refseq_CDScoords {refseqR}

Extract the coding sequences (CDS) coordinates from a transcript accession

Description

refseq_CDScoords() Parses a transcript accession (RefSeq format) and extract the CDS coordinates. The CDS coordinates refer to the mRNA molecule.

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_CDScoords(transcript)

Arguments

transcript

A character string of the single/multiple transcript id.

Value

An IRanges object with the start and end position of the CDS of the putative mRNAs.

Author(s)

Jose V. Die

See Also

refseq_CDSseq

Examples

transcript = c("XM_004487701")
refseq_CDScoords(transcript)


transcript = c("XM_004487701", "XM_004488493")
refseq_CDScoords(transcript)