Question

Extract sequences from genome

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10.1 years ago

ash • 0

Hi,

I would like to extract first 20 nt of a mRNA from MOUSE genome and blast it with first 20 nt of a mRNA from human genome. I have zero bioinformatics experience.

Thank you!

SEQUENCE • 2.0k views

ADD COMMENT • link updated 2.9 years ago by Ram 44k • written 10.1 years ago by ash • 0

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Do you have both ACCESSION NUMBERs for those mRNA?

ADD REPLY • link updated 2.9 years ago by Ram 44k • written 10.1 years ago by Pierre Lindenbaum 164k

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It would be better if you can elaborate little more about your problem? For example, why you want to blast it against 20nt of human mRNA?

ADD REPLY • link 10.1 years ago by Ashutosh Pandey 12k

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Thank you, All

ADD REPLY • link updated 2.9 years ago by Ram 44k • written 9.9 years ago by ash • 0

Ram · Answer 1 · 2014-11-11

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10.1 years ago

Istvan Albert 102k

Copy/paste the sequences over into a pairwise alignment tool: http://www.ebi.ac.uk/Tools/psa/

ADD COMMENT • link updated 2.9 years ago by Ram 44k • written 10.1 years ago by Istvan Albert 102k

Ram · Answer 2 · 2014-11-11

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10.1 years ago

francis ▴ 280

Same idea, on the other side of the ocean (at NCBI) with the blast engine:

http://goo.gl/dNcuO

ADD COMMENT • link updated 2.9 years ago by Ram 44k • written 10.1 years ago by francis ▴ 280