scholarly journals Intracellular site of U1 small nuclear RNA processing and ribonucleoprotein assembly.

1984 ◽  
Vol 98 (1) ◽  
pp. 188-192 ◽  
Author(s):  
S J Madore ◽  
E D Wieben ◽  
T Pederson
Keyword(s):  
Rna Processing ◽  
Blot Hybridization ◽  
Small Nuclear Rna ◽  
Cell Compartment ◽  
Rna Sequences ◽  
Nuclear Rna ◽  
A Site ◽  
Cytoplasmic Assembly ◽  
Nuclear Rna Processing ◽  
Mature Size

We have investigated the intracellular site and posttranscriptional immediacy of U1 small nuclear RNA processing and ribonucleoprotein (RNP) assembly in HeLa cells. After 30 or 45 min of labeling with [3H]uridine, a large amount of U1-related RNA radioactivity in the cytoplasm was found by using either hypotonic or isotonic homogenization buffers. The pulse-labeled cytoplasmic U1 RNA was resolved as a ladder of closely spaced bands running just behind mature-size U1 (165 nucleotides) on RNA sequencing gels, corresponding to a series of molecules between one and at least eight nucleotides longer than mature U1. They were further identified as U1 RNA sequences by gel blot hybridization with cloned U1 DNA. The ladder of cytoplasmic U1 RNA bands reacted with both RNP and Sm autoimmune sera and with a monoclonal Sm antibody, indicating a cytoplasmic assembly of these U1 RNA-related molecules into complexes containing the same antigens as nuclear U1 RNP particles. The cytoplasmic molecules behave as precursors to mature nuclear U1 RNA in both pulse-chase and continuous labeling experiments. While not excluding earlier or subsequent nuclear stages, these results suggest that the cytoplasm is a site of significant U1 RNA processing and RNP assembly. This raises the possibility that nuclear-transcribed eucaryotic RNAs are always processed in the cell compartment other than that in which they ultimately function, which suggests a set of precise signals regulating RNA and ribonucleoprotein traffic between nucleus and cytoplasm.

scholarly journals Integrator, a Multiprotein Mediator of Small Nuclear RNA Processing, Associates with the C-Terminal Repeat of RNA Polymerase II

Cell ◽  
2005 ◽  
Vol 123 (2) ◽  
pp. 265-276 ◽  
Author(s):  
David Baillat ◽  
Mohamed-Ali Hakimi ◽  
Anders M. Näär ◽  
Ali Shilatifard ◽  
Neil Cooch ◽  
...  
Keyword(s):  
Rna Polymerase ◽  
Rna Polymerase Ii ◽  
Rna Processing ◽  
Terminal Repeat ◽  
Small Nuclear Rna ◽  
Nuclear Rna ◽  
Nuclear Rna Processing

scholarly journals U2 small nuclear RNA 3' end formation is directed by a critical internal structure distinct from the processing site.

1993 ◽  
Vol 13 (2) ◽  
pp. 1119-1129 ◽  
Author(s):  
M R Jacobson ◽  
M Rhoadhouse ◽  
T Pederson
Keyword(s):  
Rna Processing ◽  
Minor Effect ◽  
Small Nuclear Rna ◽  
Recognition Sequence ◽  
Stem Loop ◽  
Branch Site ◽  
Nuclear Rna ◽  
A Minor ◽  
Site Recognition

