School of Life Sciences - Sequence Analysis Tool

Sequence Analysis Tool

Sequence identification
- ExPASy Tools : Similarity Searches
- BLAST : NCBI BLAST (blastn - blastp - blastx, tblastn, tblastx) - EMBNet
- FASTA : EMB FASTA (Nucleotide - Protein - Blitz) - TFASTA
- Enhanced BLAST : BCM Beauty
Sequence Alignment
- ExPASy Tools : Sequence Alignment
- Binary sequence alignment Blast2 : NCBI - EMB
- Multiple sequence alignment ClustalW: EMB - PBIL - EMBNet
- Multiple sequence alignment Multalin: INRA
Sequence Translation
- ExPASy Tools : DNA -> Protein
- DNA -> Protein Translation : ExPASy - BCM
- DNA -> Protein and cDNATranslation : Wise2
- DNA -> Protein Forward/ Reverse Translation : Transeq
Protein Physical Properties Prediction
- ExPASy Tools : Pattern and profile searches - Post-translational modification prediction - Topology prediction
- Computation of various protein physical and chemical parameters : Protparam tool
- Prediction of transmembranedomain : TMpred
- Prediction of subcellular localization : PSORT - TargetP
- Prediction of signal peptide : SignalP
- Search for signature domains of functional motifs : ScanProsite
Protein Analysis Utilities
- Restriction Enzyme Mapping Utility : Webcutter 2.0
- Enzyme Information Databank : BRENDA
- Coloring Protein Sequence : Protein Colourer
VI) Cloning Utilities
- Sequence Conversion -> Reverse Complementary : ReadSeq.pl v.1.2 - Web READSEQ
- Primer Design from DNA sequence : Primer3