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{{Infobox rfam {{Infobox rfam
| Name = Mu-gpT-DE | Name = Mu-gpT-DE
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| miRBase = | miRBase =
| miRBase_family = | miRBase_family =
| RNA_type = ]; ] | RNA_type = ]; ]
| Tax_domain = | Tax_domain =
| GO = | GO =
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The '''Mu-like gpT Downstream Element RNA motif''' ('''Mu-gpT-DE RNA motif''') is a conserved ] structure that was ].<ref name="Weinberg2017b">{{cite journal |vauthors=Weinberg Z, Lünse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR |title=Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions |journal=Nucleic Acids Res. |volume=45 |issue=18 |pages=10811–10823 |date=October 2017 |pmid=28977401 |pmc=5737381 |doi=10.1093/nar/gkx699 |url=}}</ref> The '''Mu-like gpT Downstream Element RNA motif''' ('''Mu-gpT-DE RNA motif''') is a conserved ] structure that was ].<ref name="Weinberg2017b">{{cite journal |vauthors=Weinberg Z, Lünse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR |title=Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions |journal=Nucleic Acids Res. |volume=45 |issue=18 |pages=10811–10823 |date=October 2017 |pmid=28977401 |pmc=5737381 |doi=10.1093/nar/gkx699 }}</ref>
The Mu-gpT-DE motif is only found in ] sequences arising from unknown organisms. The Mu-gpT-DE motif is only found in ] sequences arising from unknown organisms.


Mu-gpT-DE RNAs usually occur downstream of ]s whose ] products are similar to gpT. gpT is a protein subunit of the phage head of phages similar to ]. This and other observations suggest that Mu-gpT-DE RNAs are found in phages and prophages. Some Mu-gpT-DE RNAs contain a stem that overlaps the ] sequence of the downstream gene, which could suggest a ]. However, this phenomenon could also be a arise if Mu-gpT-DE RNAs are part of a tightly packed genome, as is common with phages. Thus, Mu-gpT-DE RNAs might function as ]s. Mu-gpT-DE RNAs usually occur downstream of ]s whose ] products are similar to gpT. gpT is a protein subunit of the phage head of phages similar to ]. This and other observations suggest that Mu-gpT-DE RNAs are found in phages and prophages. Some Mu-gpT-DE RNAs contain a stem that overlaps the ] sequence of the downstream gene, which could suggest a ]. However, this phenomenon could also arise if Mu-gpT-DE RNAs are part of a tightly packed genome, as is common with phages. Thus, Mu-gpT-DE RNAs might function as ]s.


==References== ==References==
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] ]

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Mu-gpT-DE
Consensus secondary structure and sequence conservation of Mu-gpT-DE RNA
Identifiers
SymbolMu-gpT-DE
RfamRF03012
Other data
RNA typeGene; sRNA
SOSO:0001263
PDB structuresPDBe

The Mu-like gpT Downstream Element RNA motif (Mu-gpT-DE RNA motif) is a conserved RNA structure that was discovered by bioinformatics. The Mu-gpT-DE motif is only found in metagenomic sequences arising from unknown organisms.

Mu-gpT-DE RNAs usually occur downstream of genes whose protein products are similar to gpT. gpT is a protein subunit of the phage head of phages similar to Bacteriophage Mu. This and other observations suggest that Mu-gpT-DE RNAs are found in phages and prophages. Some Mu-gpT-DE RNAs contain a stem that overlaps the Shine-Dalgarno sequence of the downstream gene, which could suggest a cis-regulatory function. However, this phenomenon could also arise if Mu-gpT-DE RNAs are part of a tightly packed genome, as is common with phages. Thus, Mu-gpT-DE RNAs might function as small RNAs.

References

  1. Weinberg Z, Lünse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR (October 2017). "Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions". Nucleic Acids Res. 45 (18): 10811–10823. doi:10.1093/nar/gkx699. PMC 5737381. PMID 28977401.
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