Mature U2 small nuclear RNA is generated by the removal of 11 to 12 nucleotides from the 3' end of the primary transcript. This pre-U2 RNA processing reaction takes place in the cytoplasm. In this study, the sequences and/or structures of pre-U2 RNA that are important for 3' processing have been examined in an in vitro system. The 7-methylguanosine cap, stem-loops I and II, the lariat branch site recognition sequence, the conserved Sm domain, and several other regions throughout the 5' end of U2 RNA have no apparent role in the 3' processing reaction. In fact, deletion of the entire first 104 nucleotides resulted in mini-pre-U2 RNAs which were efficiently processed. Similarly, deletion of the top two-thirds of stem-loop III or mutation of nucleotides in the loop of stem-loop IV had little effect on 3' processing. Most surprisingly, the precursor's 11- to 12-nucleotide 3' extension itself was of relatively little importance, since this sequence could be replaced with completely different sequences with only a minor effect on the 3' processing reaction. In contrast, we have defined a critical structure consisting of the bottom of stem III and the stem of stem-loop IV that is essential for 3' processing of pre-U2 RNA. Compensatory mutations which restore base pairing in this region resulted in normal 3' processing. Thus, although the U2 RNA processing activity recognizes the bottom of stem III and stem IV, the sequence of this critical region is much less important than its structure. These results, together with the surprising observation that the reaction is relatively indifferent to the sequence of the 11- to 12-nucleotide 3' extension itself, point to a 3' processing reaction of pre-U2 RNA that has sequence and structure requirements significantly different from those previously identified for pre-mRNA 3' processing.

U2 small nuclear RNA 3' end formation is directed by a critical internal structure distinct from the processing site

1993 ◽  
Vol 13 (2) ◽  
pp. 1119-1129
Author(s):  
M R Jacobson ◽  
M Rhoadhouse ◽  
T Pederson
Keyword(s):  
Rna Processing ◽  
Minor Effect ◽  
Small Nuclear Rna ◽  
Recognition Sequence ◽  
Stem Loop ◽  
Branch Site ◽  
Nuclear Rna ◽  
A Minor ◽  
Site Recognition

Mature U2 small nuclear RNA is generated by the removal of 11 to 12 nucleotides from the 3' end of the primary transcript. This pre-U2 RNA processing reaction takes place in the cytoplasm. In this study, the sequences and/or structures of pre-U2 RNA that are important for 3' processing have been examined in an in vitro system. The 7-methylguanosine cap, stem-loops I and II, the lariat branch site recognition sequence, the conserved Sm domain, and several other regions throughout the 5' end of U2 RNA have no apparent role in the 3' processing reaction. In fact, deletion of the entire first 104 nucleotides resulted in mini-pre-U2 RNAs which were efficiently processed. Similarly, deletion of the top two-thirds of stem-loop III or mutation of nucleotides in the loop of stem-loop IV had little effect on 3' processing. Most surprisingly, the precursor's 11- to 12-nucleotide 3' extension itself was of relatively little importance, since this sequence could be replaced with completely different sequences with only a minor effect on the 3' processing reaction. In contrast, we have defined a critical structure consisting of the bottom of stem III and the stem of stem-loop IV that is essential for 3' processing of pre-U2 RNA. Compensatory mutations which restore base pairing in this region resulted in normal 3' processing. Thus, although the U2 RNA processing activity recognizes the bottom of stem III and stem IV, the sequence of this critical region is much less important than its structure. These results, together with the surprising observation that the reaction is relatively indifferent to the sequence of the 11- to 12-nucleotide 3' extension itself, point to a 3' processing reaction of pre-U2 RNA that has sequence and structure requirements significantly different from those previously identified for pre-mRNA 3' processing.

Coupling genetics and post-genomic approaches to decipher the cellular splicing code at a systems-wide level

2010 ◽  
Vol 38 (1) ◽  
pp. 237-241 ◽  
Author(s):  
Yilei Liu ◽  
David J. Elliott
Keyword(s):  
Rna Processing ◽  
Binding Proteins ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Eukaryotic Gene Expression ◽  
Nuclear Rna ◽  
Processing Pathways ◽  
Eukaryotic Gene ◽  
Alternatively Spliced ◽  
Nuclear Rna Processing

Nuclear RNA processing is a critical stage in eukaryotic gene expression, and is controlled in part by the expression and concentration of nuclear RNA-binding proteins. Different nuclear RNA-binding proteins are differentially expressed in different cells, helping the spliceosome to decode pre-mRNAs into alternatively spliced mRNAs. Recent post-genomic technology has exposed the complexity of nuclear RNA processing, and is starting to reveal the mechanisms and rules through which networks of RNA-binding proteins can regulate multiple parallel pathways. Identification of multiple parallel processing pathways regulated by nuclear RNA-binding proteins is leading to a systems-wide understanding of the rules and consequences of alternative nuclear RNA processing.

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