TABLE 3.
The distribution of poly(A) sites on gene transcipts
| Category | Subcategory | No. of transcripts | % |
|---|---|---|---|
| Total poly(A) sites | — | 16,952 | 100 |
| Located in the transcript (full-length cDNA) | In CDS | 45 (12)c | 0.3 |
| In introns | 588 (39)c | 3.5 | |
| In 5′-UTR | 86 (12)c | 0.5 | |
| In 3′-UTRb | 11,011 | 65.0 | |
| Subtotal | 11,730 | 69.2 | |
| Located in the intergenic regiona | — | 5,222 | 30.8 |
a
The intergenic regions are the areas 500 or 1000 nt downstream of the 3′-UTR (as defined above).
b
To avoid genome annotation error, the 3′-UTR defined here has been extended by 500 nt past the poly(A) site. For those genes that do not have an annotated 3′-UTR in the current version of the genome, the range was extended to 1000 nt after the annotated stop codons.
c
The numbers in parentheses are the cases with high confidence when using more stringent conditions and manual confirmation as described in the main text.