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GENIO/scan EST coverage analysis let you analyse the EST coverage of eukaryotic coding sequences (CDS). We searched the coding sequences (CDS) of 20998 annotated eukaryotic genes from GenBank Rel. 105.0 against GenBank dbEST from November 2, 1998 with BLAST 2.06 (gapped). The results from the BLAST search (many gigabytes of data) have been filtered for E-values better then 1e-25 and scores higher then 50 bit. We analysed the resulting EST hits and calculated the EST/CDS coverage of the coding sequences of the eukaryotic genes. You can query the CDS coverage of annotated eukaryotic genes (out of 20998 eukaryotic genes from GenBank Rel 105.0) and download the coverage results, BLAST outputs and graphical coverage presentations. The graphical EST coverage presentation let you discover easily alternative spliced exons, suspicious annotations and more. Detailed EST/CDS coverage statistics are available on request.Goto GENIO/cover EST coverage analysis
News and changes:
Acknowledgements:minimum sequence identity of 90% is now required for any EST hit new version of GenBank dbEST (November 23, 1998) summary of EST hit keywords, rated by score new version of GenBank dbEST (November 2, 1998) BLAST 2.06 search new version of GenBank dbEST (September 28, 1998) on-line status information alternative splicing information coding sequence is fetched from database for download detailed display of EST hits with position and identity percentage BLAST 2.05 search new version of GenBank dbEST (September 10, 1998) new version of GenBank dbEST (August 4th, 1998) hyperlinks to EST's
| Prof.
J. Reich and J.
Hanke Department of Bioinformatics, Max Delbrück Center for Molecular Medicine (MDC), Berlin, Germany |
Dirk Farin IPVR University of Stuttgart, Germany for ESTplot |
Gerrit
Lehmann Department of Bioinformatic MDC Berlin, Germany for est2ps |
Example:
| GENIO/seq | - A Non-Redundant Eukaryotic Gene Database of Annotated Sites and Sequences |
| GENIO/scan | - EST/STS Guided Identification of Genes in Human Genomic DNA |
| GENIO/cover | - GENIO/scan EST Coverage Analysis of Currently Known Eukaryotic Coding Sequences |
| GENIO/logo | - Nucleic and Amino Acid Sequence Logos |
| GENIO/splice | - Splice Site and Exon Prediction in Human Genomic DNA |
| GENIO/frame | - Frame Shift Analysis and Sequencing Error Detection |
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