Abstract：
:From the general views of the eukaryotic transcription systems, L1 (or L1-like) retrotransposons that encode some proteins are unusual. L1, unlike other protein-coding elements, is transcribed through an internal promoter. And the L1 internal promoter, unlike other internal promoters, is thought to be RNA polymerase II (pol II) dependent, because the L1 transcript has a large size (approximately 6 kb), protein coding capacity and a 3' terminal polyadenylation signal followed by a poly(A) tail, and also because transcription from the promoter of Drosophila L1-like element jockey was highly sensitive to alpha-amanitin. However, our in vitro transcription study reveals that transcription from the human L1 promoter is highly sensitive to tagetitoxin, a selective inhibitor of RNA polymerase III (pol III), but insensitive to 1 micrograms/ml of alpha-amanitin, indicating that the human L1 promoter is pol III-dependent. The pol III dependence is further supported by our observation that L1 and pol III-dependent tRNA gene promoters share a common nuclear factor YY1. There is evidence that YY1 is also a pol II transcription factor. We thus propose that YY1 is a possible member of the pol III transcription system.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Kurose K,Hata K,Hattori M,Sakaki Ydoi
10.1093/nar/23.18.3704subject
Has Abstractpub_date
1995-09-25 00:00:00pages
3704-9issue
18eissn
0305-1048issn
1362-4962pii
5b0136journal_volume
23pub_type
杂志文章abstract：:Systematic structure probing experiments (e.g. SHAPE) of RNA mutants such as the mutate-and-map (MaM) protocol give us a direct access into the genetic robustness of ncRNA structures. Comparative studies of homologous sequences provide a distinct, yet complementary, approach to analyze structural and functional proper...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw217
更新日期：2016-06-20 00:00:00
abstract：:We have used computer assisted dot matrix and oligonucleotide frequency analyses to identify highly recurring sequence elements of 7-11 base pairs in eukaryotic genes and viral DNAs. Such elements are found much more frequently than expected, often with an average spacing of a few hundred base pairs. Furthermore, the ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.4.1835
更新日期：1987-02-25 00:00:00
abstract：:CeR-2 RNA is one of the newly identified Caenorhabditis elegans noncoding RNAs (ncRNAs). The characterization of CeR-2 by RNomic studies has failed to classify it into any known ncRNA family. In this study, we examined the spatiotemporal expression patterns of CeR-2 to gain insight into its function. CeR-2 is expresse...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq335
更新日期：2010-09-01 00:00:00
abstract：:Tomato golden mosaic geminivirus has a genome of two single-stranded (ss) DNA components, A and B. An almost identical 'common' region in DNA A and DNA B is thought to contain sequence elements controlling replication and transcription. Hence investigation of sequences important for DNA replication by in vitro mutagen...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.24.10213
更新日期：1989-12-25 00:00:00
abstract：:Live-cell measurement of protein binding to chromatin allows probing cellular biochemistry in physiological conditions, which are difficult to mimic in vitro. However, different studies have yielded widely discrepant predictions, and so it remains uncertain how to make the measurements accurately. To establish a bench...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks701
更新日期：2012-08-01 00:00:00
abstract：:Despite the increasing wealth of available data, the structure of cancer transcriptional space remains largely unknown. Analysis of this space would provide novel insights into the complexity of cancer, assess relative implications in complex biological processes and responses, evaluate the effectiveness of cancer mod...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkr533
更新日期：2011-10-01 00:00:00
abstract：:The intragenic control regions of a eukaryotic tRNA gene have been examined by transcribing mutant forms of a Drosophila tRNAArg gene either by injection into the nucleus of Xenopus oocytes or in extracts prepared from isolated oocyte nuclei. These experiments demonstrate that the selection of the transcription initia...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/11.24.8677
更新日期：1983-12-20 00:00:00
abstract：:With the increasing number of protein structures available, there is a need for tools capable of automating the comparison of ensembles of structures, a common requirement in structural biology and bioinformatics. PSSweb is a web server for protein structural statistics. It takes as input an ensemble of PDB files of p...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw332
更新日期：2016-07-08 00:00:00
abstract：:The wobble uridine of certain bacterial and mitochondrial tRNAs is modified, at position 5, through an unknown reaction pathway that utilizes the evolutionarily conserved MnmE and GidA proteins. The resulting modification (a methyluridine derivative) plays a critical role in decoding NNG/A codons and reading frame mai...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp762
更新日期：2009-11-01 00:00:00
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journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.2.223
更新日期：1993-01-25 00:00:00
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journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/20.21.5797
更新日期：1992-11-11 00:00:00
abstract：:A new thermodynamic database for normal and modified nucleic acids has been developed. This Thermodynamic Database for Nucleic Acids (NTDB) includes sequence, structure and thermodynamic information as well as experimental methods and conditions. In this release, there are 1851 sequences containing both normal and mod...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.1.230
更新日期：2001-01-01 00:00:00
abstract：:Well defined biomacromolecular patterns such as binding sites, catalytic sites, specific protein or nucleic acid sequences, etc. precisely modulate many important biological phenomena. We introduce PatternQuery, a web-based application designed for detection and fast extraction of such patterns. The application uses a...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv561
更新日期：2015-07-01 00:00:00
