Question: how to annotate (rRNA, tRNA, Mt_rRNA, Mt_tRNA, etc) sequenced small RNA reads
0
gravatar for bioinforesearchquestions
6 months ago by
United States
bioinforesearchquestions180 wrote:

Hi,

I have small RNA sequenced data. I annotated the small RNA sequenced reads against miRBase for miRNAs. I would like to annotate the sequenced small RNA reads into the following

mRNA_coding_sequence

rRNA

tRNA

mRNA_1000 TSS + 5UTR

mRNA_3UTR

Mt_rRNA

Mt_tRNA

misc_RNA

piRNA

snRNA

snoRNA

rna-seq small rna annotation • 277 views
ADD COMMENTlink written 6 months ago by bioinforesearchquestions180
1

you can do it with local NCBI blast against Rfam (for non coding RNAs) database and then grep according to each subtype

ADD REPLYlink written 6 months ago by Sam70
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1108 users visited in the last hour