Questions tagged [mrna]

Messenger RNA is produced during transcription before it leaves the nucleus to be be translated by a ribosome. This produces a sequence of nucleic acids for which mRNA is considered the template.

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Why can oligo-U not be used to isolate mRNAs, instead of oligo dT?

dTTP oligonucleotides are used to isolate mRNAs because mRNAs (in eukaryotes) have a poly A tail which binds to the complementary oligo-dT. However, why can we not use oligo-U instead (uracil)? I ...
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What is the meaning of conservation site in miRNA-mRNA pairing context?

I am not biologist and just work in Bioinformatics field. Does anyone know what is the meaning of conservation in the context of miRNAs and their pairings to mRNAs? Example: Each of these duplexes ...
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Minimum number of cycles for effective qPCR quantification?

I have been having an apparent problem with gDNA contamination in my no-reverse transcriptase (NRT) controls by the appearance of fluorescence peaks in my qPCR data. I have/am trying multiple DNase ...
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Do exon deletions in C.elegans mutants necessarily result in nonsense mediated decay of the transcript?

I am trying to write out my research proposal about a project in C.elegans. There are multiple mutants of the factor that I want to study, each with different mutations. I know that a mutation that ...
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160 views

Consensus sequence for selection of initiation codon in eukaryotes

In bacteria the AUG (or other) codon at which translation of mRNA is initiated is preceded at a precise distance by a sequence known as the Shine and Dalgarno sequence, to which the 30S subunit ...
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Blood sampling at home

I want to collect small blood samples at regular intervals (e.g. every 8 hours or more often) over a longer period (weeks to months). To avoid having to go to a lab or doctor to have this done, I want ...
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34 views

Gene expression for mouse feeder cells (inactivated MEFs)

I'm looking for a paper with gene expression data for mouse feeder cells, inactivated by gamma radiation or mitomycin C. Ideally I'd like RNA-seq data but I'll use microarray data if that's all there ...
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25 views

How to automate this custom gene expression microarray chip?

I have 16 gene sequences that I am interested in their detection in clinical samples. I already measured their RNA levels by using RT-qPCR technique and their benefit has already been proven to help ...
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87 views

Confusion about the role of capping and polyadenylation in nuclear transport

Before termination stage of transcription a GMP cap is added to the 5' end and poly-A tail to 3' end of mRNA. The link(http://sciencing.com/role-rna-polyadenylation-5434666.html) says: The poly(A) ...
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137 views

How often does pre-mRNA processing lead to midstream off-frame errors in eukaryotic mRNAs?

As I understand it, the splicing of introns from pre-mRNAs is not incredibly precise. I've only ever seen nucleotide position ranges given in any description of the involved processes. Since there is ...
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mRNA extraction from mice ears.

I am trying to extract RNA from mice ears and for some reason I don't have RNA when I perform the electrophoresis. I directly cut the ears and I put it in a tube with a bead and trizol. then I place ...
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51 views

Which data format for mRNA expression matrix is necessary to run pathway analysis with Paradigm?

I am running Paradigm on a matrix of mRNA expression. I read Vaske, Charles J., et al. "Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM."...
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35 views

Modeling the production of mRNA

I have the following example of how an equation for the production of mRNA in a particular organism could look like: Consider the following equation for the production of mRNA for a gene Y. Gene Y ...
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Why majority of synthesized mRNAs are halted at Nuclear Pore Complex?

I was reading about mRNA export process. I came to know that only 36% of synthesized mRNA transport events at Nuclear Pore Complexes(NPC) of the nuclear membrane get successful in crossing to the ...
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Can splicing factors control an alternative splicing of a single gene?

So far my understanding of alternative splicing is as follows: Let A, B, C, ... stand for genes of a cell's genome. When a gene is transcribed to pre-mRNA, it will contain exons and introns: pre-...
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102 views

flavivirus virus genome, methylated guanine

I'm looking at the sequence of a flavivirus virus genome (mRNA). Kindly see the link MH900227.1. How can I identify the Guanine nucleotide that is methylated in the capping process? Thanks,