abstract：:Tight cell-cycle regulation of the histone H4-K20 methyltransferase PR-Set7 is essential for the maintenance of genome integrity. In mammals, this mainly involves the interaction of PR-Set7 with the replication factor PCNA, which triggers the degradation of the enzyme by the CRL4CDT2 E3 ubiquitin ligase. PR-Set7 is al...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky034
更新日期：2018-04-06 00:00:00
abstract：:DNA supercoiling is an important regulator of gene activity. The transmission of transcription-generated supercoiling wave along a DNA helix provides a way for a gene being transcribed to communicate with and regulate its neighboring genes. Currently, the dynamic behavior of supercoiling transmission remains unclear o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky534
更新日期：2018-08-21 00:00:00
abstract：:Nam8, a component of yeast U1 snRNP, is optional for mitotic growth but required during meiosis, because Nam8 collaborates with Mer1 to promote splicing of essential meiotic mRNAs AMA1, MER2 and MER3. Here, we identify SPO22 and PCH2 as novel targets of Nam8-dependent meiotic splicing. Whereas SPO22 splicing is co-dep...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq1328
更新日期：2011-04-01 00:00:00
abstract：:Extensive research has characterized distinct exogenous RNAi pathways interfering in gene expression during vegetative growth of the unicellular model ciliate Paramecium. However, role of RNAi in endogenous transcriptome regulation, and environmental adaptation is unknown. Here, we describe the first genome-wide profi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz553
更新日期：2019-09-05 00:00:00
abstract：:We report the complete DNA sequence of the short repeat region in the genome of herpes simplex virus type 1, as 6633 base pairs of composition 79.5% G+C. This contains immediate early gene 3, encoding the IE175 protein, an important transcriptional activator of later virus genes. The IE175 coding region was identified...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.4.1727
更新日期：1986-02-25 00:00:00
abstract：:The binding of transposase (Tnp) to the specific Tn5 end sequences is the first dedicated reaction during transposition. In this study, comparative DNA-binding analyses were performed using purified full-length Tnp and a C-terminal deletion variant (delta369) that lacks the putative dimerization domain. The shape of t...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.19.3790
更新日期：1996-10-01 00:00:00
abstract：:The repeating nucleotide sequence of 68 base pairs in the mtDNA from an ethidium-induced cytoplasmic petite mutant of yeast has been determined. For sequence analysis specifically primed and terminated RNA copies, obtained by in vitro transcription of the separated strands, were use. The sequence consists of 66 consec...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/4.7.2369
更新日期：1977-07-01 00:00:00
abstract：:Muscle creatine kinase (MCK) is a major enzyme of cellular energy metabolism that is expressed upon differentiation of myoblasts into myotubes. Previously we cloned and sequenced the entire rabbit enzyme cDNA which was used as a probe in these studies to obtain a genomic clone from a rabbit library. The transcription ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/19.11.3027
更新日期：1991-06-11 00:00:00
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journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl1037
更新日期：2007-01-01 00:00:00
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journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.7.e23
更新日期：2000-04-01 00:00:00
abstract：:Recruitment of RAD18 to stalled replication forks facilitates monoubiquitination of PCNA during S-phase, promoting translesion synthesis at sites of UV irradiation-induced DNA damage. In this study, we show that RAD18 is also recruited to ionizing radiation (IR)-induced sites of DNA double-strand breaks (DSBs) forming...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp082
更新日期：2009-04-01 00:00:00
abstract：:RNA structural complexity and flexibility present a challenge for computational modeling efforts. Experimental information and bioinformatics data can be used as restraints to improve the accuracy of RNA tertiary structure prediction. Regarding utilization of restraints, the fundamental questions are: (i) What is the ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz427
更新日期：2019-06-20 00:00:00
abstract：:Chloroplast DNA, isolated from a synchronized culture of Chlamydomonas reinhardii, was digested with restriction endonucleases and examined in the electron microscope. Restriction fragments containing displacement loops (D-loop) were photographed and measured to determine the position of replicated sequences in relati...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.9.3843
更新日期：1984-05-11 00:00:00
abstract：:The University of Minnesota Biocatalysis/Biodegradation Database (http://www.labmed.umn.edu/umbbd/ ) begins its fifth year having met its initial goals. It contains approximately 100 pathways for microbial catabolic metabolism of primarily xenobiotic organic compounds, including information on approximately 650 reacti...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.1.377
更新日期：2000-01-01 00:00:00
abstract：:Pancreatic DNase requires both Ca2+ and Mg2+ for its activity as measured by formation of an activated DNA template for in vitro DNA polymerase alpha assay and by the hyperchromic shift. Mn2+ can partially satisfy the Mg2+ requirement of the DNase for activation of DNA but the resulting template is only 50% as active ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/4.8.2641
更新日期：1977-08-01 00:00:00
abstract：:We have isolated and characterized DNA probes that detect homologies between the X and Y chromosomes. Clone St25 is derived from the q13-q22 region of the X chromosome and recognizes a 98% homologous sequence on the Y chromosome. Y specific fragments were present in DNAs from 5 Yq-individuals and from 4 out of 7 XX ma...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/13.15.5485
更新日期：1985-08-12 00:00:00
abstract：:In order to construct fish specific expression vectors for studies on gene regulation in vitro and in vivo a variety of heterologous enhancers and promoters from mammals and from viruses of higher vertebrate cells were tested for expression of the bacterial chloramphenicol acetyl transferase reporter gene in three tel...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/18.11.3299
更新日期：1990-06-11 00:00:00
