Feedback Submission from the Live Site
pj37 at cornell.edu
Mon Nov 11 14:49:42 EST 2002
Following is the process how you should find the information on alpha amylase in
Gramene using rice a the anchor or start point.
1 Go to http://www.gramene.org/plant_ontology/
2 search for "amylase inhibitor"
3 it tells you that this term has one gene product associated with it from
Example is: Alpha-amylase/subtilisin inhibitor
4 click on the term "Alpha-amylase/subtilisin inhibitor" and you will see the
detailed information on this protein from rice.
5 then GO to the section on "Similarity to Other Proteins" and click on
"Grasses". This will take you to GenBank's Blink to find homologs in grass
family of plants. (I believe there was none from Wheat).
6 The next option is to go back to the protein page See#4
7 Go to the section on "Prosite" under "Protein Features" and click on links
from "Other Members of this Family "PS00283 ; SOYBEAN_KUNITZ "
8 On a subsequent page you will see two proteins sharing this Prosite domain. Of
these you have already looked at one of them (from #4). So this time look at the
other one "Bifunctional alpha-amylase/subtilisin inhibitor"
>From the detailed information page of this second protein you will find "Genome
Browser GRMP00000015199" section.
9 from genome browser section you will be taken to the Rice genome view which
will tell you the Genome Location of this gene (on Chr 4).
10 from there you enter the genome viewer. Check in the region of 73kB there is
this gene for "Bifunctional alpha-amylase/subtilisin inhibitor" and below it
will be a track for Triticum TIGR gene index and triticum dbEST.
11 On these tracks you will find the sequences from Wheat that should encode for
the "alpha amylase" in wheat.
12 On the other hand You can get hold of some Alpha amylase sequence (nucleotide
sequence) and do a blastn at http://www.gramene.org/gramene/searches/blast using
different data sets. Of them couple are for Wheat.
feedback_submission at brie.cshl.org wrote:
> *** Feedback from the Live Site ***
> refer_to_url: http://www.gramene.org/perl/pub_search?word=wheat&table=1
> comments: Dear sir,
> Pls.provid us any information in wheat alpha-amylase
> Thank you in advance
> name: Sudad k. AL-Taweel
> email: al-taweel at uruklink.net
> organization: colleg of agricultural
> send_feedback: Send your feedback
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