Assume I have a non coding gene and a coding gene that are located in close proximity on the same strand but are transcribed in opposite directions... Is this possible? I think not because RNA-polymerase goes only in one direction... However, Bidirectional LncRNAs are divergent with the protein-coding gene and are oriented head to head with a protein-coding gene within 1,000 bp (http://www.arraystar.com/Services/Services_main.asp?ID=248)... Can somebody explain how this is possible?
2 answers
I think not because RNA-polymerase goes only in one direction....
Somehow not completely incorrect, but: DNA is double stranded and transcription can occur from both strands: http://en.wikipedia.org/wiki/Transcription_(genetics)
"but are transcribed in opposite directions..." isn't that a contradiction to your question? I think you should give more details or rephrase your question.
What do you mean by this? Strand is the same as direction of transcription.
Yes, possible. Both prokaryotic and eukaryotic genomes have similar features in this regards (same strand + opposite directions). You need to find the 'regulatory elements' in the "intergenic regions" of the 2 CDSs/ genes that you have mentioned/ found. Its more possible because lncRNA and Proteins-coding gene would surely "have different control mechanisms/ regulations" . And unless missing out in assembly, there must be 'traceable genetic elements' denoting their control in those 'intergenic regions' (and surely 1000 bp of such regions are huge enough to accommodate a loads of things over there) !
Log in to answer this question.
-
Exon Annotation failed using homer annotatePeaks.pl
written by Alessia •
-
Chromosome bias on RNA-Seq differential gene expression analysis
written by blz •
-
is the lowest numbered Ensembl transcript ID always the "canonical" transcript?
written by Charles Murtaugh •
-
Transcription of both sense and antisense strands in opposite directions
written by fabbaszadeh •
-
Aligning TF binding site to target gene method
written by bharata1803
-
Gene Identifiers and Databases
written by Sirio •
-
Genomic Annotation of Intervals (yes, again)
written by Tom
-
Filtering Tss List To Remove Tss Within X #Bp From One Another
written by bede.portz
-
Mutual Information
written by ftp
-
Poly(A) Signal Prediction And Forward/Reverse Strand Conventions
written by Lídia •
Hello ftp!
We believe that this post does not fit the main topic of this site.
It is highly unclear what you are asking and whether this is a bioinformatics question at all.
For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.
If you disagree please tell us why in a reply below, we'll be happy to talk about it.
Cheers!