TRES Transcription Regulatory Element Search
a tool for Comparative Promoter Analysis

Using TRES you can simultaneously search up to 20 promoter sequences for known transcription factor binding sites, cis-acting elements, palindromic motifs or conserved k-tuples (phylogenetic footprints). This is useful for comparative promoter sequence analysis to elucidate common themes (modules) in functionally or phylogenetically related promoters.                                                   More Information    Test Sequence Set
Cut and paste promoter DNA sequences in FASTA format
(As many as 20 sequences of maximum 1000 bp can be searched at a time)



Search Transcription Factor binding sites using TRANSFAC Weight Matrices

Report sites relative to         Matrix cut off score 
Report sites only when present in of sequences


The TRANSFAC database is free for users from non-profit organizations only. Users from commercial enterprises have to license the TRANSFAC database and accompanying programs. Please read the DISCLAIMER !


Search TF Binding Sites / Cis-Elements using IUPAC consensus strings

DATABASE > 
Report sites relative to         Mismatch allowed  Report sites only when present in of sequences



Search Palindromic Sequences (inverted repeats)

Palindrome type: 
Report sites relative to        Mismatch allowed 
Report sites only when present in of sequences



Search conserved k-tuples / sub-strings / phylogenetic footprints

Select k-tuple size             Report ktuples relative to 
Mismatch allowed 
Report k-tuples only when present in of sequences


Please Note: Presently this site is open only for peer review
For comments and suggestions, contact TRES team
Our thanks to: TRANSFAC, ooTFD and PLACE databases
Mukund Katti, Prabhakar Ranjekar and Vidya Gupta
Division of Biochemical Sciences, National Chemical Laboratory, Pune 411008, INDIA
Meena Sakharkar
Bioinformatics Centre, National University of Singapore, Singapore