Table 1. Genomic Distribution of PAT in the Wild Type and oxt6 Mutant
The Wild Typeoxt6
RegionaPAT No.bPAT (%)cPAT No.PAT (%)
3′-UTR301127792.50614843495.60
Intergenic936612.88798021.24
Promoter467691.44513660.80
CDS143390.44717451.12
Intron140720.43137340.21
5′-UTR107270.3337220.06
Exon44010.1470460.11
Pseudogenic exon17400.0516380.03
AMB556941.71513810.80
  • a Genomic region as defined in the TAIR9 database. As explained by Wu et al. (2011), the 3′-UTRs were extended by 120 nucleotides. The default length for the promoter is 2000 nucleotides. If a given intergenic region between two divergently transcribed genes is shorter than 2000 nucleotides, then the promoter is the intergenic region. AMB, regions outside of the longest annotation unit that could not be unambiguously assigned (for example, for closely spaced genes, these could be either promoter or intergenic, depending on the context being used to define the region).

  • b Total number of curated poly(A) site tags that map to the respective genomic regions.

  • c Percentage of total PATs that fall within the indicated regions. Wild-type and oxt6 PAT totals were calculated separately.