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https://en.wikipedia.org/wiki/RbcL%205%E2%80%B2%20UTR%20RNA%20stabilising%20element | The rbcL 5′ UTR RNA stabilising element is an RNA element from Chlamydomonas reinhardtii that is thought to be involved in the stabilisation of the rbcL gene which codes for large subunit of ribulose-1,5-bisphosphate carboxylase. Mutations in this family can lead to a 50-fold acceleration in degradation of the mRNA transcript.
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/Renin%20stability%20regulatory%20element%20%28REN-SRE%29 | The Renin stability regulatory element (REN-SRE) is a cis-acting element identified in the 3'untranslated region (3'UTR) of the renin (REN) gene. It acts to regulate the levels of renin protein produced in the cell. Renin is secreted by renal juxtaglomerular cells and catalyses the conversion of angiotensinogen into angiotensin I which is the rate-limiting step in the production of angiotensin II. Angiotensin II induces hypertension and REN therefore requires tight expression control.
REN-SRE is thought to act by destabilising the REN messenger RNA (mRNA) and promoting degradation of the mRNA sequence. It has been found that a number of proteins bind to the REN-SRE to stabilise the mRNA and promote translation.
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/Repression%20of%20heat%20shock%20gene%20expression%20%28ROSE%29%20element | The repression of heat shock gene expression (ROSE) element is an RNA element found in the 5' UTR of some heat shock protein's mRNAs. The ROSE element is an RNA thermometer that negatively regulates heat shock gene expression. The secondary structure is thought to be altered by temperature, thus it is an RNA thermometer. This structure blocks access to the ribosome binding site at normal temperatures. During heat shock however, the structure changes freeing the ribosome binding site and allowing expression to occur.
A partial structure of this RNA element has been determined using NMR.
ROSE1 and ROSEAT2
ROSE1 and ROSEAT2 are specific examples of ROSE elements. ROSE1 is found in Bradyrhizobium japonicum whereas ROSEAT2 is a closely related element from Agrobacterium tumefaciens. The two RNA elements have similar secondary structures with ROSE1 having an extra hairpin. All ROSE elements contain a characteristic 'bulged G' opposite the Shine-Dalgarno sequence binding site, without this nucleotide the RNA thermometer loses its temperature-sensitivity.
IpbA
Expression of the heat shock protein IpbA in species of Pseudomonas is controlled by a ROSE-type RNA thermometer. This thermometer only consists of two hairpins. It inhibits translation of IpbA at low temperatures and permits translation when temperature increases.
rhlA and lsdI ROSE-like elements
Pseudomonas aeruginosa quorum sensing-dependent virulence factors can be thermoregulated. ROSE thermometer present in the 5'UTR |
https://en.wikipedia.org/wiki/Retron | A retron is a distinct DNA sequence found in the genome of many bacteria species that codes for reverse transcriptase and a unique single-stranded DNA/RNA hybrid called multicopy single-stranded DNA (msDNA). Retron msr RNA is the non-coding RNA produced by retron elements and is the immediate precursor to the synthesis of msDNA. The retron msr RNA folds into a characteristic secondary structure that contains a conserved guanosine residue at the end of a stem loop. Synthesis of DNA by the retron-encoded reverse transcriptase (RT) results in a DNA/RNA chimera which is composed of small single-stranded DNA linked to small single-stranded RNA. The RNA strand is joined to the 5′ end of the DNA chain via a 2′–5′ phosphodiester linkage that occurs from the 2′ position of the conserved internal guanosine residue.
Sequence and structure
Retron elements are about 2 kb long. They contain a single operon controlling the synthesis of an RNA transcript carrying three loci, msr, msd, and ret, that are involved in msDNA synthesis. The DNA portion of msDNA is encoded by the msd gene, the RNA portion is encoded by the msr gene, while the product of the ret gene is a reverse transcriptase similar to the RTs produced by retroviruses and other types of retroelements. Like other reverse transcriptases, the retron RT contains seven regions of conserved amino acids (labeled 1–7 in the figure), including a highly conserved tyr-ala-asp-asp (YADD) sequence associated with the catalytic core. The ret |
https://en.wikipedia.org/wiki/Retroviral%20psi%20packaging%20element | The retroviral psi packaging element, also known as the Ψ RNA packaging signal, is a cis-acting RNA element identified in the genomes of the retroviruses Human immunodeficiency virus (HIV) and Simian immunodeficiency virus (SIV). It is involved in regulating the essential process of packaging the retroviral RNA genome into the viral capsid during replication. The final virion contains a dimer of two identical unspliced copies of the viral genome.
In HIV, the psi element is around 80–150 nucleotides in length, and located at the 5' end of the genome just upstream of the gag initiation codon. It has a known secondary structure composed of four hairpins called SL1 to SL4 (SL is for Stem-loop) which are connected by relatively short linkers. All four stem loops are important for genome packaging and each of the stem loops SL1, SL2, SL3 and SL4 has been independently expressed and structurally characterised.
Stem loop 1 (SL1) (also referred to as HIV-1_DIS) consists of a conserved hairpin structure with a palindromic loop sequence which was predicted and confirmed by mutagenesis. This palindromic loop is known as the primary dimer initiation site (DIS) as it is believed to promote dimerization of the viral genome through formation of a "kissing dimer" intermediate. The Rfam structure shown is based on a covariation model.
It has been shown that SL1 may provide a secondary binding site for the viral Rev protein. The Rev protein is an essential HIV regulatory protein which |
https://en.wikipedia.org/wiki/Retrovirus%20direct%20repeat%201%20%28dr1%29 | The direct repeat 1 (dr1) element is an RNA element commonly found in the 3' UTR of Avian sarcoma, Rous sarcoma and Avian leukosis viruses (Alpharetroviruses and Avian type C retroviruses). dr1 is required for efficient viral replication and is thought to be involved in genomic RNA packaging although this may not be its only role.
References
External links
Cis-regulatory RNA elements
Alpharetroviruses |
https://en.wikipedia.org/wiki/Ribosomal%20protein%20L10%20leader | This family is a putative ribosomal protein leader autoregulatory structure found in B. subtilis and other low-GC Gram-positive bacteria. It is located in the 5′ untranslated regions of mRNAs encoding ribosomal proteins L10 and L12 (rplJ-rplL). A Rho-independent transcription terminator structure that is probably involved in regulation is included at the 3′ end.
