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Transcript ranges for transcriptional strand annotation

Source: R/data_docs.R
trans.ranges.Rd

Precomputed transcript ranges (one row per gene) used by add_transcript_strand() to determine the coding strand for each variant. Sources: GENCODE v30 (human) and vM21 (mouse). Only genes with CCDS IDs are retained.

Usage

trans.ranges.GRCh37

trans.ranges.GRCh38

trans.ranges.GRCm38

Format

A data.table::data.table with columns chrom, start, end, strand, Ensembl.gene.ID, gene.symbol. One-based coordinates.

An object of class data.table (inherits from data.frame) with 19083 rows and 6 columns.

An object of class data.table (inherits from data.frame) with 19096 rows and 6 columns.

An object of class data.table (inherits from data.frame) with 20325 rows and 6 columns.

Source

https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_30/GRCh37_mapping/gencode.v30lift37.annotation.gff3.gz

https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_30/gencode.v30.annotation.gff3.gz

https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M21/gencode.vM21.annotation.gff3.gz