Hello all,
I just wonder why the Un-Translated Regions of some genes can span multiple exons. When we look at the refseq transcripts in UCSC for example, we see them like noncoding exons. Are these real?
Thanks
I'll interpret your question as follows: "Browsing through the genome, I noticed that many UTRs are split across multiple exons as opposed to being single exons. Is there a reason for this and are these correct?" Firstly, yes, those are real. The actual answer to the remainder will likely vary with every gene. For some of these, the UTR itself has different splice forms in different tissues/developmental timepoints. One could propose, then, that this allows differential regulation (not to mention that having multiple promoter regions will lend itself to having a UTR split over multiple exons). Likewise, UTRs can be targets for regulation by miRNAs, thus allowing a further level of regulation. Another possible reason in some genes is purely historical. Many genes are formed due to duplications, which needn't really be complete. Not to mention that other elements may integrate up/downstream of an existing gene, thereby adding or splitting an existing UTR. Frankly, there are probably as many actual reasons as there are genes.
Yes, these UTRs are most likely an accepted biological reality (that's why they are in RefSeq ;). The UTRs are the portion of the mature spliced transcript which are not translated, e.g. before the start codon or after the stop codon of the transcript. Transcription and splicing is independent of translation and therefore the UTRs can well be split over multiple exons and share an exon with a the coding sequence.
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This is obviously a molecular biology question, but possibly many bioinformaticians know more about this than biologists ;)
Honestly, the wording of your question is horrible: "splittered" ?? But I think I know what you mean, so I'll edit it, also the link is useless, imo.
Thanks for rewording the question, I guess I should have refreshed before replying!
Thank you so much, sorry for my terrible English. In addition, my mac does autocorrection while I am writing.
... then you should definitely remove the entry "splitterd" from your dictionary ;) Also, you could ask someone to have a look at what you have written.
splitted UTR? what should we see on your figure? which transcript?
in first transcript for example, 5 utr is splitted in two pieces, why this happen?
how about reading the answers first?
the first answer is OK but I think different that i want to know... could you please look at this
http://genome.ucsc.edu/cgi-bin/hgTracks?hgsid=351309883&hgt_doJsCommand=&dirty=true&position=chr1%3A26%2C628%2C135-26%2C633%2C884&hgtgroup_map_close=0&hgtgroup_phenDis_close=0&hgtgroup_genes_close=0&hgtgroup_pub_close=0&hgtgroup_rna_close=0&hgtgroup_expression_close=0&hgtgroup_regulation_close=0&hgtgroup_compGeno_close=0&hgtgroup_neandertal_close=1&hgtgroup_denisova_close=1&hgtgroup_varRep_close=0
why the 5 utr is splitted?
thanks
Sorry, giving up, I don't know what you mean.
I answered that already in my reply below. What was unclear?
I highly appreciate...
do you have any ref for this:
For some of these, the UTR itself has different splice forms in different tissues/developmental timepoints.
thanks
I suspect that any undergraduate genetics/molecular biology textbook might mention this. Frankly, if this concept is unfamiliar to you, you'd do well to just take a few undergrad biology classes.
I don't think undergrad classes will help and yes I am not familiar with splicing UTRS event that is why I am asking question.... can you help me with this: why there is splicing within UTRS? I highly appreciate if you reply me from biology and bioinformatic point of view... thanks