Other ribosomal protein leaders identified in the same study include those of L13, L19, L20 and L21.
References
External links
Ribosomal protein leader |
https://en.wikipedia.org/wiki/Ribosomal%20protein%20L13%20leader | L13 ribosomal protein leaders play a role in ribosome biogenesis as part of an autoregulatory mechanism to control the concentration of ribosomal proteins L13. Three structural classes of L13 ribosomal protein leaders were detected by different bioinformatics approaches: in B. subtilis and other low-GC Gram-positive bacteria., in E. coli and in Bacteroidia. Although these RNAs are expected to perform the same biological function, they do not appear to be structurally related to one another. The E. coli example has been experimentally confirmed, though the experiments are not comprehensive. The other two leader structures are thus far not based on experimental support.
See also
Ribosomal protein leader
References
External links
Ribosomal protein leader |
https://en.wikipedia.org/wiki/Ribosomal%20protein%20L19%20leader | L19 Ribosomal protein leaders are part of the ribosome biogenesis. They are used as an autoregulatory mechanism to control the concentration of ribosomal proteins L19, and are located in the 5′ untranslated regions of mRNAs encoding ribosomal protein L19 (rplS).
L19 ribosomal protein leaders have been bioinformatically predicted in B. subtilis and other low-GC Gram-positive bacteria in the phylum Bacillota.
More examples that share a similar structure were predicted in Flavobacteria, also using bioinformatic approaches.
See also
Ribosomal protein leader
References
External links
Ribosomal protein leader |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snoZ7/snoR77 | In molecular biology, the snoRNA snoZ7/snoZ77 family contains related non-coding RNA molecules that are members of the C/D class of snoRNA which contain the C box motif (UGAUGA) and the D box motif (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. snoZ7 RNA guides the methylation of 25S rRNA position A1372, whereas SnoR77Y guides the methylation of 18S rRNA at position U580. This family of snoRNAs has been found in plant species such as Arabidopsis thaliana.
References
External links
Plant SnoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Ribosomal%20protein%20L20%20leader | L20 ribosomal protein leader is a ribosomal protein leader involved in the ribosome biogenesis. It is used as an autoregulatory mechanism to control the concentration of ribosomal proteins L20. The structure is typically located in the 5′ untranslated regions of mRNAs encoding initiation factor 3 followed by ribosomal proteins L35 and L20 (infC-rpmI-rplT), but the regulated mRNAs always contain an L20 gene. A Rho-independent transcription terminator structure that is probably involved in regulation is included at the 3′ end in many examples of L20 ribosomal protein leaders.
Three structurally distinct forms of L20 leaders have been experimentally established. One such leader motif occurs in Bacillota and the other two are found in Gammaproteobacteria. Of the latter two, one is found in a wide variety of Gammaproteobacteria, while the other is only reported in Escherichia coli. All three types of leader exhibit apparent similarities to the region of Ribosomal RNA to which the L20 protein normally binds. However, in terms of RNA secondary structure, the context of the similar region is distinct in each leader type.
A fourth example of an L20 ribosomal protein leader was predicted in Deltaproteobacteria using bioinformatic approaches.
Like the three experimentally validated kinds of leader, the Deltaproteobacterial version resembles the relevant portion of ribosomal RNA, but presents this similarity in yet another structural context.
See also
Ribosomal protein leader
Refer |
https://en.wikipedia.org/wiki/Ribosomal%20protein%20L21%20leader | A ribosomal protein L21 leader is a ribosomal protein leader autoregulatory structure that regulates mRNAs containing a gene that encodes ribosomal protein L21.
An RNA motif was predicted to function as an L21 leader in a bioinformatics study, and is
found in B. subtilis and other low-GC Gram-positive bacteria within the phylum Bacillota. It is located in the 5′ untranslated regions of mRNAs encoding ribosomal protein L21, a protein of unknown function, and ribosomal protein L27 (rplU-ysxB-rpmA).
See also
Ribosomal protein leader
References
External links
Ribosomal protein leader |
https://en.wikipedia.org/wiki/Ribosomal%20S15%20leader | S15 Ribosomal protein leaders perform an important regulatory function in ribosome biogenesis. They were used as an autoregulatory mechanism to control the concentration of ribosomal proteins S15. The structure is located in the 5′ untranslated regions of mRNAs encoding ribosomal proteins S15 (rpsO). Multiple distinct structural types of S15 ribosomal protein leaders are known in different organisms.
The E. coli ribosomal S15 leader is an RNA element that can form two alternative structures found in the ribosomal S15 protein. One of the two alternate structures is a series of three hairpins, the other includes a pseudoknot. This structure causes translational regulation of the S15 protein. Only the final two hairpins are conserved in other species.
Another example for Bacteria was predicted in Flavobacteria. The secondary structure of his putative ribosomal leader consists of a hairpin in most species. However, some species lack this hairpin. Such a lack of apparent secondary structure would be unusual for a ribosomal leader, which makes this candidate ribosomal leader a less certain prediction.
Two examples in Archaea (one in Halobacteria and one in Methanomicrobia) were predicted. In this structure, similarities between the rRNA binding site of the S15 ribosomal protein and the S15 ribosomal protein leader binding site were detected. This suggests that the ribosomal leaders in these organisms function by mimicking the S15 binding site in rRNA.
See also
Ribosomal pr |
https://en.wikipedia.org/wiki/RNAI | RNAI is a non-coding RNA that is an antisense repressor of the replication of some E. coli plasmids, including ColE1. Plasmid replication is usually initiated by RNAII, which acts as a primer by binding to its template DNA. The complementary RNAI binds RNAII prohibiting it from its initiation role. The rate of degradation of RNAI is therefore a major factor in the control of plasmid replication. This rate of degradation is aided by the pcnB (plasmid copy number B) gene product, which polyadenylates the 3' end of RNAI targeting it for degradation by PNPase.
