Hello Mike,
In the table browser, after selecting your assembly of interest select:
group: Genes and Gene Prediction Tracks
This group contains the tables underlying all of our gene prediction
tracks. To determine which gene prediction data set you would like to
use you can read the track description by clicking on the blue/gray bar
to the left of the track in the main browser display or on the track
title above its pulldown menu.
Once you have chosen a gene prediction track (i.e. UCSC genes) you can
retrieve certain columns from a given table (i.e. cdsStart and cdsEnd)
by selecting:
output format: "selected fields from primary and related tables"
Once you click on "get output" this will take you to a menu where you
can specify which fields you want to retrieve from your tables of
interest.
You can also restrict the output to a list of genes using the
"identifiers (names/accessions)" to paste/upload a list. Note that the
identifiers you specify must match the format used in the table - to see
the format click on "paste list" and it will give examples (i.e. for
UCSC genes this feature only takes the UCSC genes identifiers like
'uc010ewd.1').
Hopefully this information was helpful and answers your question. If you
have further questions or require clarification feel free to contact the
mailing list at [email protected].
Regards,
Pauline Fujita
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu
On 10/06/10 12:01, Gonzalez, Michael A (Research Adm) wrote:
> Using the table browser, is there a way to get an output of multiple gene
> positions? If I upload a list of genes in question, will it give an output
> with the gene name and the position (Chr end and start)? Thank you for all
> the help, I will appreciate it greatly!
>
> Mike
> _______________________________________________
> Genome maillist - [email protected]
> https://lists.soe.ucsc.edu/mailman/listinfo/genome
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
