Evidence map›Paper›PMID 20336453›Full record

ArticleJournal of molecular evolution2010

Does drive toward canonic exonic splicing sites exist in mammals?

Vladimir Babenko, William Ward, Anatoly Ruvinsky

Abstract read
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In one paragraph

Article in Journal of molecular evolution, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors.

Vladimir BabenkoThe Institute of Cytology and Genetics, Russian Academy of Sciences, Novosibirsk-90, Russia.
William Ward
Anatoly Ruvinsky

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

About 2/3 of introns are inserted between G and G/A, which has previously been explained by codon usage frequencies existing during the period of intron insertions. However, less is known about the evolution of exonic splicing sites. Exonic nucleotides that frame introns are involved in both protein coding and splicing. While a compromise between protein coding and splicing constraints is achieved differently in each intron phase, AG|G is the most common site in all phases comprising about one quarter of all such sites. There is also a great variety of other splicing sites. Here we examine evolutionary changes in exonic nucleotides located at positions -2 -1|+1 which occurred after the beginning of eutherian radiation using comparisons of orthologous splicing sites from five mammalian species. AG|G accumulated fewer substitutions and was more conservative than less frequent exonic splicing sites. Such trend could potentially increase frequencies of AG|G during mammalian evolution and cause a decline of less common sites which had higher substitution rates. However, there is a limit to this process determined by the dynamic equilibrium of substitution rates and the frequencies of different splicing sites. It seems that this equilibrium was already achieved at the time of eutherian radiation and a moderate increase in AG|G frequency was observed only in the human genome.

Indexed as

Evolution, MolecularExonsRNA Splice SitesAnimalsBase CompositionCattleDatabases, GeneticDogsHorsesHumansLinear ModelsMammalsMiceMutationSequence AlignmentSpecies SpecificityRNA Splice Sites

Identifiers

What OpenQuestion holds

Textmetadata
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Registered trials

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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.