References
Further reading
External links
Antisense RNA |
https://en.wikipedia.org/wiki/RNAIII | RNAIII is a stable 514 nt regulatory RNA transcribed by the P3 promoter of the Staphylococcus aureus quorum-sensing agr system ). It is the major effector of the agr regulon, which controls the expression of many S. aureus genes encoding exoproteins and cell wall associated proteins plus others encoding regulatory proteins The RNAIII transcript also encodes the 26 amino acid δ-haemolysin (Staphylococcus aureus delta toxin) peptide (Hld). RNAIII contains many stem loops, most of which match the Shine-Dalgarno sequence involved in translation initiation of the regulated genes. Some of these interactions are inhibitory, others stimulatory; among the former is the regulatory protein Rot. In vitro, RNAIII is expressed post exponentially, inhibiting translation of the surface proteins, notably protein A, while stimulating that of the exoproteins, many of which are tissue-degrading enzymes or cytolysins. Among the latter is the important virulence factor, α-hemolysin (or alpha toxin) (Hla), whose translation RNAIII activates by preventing the formation of an inhibitory foldback loop in the hla mRNA leader.
References
Further reading
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/RNA-OUT | RNA-OUT is a non-coding RNA that is antisense to the RNA-IN non-coding RNA. Transposition of insertion sequence IS10 is regulated by an anti-sense RNA which inhibits transposase expression when IS10 is present in multiple copies per cell. IS10 antisense pairing is facilitated by the RNA-binding protein, Hfq. RNA-OUT consists of a stem-loop domain topped by a flexibly paired loop; the 5′ end of the target molecule, RNA-IN, is complementary to the top of the loop, and complementarity extends for 35 nucleotides down one side of RNA-OUT.
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snR55/Z10 | In molecular biology, Small nucleolar RNA snR55/Z10 is a non-coding RNA (ncRNA) molecule which functions in the biogenesis of other small nuclear RNAs (snRNAs). These small nucleolar RNAs (snoRNAs) are modifying RNAs and usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis.
snoRNA snR55 was identified in (Schizosaccharomyces pombe) and has also been called snoRNA Z10. This snoRNA belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
This predicted snoRNA does not appear to have the C/D box snoRNA terminal stem structure.
References
External links
yeast snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/RNase%20E%205%E2%80%B2%20UTR%20element | In molecular biology, the RNase E 5′ UTR element is a cis-acting element located in the 5′ UTR of ribonuclease (RNase) E messenger RNA (mRNA).
RNase E is a key regulatory enzyme in the pathway of mRNA degradation in Escherichia coli. It is able to auto-regulate the degradation of its own mRNA in response to changes in RNase E activity. This rne 5′ UTR element acts as a sensor of cellular RNase E concentration enabling tight regulation of RNase E concentration and synthesis.
See also
Degradosome
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/RncO | RncO is a bacterial non-coding RNA regulatory element found in the rnc leader sequence. The rnc operon is negatively auto-regulated by transcript stability. rnc, the first gene in the operon codes for RNase III which cleaves the long rncO stem II leading to transcript degradation and a reduction in translation. Matsunaga et al. showed that RNase III cleavage can initiate rnc transcript decay independently of rnc gene translation. Further work has established that rncO structure and function is conserved in Salmonella typhimurium.
Structure
Functionally the first 215 nucleotides of the rnc leader have been shown to be sufficient. Within this region three stem-loops were identified. Stem-loop II is cleaved by RNase III, whereas stem-loops I and III are important for stability.
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/Rotavirus%20cis-acting%20replication%20element | This family represents a rotavirus cis-acting replication element (CRE) found at the 3'-end of rotavirus mRNAs. The family is thought to promote the synthesis of minus strand RNA to form viral dsRNA.
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/RprA%20RNA | The RprA RNA gene encodes a 106 nucleotide regulatory non-coding RNA. Translational regulation of the stationary phase sigma factor RpoS is mediated by the formation of a double-stranded RNA stem-loop structure in the upstream region of the rpoS messenger RNA, occluding the translation initiation site.
Clones carrying rprA (RpoS regulator RNA A) increased the translation of RpoS. As with DsrA, RprA is predicted to form three stem-loops. Thus, at least two small RNAs, DsrA and RprA, participate in the positive regulation of RpoS translation. RprA also appears to bind to the RpoS leader. RprA is non-essential. Wasserman et al. demonstrated that this RNA is bound by the Hfq protein. Binding to Hfq alters the conformation of RprA. In the presence of Hfq the stability of RprA is influenced by the osmolarity of the cell, this is dependent on the endoribonuclease RNase E.
It has been shown the RprA regulates the protein coding genes, called csgD, this protein encodes a stationary phase-induced biofilm regulator and ydaM, which encodes a diguanylate cyclase involved in activating csgD transcription. These two target genes are repressed by RprA which results in regulation of biofilm formation.
References
External links
RprA entry in ncRNA database
Non-coding RNA |
https://en.wikipedia.org/wiki/RsmY%20RNA%20family | The rsmY RNA family is a set of related non-coding RNA genes, that like RsmZ, is regulated by the GacS/GacA signal transduction system in the plant-beneficial soil bacterium and biocontrol model organism Pseudomonas fluorescens CHA0. GacA/GacS target genes are translationally repressed by the small RNA binding protein RsmA. RsmY and RsmZ RNAs bind RsmA to relieve this repression and so enhance secondary metabolism and biocontrol traits.
Studies in Legionella pneumophila have shown that the ncRNAs RsmY and RsmZ together with the proteins LetA and CsrA are involved in a regulatory cascade. Also, it appears that these ncRNAs are regulated by RpoS sigma-factor.
See also
CsrB/RsmB RNA family
CsrC RNA family
PrrB/RsmZ RNA family
RsmX
RsmW sRNA
CsrA protein
References
Further reading
External links
Pfam page for the CsrA protein family
Non-coding RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snR60/Z15/Z230/Z193/J17 | In molecular biology, snoRNA snR60 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA snR60 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoRNA snR60 was initially discovered using a computational screen of the Saccharomyces cerevisiae genome, subsequent experimental screens discovered plant homologues Z15, Z230, Z193 and J17 and human U80/SNORD80.
References
External links
Link to snR60 at the FournierLab's snoRNAdb.
Small nuclear RNA |
https://en.wikipedia.org/wiki/RtT%20RNA | The RtT RNA (repeat structure of the tyrT operon) is a RNA element that is released from the tyrT operon of Escherichia coli. The exact function of RtT is unknown although it is thought that it may be involved in changing the cellular response in relation to amino acid starvation.
