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Table 1 Summary of RNA polymerase II locations

From: Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells

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

  1. 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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Genome Biology

ISSN: 1474-760X

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