refseq_RNA2protein: Get the protein accession from the transcript accession

In refseqR: Common Computational Operations Working with RefSeq Entries (GenBank)

Get the protein accession from the transcript accession

Description

refseq_RNA2protein() Returns the protein accession from a single transcript accession.

Depending on the function, available accessions in refseqR include RefSeq models with the prefixes XM_ (mRNA), XR_ (non-coding RNA), and XP_ (protein), as well as subsequently curated RefSeq records with NM_, NR_, or NP_ accession prefixes.

Usage

refseq_RNA2protein(transcript)

Arguments

transcript

A character string of the protein accession.

Value

A character vector containing the protein id encoded by the mRNA especified as transcript.

Author(s)

Jose V. Die

See Also

refseq_protein2RNA to obtain the transcript ids that encode a set of proteins ids.

Examples

 ## Not run: 
 # Get the protein id from a single transcript accession
 transcript <- "XM_004487701"
 refseq_RNA2protein(transcript)

 # Get the protein ids from a set of transcript accessions
 transcript = c("XM_004487701", "XM_004488493")
 sapply(transcript, function(x) refseq_RNA2protein(x), USE.NAMES = FALSE) 
## End(Not run)

refseqR documentation built on Oct. 30, 2024, 1:06 a.m.