The functional prediction is strengthened when the tyrT locus of E. coli K12 is compared with the B strain, which lacks RtT RNA and has an alternate starvation response.
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/Rubella%20virus%203%E2%80%B2%20cis-acting%20element | The Rubella virus 3′ cis-acting element RNA family represents a cis-acting element found at the 3′ UTR in the rubella virus. This family contains three conserved step loop structures. Calreticulin (CAL), which is known to bind calcium in most eukaryotic cells, is able to specifically bind to the first stem loop of this RNA. CAL binding is thought to be related to viral pathogenesis and in particular arthritis which occurs frequently in rubella infections in adults and is independent of viral viability. All stem loop structures are thought to be important for efficient viral replication and deletion of stem loop three is known to be lethal.
See also
Togavirus 5′ plus strand cis-regulatory element
References
External links
- Calreticulin protein family
Cis-regulatory RNA elements
Rubella
Togaviruses |
https://en.wikipedia.org/wiki/RybB%20RNA | RybB is a small non-coding RNA was identified in a large scale screen of Escherichia coli. The function of this short RNA has been studied using a transcriptomic approach and kinetic analyses of target mRNA decay in vivo. RybB was identified as a factor that selectively accelerates the decay of multiple major omp mRNAs upon induction of the envelope stress response. This RNA has been shown to bind to the Hfq protein.
In Salmonella, direct interactions for RybB with the following targets have been verified experimentally: STM2391 (fadL), STM1070 (ompA), STM2267 (ompC), STM1572 (ompD), STM0999 (ompF), STM1473 (ompN), STM1995 (ompS), STM1732 (ompW), STM0413 (tsx), STM0687 (ybfM, chiP) and STM1530.
In Escherichia coli, direct interactions for RybB with the following targets have been verified experimentally: b0805 (fiu), b0721 (sdhC), b2215 (ompC), b1256 (ompW), b2594 (rluD) and b0081 (mraZ).
See also
RyfA RNA
RydB RNA
RydC RNA
MicA RNA
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/RydB%20RNA | The RydB RNA is a non-coding RNA originally identified in E. coli in an RNA screen. This gene is only 67 nucleotides in length and is composed of a hairpin like structure. RydB lies between the ydiC and ydiH in E. coli. Homologous RNA genes have been found in other species such as Shigella flexneri and Salmonella species. The molecular function of this RNA is unknown.
See also
RyhB RNA
RyeB RNA
RyeE RNA
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/RydC%20RNA | RydC is a bacterial non-coding RNA. RydC is thought to regulate a mRNA, yejABEF, which encodes an ABC transporter protein. RydC is known to bind the Hfq protein, which causes a conformational change in the RNA molecule. The Hfq/RydC complex is then thought to bind to the target mRNA and induce its degradation.
See also
RyfA RNA
RydB RNA
RybB RNA
References
Further reading
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snR61/Z1/Z11 | In molecular biology, Small nucleolar RNA snR61/Z1/Z11 refers to a group of related non-coding RNA (ncRNA) molecules which function in the biogenesis of other small nuclear RNAs (snRNAs). These small nucleolar RNAs (snoRNAs) are modifying RNAs and usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis.
These related snoRNAs include yeast (Schizosaccharomyces pombe) snR61, fly (Drosophila melanogaster) Z1 and yeast (Saccharomyces cerevisiae) snR61 and Z11 snoRNAs. They are predicted to belong to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
References
External links
yeast snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/RyeB%20RNA | The SdsR/RyeB RNA is a non-coding RNA that was identified in a large scale screen of E. coli. The exact 5′ and 3′ ends of this RNA are uncertain. This RNA overlaps the SraC/RyeA RNA on the opposite strand suggesting that the two may act in a concerted manner. It is transcribed by general stress factor σs and is most highly expressed in stationary phase. SdsR/RyeB RNA interacts with Hfq.
The homologous sRNA in S. enterica was shown to regulate synthesis of major porin OmpD. A study using Salmonella identified 20 targets of this sRNA including transcriptional regulator, CRP, global DNA-binding factors, StpA and HupB, the antibiotic transporter protein, TolC, and the RtsA/B two-component system (TCS), and validated their post-transcriptional control by SdsR/RyeB RNA.
See also
RydB RNA
RyhB RNA
RyeE RNA
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/RyeE%20RNA | The CyaR RNA (formerly known as RyeE RNA) non-coding RNA was identified in a large scale screen of Escherichia coli and was called candidate 14. The exact 5′ and 3′ ends of this RNA are uncertain. This gene lies between yegQ and orgK in E. coli. This small RNA was shown to be bound by the Hfq protein. This RNA has been renamed as CyaR for (cyclic AMP-activated
RNA). It has been shown that the CyaR RNA acts as a repressor of the porin OmpX. It has also been shown that cyaR expression is tightly controlled by the cyclic AMP receptor protein, CRP.
A comparative genomics approach was able to detect and verify the additional targets ptsI, sdhA and yobF.
See also
RydB RNA
RyhB RNA
RyeB RNA
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/RyfA%20RNA | The ryfA RNA gene is a non-coding RNA present in E. coli, Shigella flexneri and Salmonella species where it is found between the ydaN and dbpA genes. These RNA genes are about 300 nucleotides in length. The function of this RNA is unknown.
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/RyhB | RyhB RNA is a 90 nucleotide RNA that down-regulates a set of iron-storage and iron-using proteins when iron is limiting; it is itself negatively regulated by the ferric uptake repressor protein, Fur (Ferric uptake regulator).
Discovery
The gene was independently identified in two screens, named RyhB by Wassarman et al. and called SraI by Argaman et al. and was found to be expressed only in stationary phase.
Function and regulation
RyhB RNA levels are inversely correlated with mRNA levels for the sdhCDAB operon, encoding succinate dehydrogenase, as well as five other genes previously shown to be positively regulated by Fur by an unknown mechanism. These include two other genes encoding enzymes in the tricarboxylic acid cycle, acnA and fumA, two ferritin genes, ftnA and bfr, and a gene for superoxide dismutase, sodB. A number of other genes have been predicted computationally and verified as targets by microarray analysis: napF, sodA, cysE, yciS, acpS, nagZ and dadA. RyhB is bound by the Hfq protein, that increases its interaction with its target messages.
