Tool |
Type |
Notes/Specific tools |
BLAST at NCBI |
BLAST search, general |
|
BLAST at FlyBase |
BLAST search, specialized |
BLAST search selected Drosophila and Diptera. |
EMBOSS toolkit |
Array of bioinformatics tools |
transeq | Translate a nucleotide sequence. |
showorf | Display a nucleotide sequence and translation. |
revseq | Reverse and complement a nucleotide sequence. |
|
UCSC Genome Browser |
Genome Browser, general |
View genomes in UCSC Genome Browser. |
UCSC Genome Browser at GEP |
Genome Browser, custom |
View Drosophila fosmids in UCSC Genome Browser. |
Gene Record Finder at GEP |
Gene Models, D. melanogaster |
Retrieve transcript and CDS sequences by isoform. |
Gene Model Checker at GEP |
Annotation tools, Drosophila |
Compare gene models to D. melanogaster orthologs. |
NCBI |
Database, everything |
Database of nucleic acid and protein sequences. |
FlyBase |
Database, Drosophila |
Database of Drosophila genes and genomes. |
OMIM |
Database, human |
Text-based database of human genes and inherited diseases. |
PolyPhen-2 |
Database, human |
Predict the impact of missense alleles of human genes. |
SIFT |
Database, human |
Predict the impact of missense alleles of human genes. |
dbNSFP |
Database, human |
Predict the impact of missense alleles of human genes using five prediction algorithms (SIFT, Polyphen2, LRT, MutationTaster and MutationAssessor). |
MGI |
Database, mouse |
Database of mouse genes. |
GENSCAN at MIT |
Gene Prediction |
ab initio gene prediction. |
Augustus at University of Greifswald |
Gene Prediction |
ab initio gene prediction. |
Clustal Omega |
Multiple Alignment |
Align multiple DNA or protein sequences. |
COBALT at NCBI |
Multiple Alignment |
Align multiple DNA or protein sequences. |
MUSCLE |
Multiple Alignment |
Align multiple DNA or protein sequences. |