[Genome] Human transcripts

[Ann Zweig]

Hello Gabriele,

	I'm not sure I understand exactly what you are asking.  I will attempt to 
answer, but if it doesn't address your question, please feel free to write back 
to the list with more details.

	To get the sequence and coordinates for any of the annotation tracks in the 
genome browser, you can use the Table Browser ('Tables' from the top blue 
navigation bar).  For example, if you would like to get the sequence and 
coordinates for all of the mRNAs in the latest human assembly, you would set up 
the Table Browser like so:

clade:  Vertebrate
genome:  Human
assembly:  Mar 2006
group:  Genes and Gene Prediction Tracks
track:  RefSeq Genes
table: refGene
region:  genome

output format:  sequence
output file: enter the name of the file to be saved to your computer.

	Then press the "get output" button.  From the next page, choose 'genomic' and 
press the "submit" button.  From the next page, choose what part of the mRNA you 
would like to see the sequence for, e.g. Exons, Introns, etc. then press the 
"get sequence" button.

	A file containing the sequence you selected will be downloaded to your 
computer.  Each set of sequence will be preceded with the name and coordinates 
of the mRNA.

	In the future, please direct your questions only to the genome mailing list at 
genome at soe.ucsc.edu (no need to copy the genome-mirror mailing list).


Regards,

----------
Ann Zweig
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu

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Gabriele Amore wrote:
> Hi,
> 
> How can I download the sequences for all human transcripts (genic and 
> non genic)?
> Is there any place I can find the sequences or the coordinates (better 
> both)?
> 
> 
> Thanks so much for any help
> Gabriele Amore
> _______________________________________________
> Genome maillist  -  Genome at soe.ucsc.edu
> http://www.soe.ucsc.edu/mailman/listinfo/genome