A comparative genomics target prediction approach suggests that the mRNAs of eleven additional iron containing proteins are controlled by RyhB in Escherichia coli. Two of those (erpA, nirB) and two additional targets that are not directly related to iron (nagZ, marA) were verified with a GFP reporter system.
It has been shown that RyhB has a role in targeting the polycistronic transcript iscRSUA for differential degradati |
https://en.wikipedia.org/wiki/SAM-II%20riboswitch | The SAM-II riboswitch is an RNA element found predominantly in Alphaproteobacteria that binds S-adenosyl methionine (SAM). Its structure and sequence appear to be unrelated to the SAM riboswitch found in Gram-positive bacteria. This SAM riboswitch is located upstream of the metA and metC genes in Agrobacterium tumefaciens, and other methionine and SAM biosynthesis genes in other alpha-proteobacteria. Like the other SAM riboswitch, it probably functions to turn off expression of these genes in response to elevated SAM levels. A significant variant of SAM-II riboswitches was found in Pelagibacter ubique and related marine bacteria and called SAM-V. Also, like many structured RNAs, SAM-II riboswitches can tolerate long loops between their stems.
Structure
The SAM-II riboswitch is short with less than 70 nucleotides and is structurally relatively simple being composed of a single hairpin and a pseudoknot.
See also
SAM-I riboswitch
SAM-III riboswitch
SAM-IV riboswitch
SAM-V riboswitch
SAM-VI riboswitch
References
External links
Cis-regulatory RNA elements
Riboswitch |
https://en.wikipedia.org/wiki/SAM%20riboswitch%20%28S-box%20leader%29 | The SAM riboswitch (also known as the S-box leader and the SAM-I riboswitch) is found upstream of a number of genes which code for proteins involved in methionine or cysteine biosynthesis in Gram-positive bacteria. Two SAM riboswitches in Bacillus subtilis that were experimentally studied act at the level of transcription termination control. The predicted secondary structure consists of a complex stem-loop region followed by a single stem-loop terminator region. An alternative and mutually exclusive form involves bases in the 3' segment of helix 1 with those in the 5' region of helix 5 to form a structure termed the anti-terminator form. When SAM is unbound, the anti-terminator sequence sequesters the terminator sequence so the terminator is unable to form, allowing the polymerase to read-through the downstream gene. When S-Adenosyl methionine (SAM) is bound to the aptamer, the anti-terminator is sequestered by an anti-anti-terminator; the terminator forms and terminates the transcription. However, many SAM riboswitches are likely to regulate gene expression at the level of translation.
Structure organization
The structure of the SAM riboswitch has been determined with X-ray crystallography. The SAM riboswitch is organized about a four way junction, with two sets of coaxially stacked helices arranged side-by-side. These stacks are held together by a pseudoknot formed between the loop on the end of stem P2 and the J3/4 joining region. The formation of the pseudoknot is |
https://en.wikipedia.org/wiki/Sar%20RNA | Sar RNA is an antisense non-coding RNA that is partly responsible for the negative regulation of antirepressor synthesis during development of bacteriophage P22. The target of Sar RNA is ant mRNA. Structurally, Sar RNA forms two stem-loops.
References
External links
Antisense RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20U6-53/MBII-28 | In molecular biology, Small nucleolar RNA U6-53 (also known as MBII-28) is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA U6-53 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
This snoRNA possesses sequence complementarity to U6 spliceosomal RNA and is likely to direct its 2'-O-methylation.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/S-element | The S-element is an RNA element found in p42d and related plasmids. The S-element has multiple functions and is believed to act as a negative regulator of repC transcription, and be required for efficient replication and act as a translational enhancer of repC.
See also
ctRNA
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/SerC%20leader | SerC leader is a putative regulatory RNA structure found upstream of the serC-serA operon in some alpha-proteobacteria. The final stem of the structure overlaps the ribosome binding site of the serC reading frame.
References
External links
Cis-regulatory RNA elements |
https://en.wikipedia.org/wiki/SgrS%20RNA | SgrS (sugar transport-related sRNA, previously named ryaA) is a 227 nucleotide small RNA that is activated by SgrR in Escherichia coli during glucose-phosphate stress. The nature of glucose-phosphate stress is not fully understood, but is correlated with intracellular accumulation of glucose-6-phosphate. SgrS helps cells recover from glucose-phosphate stress by base pairing with ptsG mRNA (encoding the glucose transporter) and causing its degradation in an RNase E dependent manner. Base pairing between SgrS and ptsG mRNA also requires Hfq, an RNA chaperone frequently required by small RNAs that affect their targets through base pairing. The inability of cells expressing sgrS to create new glucose transporters leads to less glucose uptake and reduced levels of glucose-6-phosphate. SgrS is an unusual small RNA in that it also encodes a 43 amino acid functional polypeptide, SgrT, which helps cells recover from glucose-phosphate stress by preventing glucose uptake. The activity of SgrT does not affect the levels of ptsG mRNA of PtsG protein. It has been proposed that SgrT exerts its effects through regulation of the glucose transporter, PtsG.
SgrS was originally discovered in E. coli but homologues have since been identified in other Gammaproteobacteria such as Salmonella enterica and members of the genus Citrobacter. A comparative genomics based target prediction approach that employs these homologs, has been developed and was used to predict the SgrS target, ptsI (b2416) |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Z102/R77 | In molecular biology, Small nucleolar RNA RZ102/R77 refers to a group of related non-coding RNA (ncRNA) molecules which function in the biogenesis of other small nuclear RNAs (snRNAs). These small nucleolar RNAs (snoRNAs) are modifying RNAs and usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis.
These two snoRNAs R77 and Z102 were identified in the plant Arabidopsis thaliana and rice Oryza sativa respectively. These related snoRNAs are predicted to belong to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Z102 and R77 and are members of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/SL1%20RNA | This family represents the SL1 RNA. The gene encoding SL1 RNA is commonly, but not always, located in the spacer region between 5S-rRNA genes. The SL1 RNA is involved in trans-splicing, which is a form of RNA processing. The acquisition of a spliced leader from an SL RNA is an inter-molecular reaction that precisely joins exons derived from separately transcribed RNAs. This mechanism of mRNA maturation has been shown to occur in a number of lower eukaryotes and is commonplace in nematodes.
