Transcription factors database
Catch®	composite element search
cis-analyst	search for conserved clusters of transcription-factor binding sites.
CORG	a database for comparative Regulatory Genomics.
DBTBS	Bacillus trans factors
DBTSS	Database of Transription Start Sites
DPinteract (E.coli)	DPinteract (E.coli)
GenAtlas	fetch 10 Kb of upstream sequence for promoter analysis
GeneTide	a new transcriptome focused  databases
Genomatix Software	explore gene regulation network
JASPAR	Transcription factor binding profile database.
Match™	matrix based search for transcription factor binding sites
ooTFD	object oriented TF db
oPPOSUM	retrieves matched mouse and human sequences
PathoDB® Professional	Pathologically altered transcription factors
PRESTA	tool for transcription start point verification
PRODORIC	prokaryotic database of gene regulation.
RegulonDB	Transcriptional Regulation and Genome Organization
RSAT	Regulatory Sequence Analysis Tools
Signal Scan Service	Signal Scan Service
SiteSeer (Transfac 6.0)	SiteSeer (Transfac 6.0)
Softberry	DNA Sequence Analysis Tools
Stubb	Allows users to look for clusters of binding sites
Target Explorer	Creates customized libraries binding site matrices,
TESS	Transcription Factor Site Scan
TFSearch	uses Transfac 3.3
TFSS	Transcription Factor Site Scan
TRANSCompel® Professional	Composite elements database
TRANSFAC	The Transcription Factor Database
TRANSFAC® Professional	cis-acting regulatory DNA elements and trans-acting factors
TRED	Transcriptional Regulatory Element Database
TRPD	Transcription Regulatory Regions Database
YeaSTRACT	Transcriptional Regulators And Consensus Tracking