Questions tagged [rna]

RNA, or ribonucleic acid, is a biological macromolecule made of nucleotides used in cells to convey genetic information to protein. RNA also plays a role in catalyzing certain biological reactions as well as carrying genetic material in some viruses.

RNA, like , is a heteropolymer of mononucleotides connected by phosphodiester bonds. However, RNA mononucleotides have ribose instead of deoxyribose and Uracil instead of Thymine. RNAs, unlike DNA form a variety of secondary and tertiary structures. Cellular RNAs are predominantly single stranded but can form intramolecular hydrogen bonds in DNA-like and other patterns such as Hoogstein base pairing.

Three main classes of RNA incude:

  • messenger RNA (): serve as a template for protein synthesis
  • non-coding RNA (ncRNA): serve diverse functions ranging from being a part of core-protein synthesis machinery to gene regulation
  • genomic RNA: serve as genetic material of certain viruses

ncRNA is a diverse class including:

  • Ribosomal RNAs (): structural and catalytic components of protein synthesis
  • Transfer RNA (): carry charged amino-acids for protein synthesis]
  • Long-noncoding RNA: diverse functions (yet to be characterized)
  • MicroRNA (miRNA): small regulatory RNA which post transcriptionally regulate gene expression
  • Small interfering RNA (siRNA) :small RNAs which silence target mRNA/lncRNA
  • Piwi-associated RNA (piRNA): small RNAs that silence transposons
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How does a single-stranded RNA bind to a double-stranded DNA to form a "triplex structure"?

If you have a single-stranded RNA that is complementary to a double-stranded DNA, how do they interact to form what my prof. calls a "triplex structure"? e.g. UGCUGAUAGCUACG ACGTACGACTA TGCATGCTGAT I don't understand how the DNA can form 2…
Jon Shaulfer
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Use cases of RNA secondary structure prediction

I'm an undergraduate currently writing a thesis on RNA secondary structure prediction, specifically building upon analysis done by the RNAStructure and Unafold software packages by modifying certain algorithms here and there. I'm actually not a…
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Are there any strictly chloroplast/mitochondrion-residing ribozymes?

A simple question that had occurred to me. Considering the small doubt of transcribed genes in both organelles, I would doubt it, but are there any known ribozymes strictly found in either mitochondria or chloroplasts? UPDATE: Actually, I just…
LanceLafontaine
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Do miRNA and antisense RNA do essentially the same thing?

Don't they both just disrupt RNA so it can't make a protein? If so, then what is the difference between the 2?
guest
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How many water molecules will be generated when single nucleotides are used to make this RNA: 5’-UUAACCGUCAG-3’?

Based on what we learned on condensation reactions, how many water molecules will be generated when single nucleotides are used to make this RNA: 5’-UUAACCGUCAG-3’ I had an online biology quiz with this question, and I thought it would be one…
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Majority of transcripts are from sense strand?

I am wondering whether majority of transcripts are transcribed from the 5'->3' strand? Because I encounter a lot of expressions like "anti-sense transcripts". Could anybody help clarify this? Thanks.
Joy
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Order of samples for RNA extraction

I want to extract RNA from various tissue samples, liver, gut etc, in different treatment groups. Due to the large amount of samples I will extract in sets. I am wondering, in reducing the potential for contamination whether it will be better to…
Gudetama
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RNA isolation problem

I have isolated RNA from cell culture (T25 flask, mouse cells) with trizol. I've measured the sample on Nanodrop, and this is what I've got: A260 (10mm): 16.408 A260/A280: 1.98 656.3 ng/ul How is this possible? What could go wrong here? Thank you!
D.Novak
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RNA integrity and RNA fragmentation

After RNA isolation and before following experiments, I know that RNA quality so called RNA integrity is so important. So why there is a RNA fragmentation kit? Do we need RNA intact or fragmented? (RNA will be used for biotinylation and RT-qPCR…
golgicik
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Does RNA serve as the genetic material of some plants and animals along with viruses?

My teacher mentioned that some plants and animals have RNA as genetic material but did not substantiate his statement with examples. I'm wondering if it is so? I have searched the internet but have found no such information.
Tyto alba
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Short RNA oligos modeling using FARFAR2

Does anyone have experience with modeling short RNA molecules using FARFAR2 server? Given very short strands, ~20 bases long, I'm getting binding in all bases though only half should bind Thanks!
Oded Ben Dov
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Why can't nucleotides when mixed together form an RNA on their own?

Why nucleotides when mixed together in the absence of a template RNA molecule do not readily link up into a chain? We know that the bond between nucleotides side by side is stronger than the hydrogen bond between the two RNA strands, a negative and…
Denis
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