[Genome] Find Genbank accession numbers based on positions

[Ann Zweig]

Hello Jason,

	The Table Browser feature you will need to use is the 'defined regions' 
button.  This will allow you to restrict your table search to the 
positions you enter, like so:

chrX   151073054   151173000
chrX   151183000   151190000
chrX   151283000   151290000

	You will have to decide which table you would like to search based on 
exactly which Genbank items you would like.  For example, we have an 
mRNA annotation track in the browser that displays alignments between 
human mRNAs in GenBank and the genome.  The underlying table is named 
"all_mrna".  Configure the table browser like so to query that table for 
the positions you are interested it:

group: mRNA and EST Tracks
track: Human mRNAs
table: all_mrna

	Alternatively, you could use data from the Human EST track.  The 
underlying table for this track is called "all_est".  If you are 
interested in RefSeq Genes, use that track (the table is "refGene").

	This should be enough to get you started.  If you need more detailed 
information, please don't hesitate to write back to the list.


Regards,

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

Please feel free to search the Genome mailing list archives by visiting 
our home page, clicking on "Contact Us", then typing a word or phrase 
into the search box.  On that same page 
(http://genome.ucsc.edu/contacts.html), you can subscribe to the Genome 
mailing list.





Jason Ting wrote:
> Dear UCSC,
> 
> I would like to locate Genebaml accession numbers in table browser by using info of chromosome:positions.
> 
> Please advise which table or tables I should I be using.
> 
> Thanks,
> 
> Jason Ting
> 
> 
> 
> 
> Disclaimer:
> The materials in this e-mail are private and may contain Protected Health Information. Please note that e-mail is not necessarily confidential or secure. Your use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail.
> 
> 
> _______________________________________________
> Genome maillist  -  Genome at soe.ucsc.edu
> http://www.soe.ucsc.edu/mailman/listinfo/genome