Table 1 |
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|
Summary of RNA polymerase II locations |
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| Sites |
Pol IIa |
Pol II |
|
|
|
|||
| Total sites |
102 |
550 |
|
| RefSeq total exons |
70 |
289 |
|
| RefSeq first exons |
63 |
75 |
|
| RefSeq terminal exons |
2 |
91 |
|
| RefSeq internal exons |
5 |
123 |
|
| RefSeq introns |
4 |
120 |
|
| knownGene exon |
0 |
5 |
|
| genscan exon |
1 |
23 |
|
| geneid or sgpGene |
0 |
3 |
|
| Active gene introns |
2 |
57 |
|
| Inactive introns |
1 |
32 |
|
| No RefSeq overlap |
28 |
141 |
|
| knownGene total exons |
5 |
38 |
|
| knownGene first exon |
5 |
13 |
|
| knownGene terminal exon |
0 |
4 |
|
| knownGene internal exon |
0 |
21 |
|
| No RefSeq or knownGene |
23 |
90 |
|
| genscan exons |
7 |
43 |
|
| geneid or sgpGene |
2 |
6 |
|
|
|
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|
The order indicates the flowchart of filtering through the different databases. Enrichment sites were first compared to the RefSeq database. Sites that are not near exons were then divided into two categories: locations that are in RefSeq introns; and locations that are not in a RefSeq gene. The latter are then compared with knownGene and predicted gene databases. For both RNA polymerase II phosphorylation states, the large majority of sites are near an exon. |
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|
Brodsky et al. Genome Biology 2005 6:R64 doi:10.1186/gb-2005-6-8-r64 |
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