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/SL2%20RNA | SL2 RNA is a non-coding RNA involved in trans splicing in lower eukaryotes. Trans-splicing is a form of RNA processing. The acquisition of a spliced leader from an SL RNA is an inter-molecular reaction which precisely joins exons derived from separately transcribed RNAs. Approximately 25% of C. elegans genes are organised into polycistronic transcription units and the presence of SL2 on an mRNA is an indication the gene is in an operon.
References
External links
Non-coding RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2011 | In molecular biology, Small Cajal body specific RNA 11 (also known as scaRNA11 or ACA57) is a small nucleolar RNA found in Cajal bodies.
scaRNAs are a specific class of small nuclear RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12. ACA57 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs and is found associated with GAR1. ACA57 is predicted to guide the pseudouridylation of the U5 spliceosomal RNA at position U43.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Z107/R87 | In molecular biology, Small nucleolar RNA RZ107/R87 refers to a group of related non-coding RNA (ncRNA) molecules which function in the biogenesis of other small nuclear RNAs (snRNAs). These small nucleolar RNAs (snoRNAs) are modifying RNAs and usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis.
These two snoRNAs R87 and Z107 were identified in the plant Arabidopsis thaliana and rice Oryza sativa respectively. These related snoRNAs are predicted to belong to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2013 | In molecular biology, Small Cajal body specific RNA 13 (also known as scaRNA13 or U93) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation of U2 and U5 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
U93 is composed of two tandemly arranged box H/ACA box sequence motifs and belongs to the H/ACA box class of guide RNAs. U93 is predicted to guide pseudouridylation of U2 spliceosomal snRNA residue U54 and residue U53 of snRNA U5.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2014 | In molecular biology, Small Cajal body specific RNA 14 (also known as scaRNA14 or U100) is a small nucleolar RNA found in Cajal bodies.
scaRNAs are a specific class of small nucleolar RNAs which localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
U100 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure and the conserved H/ACA-box motifs.
U100 is the human orthologue of mouse H/ACA snoRNA MBII-201 which is also included in this family.
U100 is predicted to guide the pseudouridylation of U2 snRNA at residue U7.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2015 | Small Cajal body specific RNA 15 (also known as SCARNA15 or ACA45) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U1 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
ACA45 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1. ACA45 is predicted to guide the pseudouridylation of residue U37 of the U2 spliceosomal snRNA.
It has been shown that human ACA45 can be processed into a 21 nucleotides long mature miRNA by the RNAse III family endoribonuclease dicer. This snoRNA product has previously been identified as mmu-miR-1839 and was shown to be processed independent of the other miRNA generating endoribonuclease drosha.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2016 | Small Cajal body specific RNA 16 (also known as SCARNA16 or ACA47) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U1 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
ACA47 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1. ACA47 is predicted to guide the pseudouridylation of residue U5 of the U1 spliceosomal snRNA.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2017 | Small Cajal body-specific RNA 17 (also known as U12-22 scaRNA) is a type of small nuclear RNA which localises to the cajal bodies and proposed to guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
The complete human U12-22/U4-8 scaRNA is composed of two tandem C/D box domains (termed U12-22 and U4-8). The 5' and 3' C/D domains are predicted to guide the 2'O-ribose methylation of residue U22 in U12 and residue C8 in U4 snRNAs respectively. This family includes only the 5' C/D box domain (U12-22) as the 3' C/D box is represented by Small Cajal body specific RNA 18. The 3' C/D domain (U4-8) was also cloned previously by Darzacq and called U91. Both the doublet (U12-22/U4-8) and singlet (U4-8) forms of this snRNA have been purified from HeLa cells. The doublet form U12-22/U4-8 has been shown to localise to the nucleoplasm and is proposed to reside in the Cajal bodies whereas the U4-8 single domain appears to accumulate in the nucleolus. In humans the genomic location of U12-88/U4-8 is intergenic and the purified transcript has been shown to possess a methylated guanosine cap suggesting it is independently transcribed by RNA polymerase II.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Z118/Z121/Z120 | In molecular biology, Small nucleolar RNA Z118/Z121/Z120 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Z118/Z121/Z120 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA Z118/Z121/Z120 was identified in a screen of Oryza sativa.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2018 | small Cajal body-specific RNA 18 (also known as U91 or U4-8) is a type of small nuclear RNA which localises to the cajal bodies and proposed to guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
This snoRNA U91 appears to be belong to the C/D box class of snoRNAs. It was identified by Darzacq and is predicted to guide the 2'O-ribose methylation of U4 snRNA C8. This C/D domain was later found associated in tandem with another C/D box domain U12-22. Both the doublet (U12-22/U4-8) and singlet (U4-8) forms of this snRNA have been purified from Hela cells. The doublet form U12-22/U4-8 has been shown to localise to the nucleoplasm and is proposed to reside in the Cajal bodies whereas the U4-8 single domain appears to accumulate in the nucleolus. In humans the genomic location of U12-88/U4-8 is intergenic and the purified transcript has been shown to possess a methylated guanosine cap suggesting it is independently transcribed by RNA pol II.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2023 | Small Cajal body specific RNA 23 (also known as SCARNA23 or ACA11) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U1 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
ACA11 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1. H/ACA snRNAs are predicted to guide the modification of uridines to pseudouridines in substrate RNAs however, no target RNA has been identified for scaRNA ACA11.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2024 | Small Cajal body specific RNA 24 (also known as scaRNA24 or ACA12) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U6 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
ACA12 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1 protein. ACA12 is predicted to guide the pseudouridylation of residue U40 of the spliceosomal U6 snRNA.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%2025 | Small Cajal body specific RNA 25 (otherwise known as scaRNA25, HBI-100, MBI-100, and MBI-114) is a scaRNA, which are a class of ncRNAs characterised as small nuclear RNAs localised to the Cajal bodies.
ScaRNA25 was originally identified in a large scale cloning project in mice.
