How To Distinguish Non Coding Rna Transcript And Coding Rna Transcript

Question

[Payal]

Hi Friends,

How can i distinguish coding and non coding transcripts from the list of transcripts in nucleotide database of NCBI?

[Neilfws]

Which list and which database? There are many sequence resources at NCBI. Please be more specific and link to examples if possible.

[Payal]

http://www.ncbi.nlm.nih.gov/nuccore?term=atxn7

transcript's list, now how can i distinguish non coding and coding RNAs from the given list?

[Larry_Parnell]

That link provides a list of 240+ Atxn7 nucleotide sequences - some of which are genomic DNA, chromosomal contigs and some mRNAs. That's too noisy an output. It might be better to follow links from each gene page (for each organism) to the NM_xxxxxx or NR_xxxxxx links.

[Ido Tamir]

no she could use the refseq link on the right, then the refseq ids are visible

[Ido Tamir]

she could use the refseq link on the right to get all the refseq ids on multiple pages.

Answer 1

[Ido Tamir]

when you look at refseq ids, there is a key that tells you what RefSeq thinks it is.

NR_XXXXXX, XR would correspond to non coding
NM_XXXXXX, XM to coding

[Payal]

ya but my target is to find long non coding RNAs. And there are no long non coding RNA in the particular gene present in database.