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MIPS database for chromosome 4 updated

Christine Schueller schueller at mips.biochem.mpg.de
Fri Jul 2 11:46:49 EST 1999


The MIPS database for chromosome 4 and the web interface has recently
been
updated (http://websvr.mips.biochem.mpg.de/proj/thal/chr4_index.html)

The first view is a clickable map of chromosome 4 showing a limited set
of
landmark markers. Clicking on the region of interest reveals a 2 Mb
tiling
path of BACs and all sequenced markers. Clicking on the BAC reveals a
query
window for searching by coordinate, classification (proteins with high
homology, unknown etc), type (eg EST sequences matching the region),
functional
category (eg, metabolism, cell structure), prosite motifs (eg protein
kinase,
SH2  domains etc). The detailed gene predictions from Genscan and
Genefinder
are displayed in an interactive Java viewer, and an overview showing
predicted gene structures, repeats and
other features, plus a facility to extract protein and DNA sequence and
carry
out FASTA searches, are available.

In the next few weeks annotation of a further 40 sequenced gaps and BAC
clones
will be completed. The sequence of another 8 BACs nears completion, and
the
completed sequence of 6 centromeric clones is being finalised to AGI
standards.
The assembled sequence will contain a gap containing pAL1 repeats, and
candidate clones covering this gap are being sought.



*----------------------------------------------------------------------*
* The Arabidopsis annotation crew at   | Dr. Christine Schueller       *
* MIPS                                 | Dr. Klaus Mayer               *
* am Max-Planck-Institut fuer Biochemie| Dr. Kai Lemcke                *
* Am Klopferspitz 18a                  |                               *
* D-82152 Martinsried                  | Tel: +49 89 8578 2453
*
* Germany                              | Fax: +49 89 8578 2655         *
*----------------------------------------------------------------------*
* Internet connectivity to MIPS - WWW:    WWW.MIPS.BIOCHEM.MPG.DE      *
*                               - FTP:    FTP.MIPS.EMBNET.ORG          *
*                               - Email:  username at MIPS.BIOCHEM.MPG.DE *
*----------------------------------------------------------------------*




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