAAGCCC
miR-320a Chr 8 - 22095461 + 7,014 bp Intergenic - AGGCATGGTG - CGGCATGCCT
miR-328 Chr 16 - 67331546 - 95,322 bp ELMO3 + 98,475 bp CGGCAAGTCC C CAGCCAGTTC
miR-671 Chr 7 - 150896632 - 38,875 bp CHPF2 - 32,953 bp GGTCCAGCCC TCTGGCCCCC CAACAAGTCT
miR-1204 Chr 8 - 128808017 - 191 bp PVT1 + 1,238 bp CGACAAGTTG - AGACTTGTTC
miR-1206 Chr 8 - 129002467 - 18,677 bp PVT1 + 1,037 bp GGGCTAGTGA - AGGCATGTCT
  1. miR name, genomic location of the predicted p53-RE (including chromosome number and genomic coordinates according to BLAT tool in UCSC Genome Browser, http://genome.ucsc.edu/), presence and distance from an overlapping primary transcript, p53 RE sequence and position relative to the miR sequence (obtained through the miRBase tool, http://www.mirbase.org/) are presented. p53-RE organization is shown grouping nucleotides in Dimer 1, Spacer (if any) and Dimer 2, according to the p53 consensus (in bold).