Question: how do i write a sequnce got from KEGG in FASTA format?
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gravatar for brianmatovu505
3.5 years ago by
Makerere University, Kampala Uganda
brianmatovu5050 wrote:

hi,

can someone help me on how to write a sequence got from KEGG in fasta format. I am a student new to bioinformatics.

thanks

sequence open • 987 views
ADD COMMENTlink modified 3.5 years ago • written 3.5 years ago by brianmatovu5050

Are you asking for what FASTA format is, or something about programming?  Could you post the code that you are using to get the sequence from KEGG?  

ADD REPLYlink written 3.5 years ago by Sean Davis25k

am trying to work on my assignment but am having trouble in completing it since am new to the bioinformatics class. Below is the question that am trying to finish, its not about programming as such. Hope you find it well.

Qtn: Visit the KEGG website http://www.genome.jp/kegg/catalog/org_list.html Click hsa to open the Human Genome database http://www.genome.jp/kegg-bin/show_organism?org=hsa. Find the melanin-concentrating hormone receptor 2 gene and download its sequences in FASTA format. Now visit the NCBI-BLAST database http://blast.ncbi.nlm.nih.gov/Blast.cgi and use any of the sequences you have downloaded to perform;
a) Nucleotide blast
b) Protein blast
c) blastx
d) tblastn
e) tblastx
In performing each of your BLAST-searches, write-down the query, and the subject with the highest score; for the latter, what is the E-value and % Identity?

currently am on the part of writing it in FASTA format and am stack.

 

ADD REPLYlink modified 3.5 years ago • written 3.5 years ago by brianmatovu5050
1
gravatar for Sean Davis
3.5 years ago by
Sean Davis25k
National Institutes of Health, Bethesda, MD
Sean Davis25k wrote:

Click on NT seq on the resulting search page. 

ADD COMMENTlink modified 3.5 years ago • written 3.5 years ago by Sean Davis25k
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