Xie et al Supplementary Information

Database

Aligned promoter database (hg17/mm5/rn3/canFam1)
Aligned promoter in CpG island (hg17/mm5/rn3/canFam1)
Aligned promoter outside CpG island (hg17/mm5/rn3/canFam1)
Aligned 3' UTR database (hg17/mm5/rn3/canFam1)

Motifs in the aligned promoter database

Clusters of the discovered motifs
Sites of TRANSFAC motifs
Coordinates of discovered promoter motifs in human (hg17) genome

Motifs in the aligned 3' UTR dabase

Clusters of the discovered 8-mer motifs
Targets of the conserved 8-mer motifs (in RefSeq ID)
Targets of the conserved 8-mer motifs (in gene symbol)

Predicted miRNA genes

Predicted: all (including 114 rediscovered miRNA genes)
Predicted: novel
Tested novel predictions