BLAST Search

NEW! Multiple query sequences are allowed for input. However, in order to prevent server performance slow-down, the maximum number of input is 100.

This page is designed for people who want to check if their gene of interests was tagged by Mu transposon. If so, maybe you can order the seeds and do functional analysis. Your sequence can be searched against transposon flanking GSS sequences generated by the following projects.

RescueMu - RescueMu insertion flanking sequences by the Maize Gene Discovery Project. Here you can blast against RescueMu GSS sequences by either their clean version (RescueMu) or raw version (RescueMuRaw); you can also choose blasting grid-by-grid. Note: any given RescueMu-transformed plant contain the parental RescueMu elements that were recovered at a high frequency during sequencing (from every sequenced row or column). In order to analyze the gene discovery by newly inserted RescueMu (i.e., where the non-parentals inserted into the maize genome), you can click here to screen against our identified parental sequences from each grid.
UniformMu - Mu insertion flanking sequences by the Maize Endosperm Functional Genomics Consortium

Sequence name (optional)	Program	E-value	Database (last updated Feb 16, 2006)

Paste query sequence in FASTA format:

Or *upload query sequence in FASTA format:

Advanced Blast parameters

Filter Alignment view Matrix Word size
Cost to open a gap Cost to extend a gap
Threshold for extending hits
Perfom gapped alignent {not available with tblastx}
Length of the largest intron allowed in tblastn for linking HSPs
X dropoff value for gapped alignment (in bits)
X dropoff value for ungapped extensions (in bits)

Note: Some Mac users have problem with the file upload. Please try to add the full path to your query file.