What now???

[Dorothy Lowry]

Hello,

We have a clone.  We suspect that it codes for something
because it is derived from mRNA (a cDNA clone, naturally).
We made a blast search against the nr database of DNA, and
also against the nr database of proteins and didn't come 
up with ANYTHING except a couple of EST's about which
nothing is known yet.

We translated it in all 4 reading frames and scanned it
against prosite - no motifs found.  In any of the 6.

We used codonpreference in GCG to plot the codon preference.
It isn't REALLY strong, but it isn't too bad for the ORF
we suspect to code for the protein.

Does anyone have any suggestions about where to go from 
here?  

Thanks in advance,
Chie Sakanaka

PS.  Please respond to chies at itsa.ucsf.edu (this is someone
else's account and I cannot read e-mail here!).
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Dorothy Lowry                                     email:  lowry at cgl.ucsf.edu
Sequence Analysis Service                         phone:  (415) 476-5379
Computer Graphics Lab UCSF                        fax:    (415) 582-1755
Box 0446 Room S926
513 Parnassus Avenue San Francisco, CA 94143-0446
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