Evidence for common short natural trans sense-antisense pairing between transcripts from protein coding genes
1 Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS) and Shanghai Jiao Tong University School of Medicine (SJTUSM), 225 South Chong Qing Road, Shanghai 200025, PR China
2 Graduate School of the Chinese Academy of Sciences, 19A Yuquanlu, Beijing 100049, PR China
3 State Key Laboratory of Medical Genomics, Ruijin Hospital, Shanghai Jiaotong University, 197 Rui Jin Road II, Shanghai 200025, PR China
4 Department of Biology and Biochemistry, University of Bath, Bath, BA2 7AY, UK
Genome Biology 2008, 9:R169 doi:10.1186/gb-2008-9-12-r169Published: 2 December 2008
Additional data file 1:
Gene pairs that show mutual sense-antisense pairing.
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Additional data file 2:
Figure S1: distribution of the pair numbers in 100 groups of 5,000 random sequences (bar). The pair number of 5,000 randomly selected human transcripts is indicated with an asterisk. Figure S2: kernel density distribution of natural AT and CG pairs (blue) and artificial AG and CT pairs (red) of mRNA. Figure S3: non-gap pair percentage of flanking sequences of short 22 bp pairs; (a) non-Alu pairs; (b) Alu pairs. Figure S4: mean SNP density difference between the pair region and the flanking region; (a) short pairs without repetitive element pairs and both expressed in at least one tissue; (b) short pairs with repetitive element pairs and both expressed in at least one tissue. Asterisks indicate a significant difference between the pair region and the flanking region, p < 0.01 (Wilcoxon sign-rank test).
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