ArticleNucleic acids research2003
Identification, characterization and molecular phylogeny of U12-dependent introns in the Arabidopsis thaliana genome.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
33 citing papers in PubMed.
- An updated database of virus circular RNAs provides new insights into the biogenesis mechanism of the molecule.Emerging microbes & infections · 2023Article
- Consideration of non-canonical splice sites improves gene prediction on the Arabidopsis thaliana Niederzenz-1 genome sequence.BMC research notes · 2017Article
- Full-length sequence assembly reveals circular RNAs with diverse non-GT/AG splicing signals in rice.RNA biology · 2017Article
- quatre-quart1 is an indispensable U12 intron-containing gene that plays a crucial role in Arabidopsis development.Journal of experimental botany · 2017Article
- Structural features important for the U12 snRNA binding and minor spliceosome assembly of Arabidopsis U11/U12-small nuclear ribonucleoproteins.RNA biology · 2016Article
- The Arabidopsis homolog of human minor spliceosomal protein U11-48K plays a crucial role in U12 intron splicing and plant development.Journal of experimental botany · 2016Article
- Identification of a human ABCC10 orthologue in Catharanthus roseus reveals a U12-type intron determinant for the N-terminal domain feature.Journal of genetics · 2014Article
- Article
- Complexity of the alternative splicing landscape in plants.The Plant cell · 2013Review
- Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis.Genome research · 2012Article
- Article
- Comparative analysis of information contents relevant to recognition of introns in many species.BMC genomics · 2011Article
- The Arabidopsis U12-type spliceosomal protein U11/U12-31K is involved in U12 intron splicing via RNA chaperone activity and affects plant development.The Plant cell · 2010Article
- Organ-specific alternatively spliced transcript isoforms of the sunflower SF21C gene.Plant cell reports · 2010Article
- Evolutionary dynamics of U12-type spliceosomal introns.BMC evolutionary biology · 2010Article
- U12 type introns were lost at multiple occasions during evolution.BMC genomics · 2010Article
- Using profiles based on nucleotide hydrophobicity to define essential regions for splicing.International journal of biological sciences · 2009Article
- U12 intron positions are more strongly conserved between animals and plants than U2 intron positions.Biology direct · 2008Article
- U12DB: a database of orthologous U12-type spliceosomal introns.Nucleic acids research · 2007Article
- Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis.BMC genomics · 2006Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
U12-dependent introns are spliced by the minor U12-type spliceosome and occur in a variety of eukaryotic organisms, including Arabidopsis. In this study, a set of putative U12-dependent introns was compiled from a large collection of cDNA/EST- confirmed introns in the Arabidopsis thaliana genome by means of high-throughput bioinformatic analysis combined with manual scrutiny. A total of 165 U12-type introns were identified based upon stringent criteria. This number of sequences well exceeds the total number of U12-type introns previously reported for plants and allows a more thorough statistical analysis of U12-type signals. Of particular note is the discovery that the distance between the branch site adenosine and the acceptor site ranges from 10 to 39 nt, significantly longer than the previously postulated limit of 21 bp. Further analysis indicates that, in addition to the spacing constraint, the sequence context of the potential acceptor site may have an important role in 3' splice site selection. Several alternative splicing events involving U12-type introns were also captured in this study, providing evidence that U12-dependent acceptor sites can also be recognized by the U2-type spliceosome. Furthermore, phylogenetic analysis suggests that both U12-type AT-AC and U12-type GT-AG introns occurred in Na+/H+ antiporters in a progenitor of animals and plants.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.