Later sequence analysis predicted that this RNA guides the pseudouridylation of position U40 in the U6 snRNA.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%204 | In molecular biology, small Cajal body specific RNA 4 (also known as ACA26) is believed to be a guide RNA of the H/ACA box class, since it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs, and is found associated with GAR1. In particular, ACA26 is predicted to guide the pseudouridylation of residues U39 and U41 in U2 snRNA. Such scaRNAs are a specific class of small nuclear RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
References
Further reading
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%206 | Small Cajal body specific RNA 6 (also known as SCARNA6 or U88) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U5 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12
U88 is found associated with both fibrillarin and Gar1p and co-localises with coilin in Cajal bodies.
It is an unusual guide RNA in that it is composed of both H/ACA box and a C/D box conserved domains. It is predicted to guide 2'-O-methylation of residue U41 of the U5 snRNA.
U88 is also closely related to other human snoRNAs scaRNA U87 and a mouse homologue MBI-46.
In the human genome both U88 and U87 scaRNAs share the same host gene.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Z13/snr52 | In molecular biology, Small nucleolar RNA snR52 (homologous to Z13) is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Z13 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoRNA snR52 was initially discovered using a computational screen of the Saccharomyces cerevisiae genome; subsequent work identified Z13 in Schizosaccharomyces pombe. Further experiments have shown that snR52 is transcribed by RNA polymerase III.
References
External links
Link to snR52 at the FournierLab/snoRNAdb.
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20Cajal%20body%20specific%20RNA%208 | Small Cajal body specific RNA 8 (also known as SCARNA8 or U92) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U2 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.
U92 belong to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, conserved H/ACA-box motifs and is found associated with GAR1. It is predicted to guide the pseudouridylation of residues U44 in U2 snRNA. This snoRNA is related to the mouse H/ACA box snoRNA MBI-57.
References
External links
Small nuclear RNA
Spliceosome
RNA splicing |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20CD11 | In molecular biology, CD11 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20J26 | In molecular biology, the Small nucleolar RNA J26 is a non-coding RNA (ncRNA) molecule identified in rice (Oryza sativa) which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
J26 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20J33 | In molecular biology, the Small nucleolar RNA J33 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA J33 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA J33 was identified in a screen of Oryza sativa.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20MBI-1 | In molecular biology, the Small nucleolar RNA MBI-1 is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a "guide RNA".
snoRNA MBI-1 was originally cloned from mouse brain tissues
and belongs to the H/ACA box class of snoRNAs as it has the predicted hairpin-hinge-hairpin-tail structure and has the conserved H/ACA-box motifs.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20MBI-161 | In molecular biology, the Small nucleolar RNA MBI-161 is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a "guide RNA".
snoRNA MBI-161 was originally cloned from mouse brain tissues
and belongs to the H/ACA box class of snoRNAs as it has the predicted hairpin-hinge-hairpin-tail structure and has the conserved H/ACA-box motifs.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20MBI-28 | In molecular biology, Small nucleolar RNA MBI-28, also known as SNORA3 and ACA3, is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
snoRNA MBI-28 was originally cloned from mouse brain tissues
and belongs to the H/ACA box class of snoRNAs as it has the predicted hairpin-hinge-hairpin-tail structure and has the conserved H/ACA-box motifs.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20MBII-202 | In molecular biology, Small nucleolar RNA MBII-202 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA MBII-202 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoRNA MBII-202 was originally cloned from mouse brain tissues.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me18S-Gm1358 | In molecular biology, the Small nucleolar RNA Me18S-Gm1358 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me18S-Gm1358 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 18S G-1358.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me18S-Um1356 | In molecular biology, Small nucleolar RNA Me18S-Um1356 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me18S-Um1356 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 18S U-1356.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Am2589 | In molecular biology, Small nucleolar RNA Me28S-Am2589 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Am2589 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S A-2589.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Am2634 | In molecular biology, Small nucleolar RNA Me28S-Am2634 (also known as snoRNA Me28S-Am2634) is a non-coding RNA (ncRNA) molecule which functions in the biogenesis of other small nuclear RNAs (snRNAs). Small nucleolar RNAs (snoRNAs) are modifying RNAs and usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis.
snoRNA Me28S-Am2634 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted to guide the 2'-O-methylation of 28S ribosomal RNA (rRNA) residue A-2634.
This snoRNA has currently only been identified in the fly species Drosophila melanogaster.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Am982 | In molecular biology, Small nucleolar RNA Me28S-Am982 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Am982 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S A-982.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Cm2645 | In molecular biology, Small nucleolar RNA Me28S-Cm2645 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Cm2645 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S C-2645.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Cm3227 | In molecular biology, Small nucleolar RNA Me28S-Cm3227 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Cm3227 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S C-3227.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Cm788 | In molecular biology, Small nucleolar RNA Me28S-Cm788 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell, which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and is also often referred to as a guide RNA.
