utr3.mm10


    3'UTR annotation obtained from utr3Annotation by 
    TxDb.Mmusculus.UCSC.mm10.knownGene and org.Mm.eg.db


datasets

Alternative polyadenylation (APA) is one of the important
post-transcriptional regulation mechanisms which occurs in
most human genes. InPAS facilitates the discovery of novel
APA sites from RNAseq data. It leverages cleanUpdTSeq to fine
tune identified APA sites.

Jianhong Ou

InPAS

Identification of Novel alternative PolyAdenylation Sites (PAS)

utr3.mm10 function

GRanges with slot start holding the start position of the 3'UTR, slot end 
    holding the end position of the 3'UTR, slot names holding transcripts and 
    gene names of 3'UTR, slot seqnames holding the chromosome location where 
    the 3'UTR is located and slot strand for strand of 3'UTR. In addition, the 
    following variables are included.
    <dl>
        <dt><code>feature</code></dt><dd>should be unknown or proximalCP_XXXXXXXX</dd> <dt><code>id</code></dt><dd>should be utr3 or next.exon.gap</dd> <dt><code>exon</code></dt><dd>exon id</dd> <dt><code>transcript</code></dt><dd>trnscript id</dd> <dt><code>gene</code></dt><dd>entriz gene id</dd> <dt><code>symbol</code></dt><dd>gene symbol</dd> </dl> 

utr3.mm10: 3'UTR annotation for mm10 obtained from utr3Annotation

Description

Usage

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Details

Examples