Note: Any pCRM sequence referred to as flanked contains extra sequence flanking the pCRM itself. These were used in order to avoid spurious pairwise alignment near the edges of the pCRM.
additional figures
Binding site densities by transcription factor [pdf] (Add. file 1)
Patterned genes flanking eCIS-ANALYST predictions [pdf] (Add. file 2)
eCIS-ANALYST discrimination function [pdf] (Add. file 3)
Three novel enhancer predictions [pdf] (Add. file 4)
additional tables
37 test set enhancers
976 eCIS-ANALYST predictions
- all data: [online by gene] [online all] [csv]
- within 20kb (or in intron) of any gene: [pdf] (Add. file 7)
- further than 20kb from any gene: [pdf] (Add. file 8)
- within 20kb (or in intron) of gap/pair-rule gene: [pdf] (Add. file 10)
- flanking gap/pair-rule gene (further than 20kb): [pdf] (Add. file 11)
Blastodermal anterior/posterior annotations (FlyBase/BDGP) [csv] [pdf] (Add. file 9)
Random sample from non-coding genome [csv]
raw data download (gzipped)
pCRM detailed annotations (XML): [37 test set, 3Mb]
[976 predictions, 18Mb]
pCRM D. pseudoobscura alignments (readable): [37 test set, 5.5Mb]
[976 predictions, 30Mb]
pCRM D. pseudoobscura alignments (multi fasta): [37 test set, 2.6Mb]
[976 predictions, 14Mb]
pCRM sequences, unflanked (fasta): [37 test set, 60kb]
[976 predictions, 670kb]
pCRM sequences, flanked (fasta): [37 test set, 2.2Mb]
[976 predictions, 12Mb]
external links
Release 3 genomic sequence
D. pseudoobscura genomic assembly used