Ensembl transcript id, mismatch between ensembl_transcript_id_version and ensembl_transcript

Ensembl transcript id, mismatch between ensembl_transcript_id_version and ensembl_transcript_id

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4.5 years ago

hardervidertsie ▴ 10

Using ensembl BioMart:

biomaRt::useMart(biomart = "ensembl",
                 host="http://www.ensembl.org",
                 dataset=paste0("hsapiens_gene_ensembl")

I tended to use the ensembl_transcript_id_version to match transcript variants to genes. However I have noticed that ensembl_transcript_id can be an entirely different number! Causing me to miss these variants in some cases.

Does anyone know why these can be different?

For now I will switch to using ensembl_transcript_id.

Example: ENST00000387377 ENST00000387377.1 are usually have identical base numbers. But sometimes these can be different.

Thanks in advance.

R BioMart ensembl • 1.7k views

ADD COMMENT • link updated 4.5 years ago by zx8754 11k • written 4.5 years ago by hardervidertsie ▴ 10

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Can you please give an example of where this is the case and what you mean by them being different.

ADD REPLY • link 4.5 years ago by Emily 23k

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Turns out I made a mistake, the ENST id's are equal.

ADD REPLY • link 4.5 years ago by hardervidertsie ▴ 10

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