Strand Determination and Antisense Transcription
A. Number of transfrags Transfragsa | No. transfrags | Base pair coverage | |||
|---|---|---|---|---|---|
| cDNA (1 of 2) | 3747 | 496,537 | |||
| + strand (1 of 2) | 1392 | 159,778 | |||
| - strand (1 of 2) | 1112 | 130,966 | |||
| B. Characterization based on annotations | |||||
| Base pair coverage | |||||
| Overlapping data setsb | Total known, mRNA, ESTc transfrags | Total novel transfrags | |||
| + strand | 15,440 | 8277 | |||
| - strand | 41,283 | 8529 | |||
| Totals | 56,723 | 16,806 | |||
| C. Antisense transcription | |||||
| Base pair coverage | |||||
| Overlapping data setsb | Total known, mRNA, ESTc transfrags | ||||
| + strand | 1948 | ||||
| - strand | 4187 | ||||
| Percent of antisense detectedd | 10.8% | ||||
| D. Novel transcriptione | |||||
| Base pair coverage | |||||
| Overlapping data setsb | Total novel intronic transfrags | Same strand | Antisense | ||
| + strand | 2596 | 1506 | 1090 | ||
| - strand | 2672 | 1071 | 1601 | ||
| Percent of novel transcription | 48.9% | 51.1% | |||
a Transfrags cDNA (1 of 2) = A375 and Jurkat cDNA data combined into a nonoverlapping map. + strand (1 of 2) = A375 and Jurkat (+) strand specific data combined into a nonoverlapping map. - strand (1 of 2) = A375 and Jurkat (-) strand specific data combined into a nonoverlapping map.
b A set of transfrags that overlap between the cDNA and RNA direct-labeling assays was generated. The resulting set was then compared to the indicated annotations for each chromosome and strand.
c Only ESTs of confident strandedness were used, where strandedness evidence comes from splicing and/or having a polyadenylation site, possibly with associated signal.
d Percent base-pair coverage in B that is antisense to the annotations.
e Distribution of the base-pair coverage of the novel intronic transfrags based on the strand of the overlapping annotation.