refseq_description function

Get the sequence Description

refseq_description() Returns the sequence description from a single transcript, protein, or GeneID accession.

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

refseq_description(id)

Arguments

• id: A character string of the transcript, protein, or GeneID accession.

Returns

A character vector containing the sequence description corresponding to the specified sequence as id.

Examples

## Not run:

 # Get the sequence descriptions from a set of transcript accessions
 transcript = c("XM_004487701")
 sapply(transcript, function(x) refseq_description(x), USE.NAMES = FALSE)

 # Get the sequence descriptions from a set of protein accessions
 protein = c("XP_004487758")
 sapply(protein, function(x) refseq_description(x), USE.NAMES = FALSE)

#' # Get the sequence descriptions from a set of Gene accessions
locs <- c("LOC101512347", "LOC101506901")
sapply(locs, function(x) refseq_description(x), USE.NAMES = FALSE)
## End(Not run)

See Also

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

refseq_RNA2protein to obtain the protein ids encoded by a set of transcript ids.

Author(s)

Jose V. Die