Question: How to map protein isoform IDs to transcripts IDs ?
gravatar for jack
2.6 years ago by
jack800 wrote:


I would like to map my protein isoform IDs (refseq) to transcript ids. I was wondering whether can someone help me by that ?

For example gene ZC3H14 produce following three different isoforms: ZC3H14 NP_079100.2,NP_001153575.1,NP_001313239.1 I would like to map this isoforms to the transcripts that encodes these.

rna-seq genome proteomics • 812 views
ADD COMMENTlink modified 2.6 years ago by Jean-Karim Heriche21k • written 2.6 years ago by jack800
gravatar for Jean-Karim Heriche
2.6 years ago by
EMBL Heidelberg, Germany
Jean-Karim Heriche21k wrote:

In the RefSeq record for each protein, the corresponding transcript is referenced in the DBSOURCE field. You should be able to get this using the eutils tools or download and parse the LRG_RefSeqGene data file. For this kind of things, I much prefer working with EnsEMBLenter link description here.

ADD COMMENTlink written 2.6 years ago by Jean-Karim Heriche21k
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