<p><code>pyensembl</code> should do the job:</p>
<pre><code>&gt;&gt;&gt; from pyensembl import EnsemblRelease
&gt;&gt;&gt; data = EnsemblRelease(76)
&gt;&gt;&gt; data.transcript_by_id(&quot;ENST00000506751&quot;)
Transcript(..., contig='5', start=140861224, end=140863521, strand='+', genome='GRCh38')
</code></pre>

CC BY-SA 4.0
2021-07-12T15:07:20.067Z
Thanks so much this is perfect. Do you happen to know if there is anything similar for NCBI?
Greg
CC BY-SA 4.0
2021-07-12T16:16:57.707Z
Maybe https://biopython.org/docs/1.75/api/Bio.Entrez.html?
haci
CC BY-SA 4.0
2021-07-12T19:29:19.837Z
I don't see a way to map coordinates with Bio.Entrez unfortunately.  Thanks though.
Greg
CC BY-SA 4.0
2021-07-11T10:07:27.920Z
2021-07-11T10:07:27.920Z
haci
<p>Is there a python equivalent to <a href="https://bioconductor.org/packages/release/bioc/html/ensembldb.html" rel="nofollow noreferrer">ensembldb</a>? I want to get genome coordinates for a transcript (like the function <code>transcriptToGenome</code>) but need to do it in python. I wrote a R script that I'm calling from python but I was hoping there was a more direct way to do this.</p>
<p>Thanks</p>

<bioconductor><python>
ensembldb equivalent in python
# ensembldb equivalent in python

(Asked by: username_0 on 2021-07-11)

Is there a python equivalent to [ensembldb](https://bioconductor.org/packages/release/bioc/html/ensembldb.html)? I want to get genome coordinates for a transcript (like the function `transcriptToGenome`) but need to do it in python. I wrote a R script that I'm calling from python but I was hoping there was a more direct way to do this.

Thanks

**Tags:** bioconductor, python

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## 1 answers

### Answer by username_1 on 2021-07-11. Score: 4

pyensembl should do the job:
>>> from pyensembl import EnsemblRelease
>>> data = EnsemblRelease(76)
>>> data.transcript_by_id("ENST00000506751")
Transcript(..., contig='5', start=140861224, end=140863521, strand='+', genome='GRCh38')

> **Comments:**
> **username_0**: Thanks so much this is perfect. Do you happen to know if there is anything similar for NCBI?  
> **username_1**: Maybe https://biopython.org/docs/1.75/api/Bio.Entrez.html?  
> **username_0**: I don't see a way to map coordinates with Bio.Entrez unfortunately.  Thanks though.  

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