snoRNA Me28S-Cm788 belongs to the C/D box class of snoRNAs, which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
This family is predicted to direct the 2'-O-methylation of 28S C-788.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Gm1083 | In molecular biology, Small nucleolar RNA Me28S-Gm1083 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Gm1083 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S G-1083.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Gm3113 | In molecular biology, Small nucleolar RNA Me28S-Gm3113 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Gm3113 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S G-3113.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-Gm3255 | In molecular biology, Small nucleolar RNA Me28S-Gm3255 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Gm3255 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S G-3255.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20Me28S-U3344 | In molecular biology, Small nucleolar RNA Me28S-Um3344 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA Me28S-Um3344 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. It is predicted that this family directs 2'-O-methylation of 28S U-3344.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20psi18S-1377 | In molecular biology, Small nucleolar RNA psi18S-1377 (also known as snoRNA psi28S-1377) is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
This Drosophila-specific snoRNA is a member of the H/ACA box class of snoRNA and is predicted to be responsible for guiding the modification of uridines 1377 and 1279 to pseudouridine in Drosophila 18S rRNA.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20psi18S-1854 | In molecular biology, Small nucleolar RNA psi28S-3327 (also known as snoRNA psi28S-3327) is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
This Drosophila-specific snoRNA is a member of the H/ACA box class of snoRNA and is predicted to be responsible for guiding the modification of uridines 1854 and 1937 to pseudouridine in Drosophila 18S rRNA.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20psi28S-1192 | In molecular biology, Small nucleolar RNA psi28S-1192 (also known as snoRNA psi28S-1192) is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
This Drosophila-specific snoRNA is a member of the H/ACA box class of snoRNA and is predicted to be responsible for guiding the modification of uridine 1192 to pseudouridine in Drosophila 28S rRNA.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20psi28S-2876 | In molecular biology, Small nucleolar RNA psi28S-2876 (also known as snoRNA psi28S-2876) is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
This Drosophila-specific snoRNA is a member of the H/ACA box class of snoRNA and is predicted to be responsible for guiding the modification of uridines 2876 and 2956 to pseudouridine in Drosophila 28S rRNA.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20psi28S-3316 | In molecular biology, Small nucleolar RNA psi28S-3316 is a member of the H/ACA class of snoRNA. This family is responsible for guiding the modification of uridine 3316 in Drosophila 28S rRNA to pseudouridine
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20psi28S-3327 | In molecular biology, Small nucleolar RNA psi28S-3327 (also known as snoRNA psi28S-3327) is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
This Drosophila specific snoRNA is a member of the H/ACA box class of snoRNA and is predicted to be responsible for guiding the modification of uridine 3327 in Drosophila 28S and U1920 in Drosophila 18S rRNA to pseudouridine.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R12 | In molecular biology, Small nucleolar RNA R12 (also known as snoR12) is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoR12 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR12 was identified by computational screen of the rice Oryza sativa genome and is predicted to acts as a methylation guide for 25S ribosomal RNA in plants. snoR12 has been alternatively named snoZ44 in Arabidopsis thaliana and snoZ131 in rice.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R16 | In molecular biology, Small nucleolar RNA R16 is a non-coding RNA (ncRNA) molecule identified in plants which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R16 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR16 was identified in Arabidopsis thaliana. snoRNA R16 is related to another Arabidopsis snoRNA called R40.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R160 | In molecular biology, Small nucleolar RNA R160 (also known as snoR160) is a non-coding RNA (ncRNA) molecule identified in plants which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoR160 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR160 was identified by computational screening of the rice Oryza sativa and is predicted to acts as a methylation guide for 25S ribosomal RNA in plants. snoR160 has also been alternatively named snoZ270 in rice.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R20 | In molecular biology, Small nucleolar RNA R20 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R20 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA R20 was identified in a screen of Arabidopsis thaliana.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R21 | In molecular biology, Small nucleolar RNA R21 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R21 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA R21 was identified in a screen of Arabidopsis thaliana
.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R24 | In molecular biology, Small nucleolar RNA R24 (also known as snoRNA R24) is a non-coding RNA (ncRNA) molecule identified in plants which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
R24 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR24 was originally identified in Arabidopsis thaliana and is proposed to acts as a methylation guide for 18S ribosomal RNA (rRNA) in plants.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R38 | In molecular biology, Small nucleolar RNA R38 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R38 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoRNA R38 has been identified in human, yeast, Arabidopsis thaliana
and Oryza sativa
. snoRNA R38 guides the methylation of 2'-O-ribose sites in 28S rRNA.
References
External links
Yeast snoRNA page for Small nucleolar RNA R38
SGD page for Small nucleolar RNA R38
snoRNABase page for human snR38A
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R41 | In molecular biology, Small nucleolar RNA R41 (also known as snoR41) is a non-coding RNA (ncRNA) molecule identified in plants which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoR41 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR41 was identified by computational screening the rice Oryza sativa genome and is predicted to act as a methylation guide for 18S and 25S ribosomal RNA (rRNA). snoR41 has been alternatively named snoZ154 and snoZ231 in rice. The 18S methylation site is reported to be homologous to that targeted by U62 in humans but there appears to be little sequence similarity between the two snoRNAs.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R43 | In molecular biology, Small nucleolar RNA R43 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R43 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA R43 was identified in a screen of Arabidopsis thaliana.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R66 | In molecular biology, Small nucleolar RNA R66 (also known as snoR66) is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoR66 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR66 was identified by a computational screening of the rice Oryza sativa genome and is proposed to acts as a methylation guide for 18S ribosomal RNA in plants. Rice snoR66 has also been alternatively named snoZ269. Its should also not be confused with the snoRNA identified in yeast (Saccharomyces cerevisiae) and called snR66.
References
External links
plant snoRNA database
yeast snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R72 | In molecular biology, Small nucleolar RNA R72 (also known as snoR72) is a non-coding RNA (ncRNA) molecule identified in plants which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoR72 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
snoR72 was originally identified in Arabidopsis thaliana and is predicted to acts as a methylation guide for 25S ribosomal RNA rRNA.
References
External links
plant snoRNA database
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20R79 | In molecular biology, Small nucleolar RNA R79 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R79 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA R79 was identified in a screen of Arabidopsis thaliana.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snoM1 | In molecular biology, Small nucleolar RNA snoM1 is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a 'guide RNA'.
M1 is a predicted to belong to the H/ACA box class of snoRNAs which are thought to guide the sites of modification of uridines to pseudouridines. snoM1 seems to be found exclusively in Drosophila species.
References
Further reading
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snoMBI-87 | In molecular biology, Small nucleolar RNA MBI-87 is a non-coding RNA (ncRNA) molecule which functions in the biogenesis (modification) of other small nuclear RNAs (snRNAs). This type of modifying RNA is located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a "guide RNA".
snoRNA MBI-87 was originally cloned from mouse brain tissues
and belongs to the H/ACA box class of snoRNAs as it has the predicted hairpin-hinge-hairpin-tail structure and has the conserved H/ACA-box motifs.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snoR1 | In molecular biology, the Small nucleolar RNA snoR1 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA snoR1 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA snoR1 was identified in a screen of Arabidopsis thaliana.
References
External links
Small nuclear RNA |
https://en.wikipedia.org/wiki/Small%20nucleolar%20RNA%20snoR28 | In molecular biology, Small nucleolar RNA R28 is a non-coding RNA (ncRNA) molecule which functions in the modification of other small nuclear RNAs (snRNAs). This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. It is known as a small nucleolar RNA (snoRNA) and also often referred to as a guide RNA.
snoRNA R28 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs.
Plant snoRNA R28 was identified in a screen of Arabidopsis thaliana.
References
External links
Small nuclear RNA |
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