[ensembl-dev] Fwd: Queries regarding Rest API

[Kieron Taylor]

Dear Taruna,

The values you list are defined for Ensembl as a whole. A few of the 
definitions can be found here:

http://www.ensembl.org/info/website/glossary.html
http://www.ensembl.org/info/docs/api/core/core_schema.html#exon
www.ensembl.org/info/docs/api/core/core_schema.html#exon_transcript

For explanatory purposes, I have switched the output encoding to xml, as 
this renders nicely in many browsers. You can use either when you 
process the data.

http://beta.rest.ensembl.org/feature/id/ENSG00000146648?feature=exon;content-type=application/xml

All of the Exons listed are linked to Transcripts, which are linked to 
the Gene ID you have supplied. Exons will appear several times if they 
are present in different Transcripts.

ID: ENSE00001633131
*** Ensembl Exon stable ID

   Parent: ENST00000455089
*** Ensembl Transcript that contains the Exon

   constitutive: 0
*** True or false, 1 or 0. Standard biology definition

   end: 55087058
*** Coordinate on the region defined by seq_region_name

   ensembl_end_phase: 1
*** Phase in final exon

   ensembl_phase: -1
*** Phase in starting exon

   feature_type: exon
*** I think you can guess this one

   rank: 1
*** Order of exon relative to other exons, this is the first beginning 
at the 5' end.

   seq_region_name: 7
*** Chromosome 7

   start: 55086714
*** Start coordinate within region defined by seq_region_name

   strand: 1
*** Forward or reverse strand, 1 or -1


Regards,

-- 
Kieron Taylor PhD.
Ensembl Core team
EBI

On 18/06/2013 06:32, Taruna Kewalya wrote:
>
>
> ---------- Forwarded message ----------
> From: *Taruna Kewalya* <kewalyataruna at gmail.com
> <mailto:kewalyataruna at gmail.com>>
> Date: Mon, Jun 17, 2013 at 6:05 PM
> Subject: Queries regarding Rest API
> To: dev at ensembl.org <mailto:dev at ensembl.org>
>
>
> Hello
> I am Taruna Kewalya, student of B.Tech.Bioinformatics, doing a research
> on Gene-Transcript data, so for my research I want to know details about
> the information given in features present in rest API version 1.3.2. For
> example- I took EGFR gene and found many attributes in its API. This is
> the link I have for my work
> http://beta.rest.ensembl.org/feature/id/ENSG00000146648?feature=exon;content-type=application/json.
> I want to know the detailed meaning of ensembl1_phase, start, end, rank,
> ensembl_end_phase, strand (constitutive). Also I will be grateful if you
> tell me about the interpretation of the above link.
> Thanking you
>
>
>
>
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