[ensembl-dev] transcript coordinates via REST?

[mag]

Hi Reece,

It is currently not straightforward to link between GRCh37 and GRCh38 
resources, which is why we have a dedicated GRCh37 REST server.
http://grch37.rest.ensembl.org

It is possible to map a location from GRCh37 to GRCh38 and vice-versa 
via the mapping endpoint
for example:
http://rest.ensembl.org/map/human/GRCh37/X:1000000..1000100:1/GRCh38?content-type=application/json

And a similar endpoint can provide you with transcript coordinates 
translated to genomic coordinates, although the reverse is not available
http://rest.ensembl.org/map/cdna/ENST00000288602/100..300?content-type=application/json

I am not sure if that covers your use case, so please don't hesitate to 
give us some feedback.
The REST API is still in active development and we are always happy to 
get some feature requests that allow us to prioritise future endpoints.


Regards,
Magali

On 30/07/2015 21:46, Reece Hart wrote:
> Hi-
>
> Is there a way to get transcript coordinates via the REST interface 
> for both GRCh37 and 38? Or, more specifically, is there any way other 
> than via the perl interface?
>
>
> I'm imaging/hope for something akin to
>
> http://rest.ensembl.org/overlap/id/ENSG00000157764?feature=transcript
>
> returning something like:
>
>  {'Parent': 'ENSG00000271932',
>   'biotype': 'snRNA',
>   'feature_type': 'transcript',
>   'id': u'ENST00000605989',
>   'coordinates': {
>      'NC_000007.10' : { 'strand': -1, 'start_end': 
> [[140696671,140696671], [140696671,140696671]...]},
>      'ENST00000605989' : { 'strand': 1, 'start_end': [[10,20], 
> [20,30]...]},
>   },
> }]
>
> Thanks,
> Reece
>
>
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