WhopGenome (version 0.9.4)

whop.ucsc.genesForRegion: Return a list of genes located in a certain region on a certain chromosome

Description

Details on all genes falling into the positions between 'beg' and 'end' on chromosome 'chrom' are returned.

Usage

whop.ucsc.genesForRegion(chrom, beg, end)

Arguments

chrom

Chromosome on which to look in "chr1" notation

beg

First position of the region a gene may fall into

end

Last position of the region a gene may fall into

Value

geneName

Gene name

name

Gene identifier

chrom

Chromosome, on which the gene is located

strand

Whether this gene is located on the + or - strand

txStart

Transcription start site

txEnd

Transcription end

cdsStart

Coding sequence start

cdsEnd

coding sequence end

exonCount

Number of exons of this gene

exonStarts

comma-separated list of exon start position

exonEnds

comma-separated list of exon end positions

Details

Gene name, chromosome of origin, strand, and start and end positions of transcription site, coding sequence and exons are returned.