ArticleBMC genomics2008
Bioinformatics prediction of overlapping frameshifted translation products in mammalian transcripts.
Article in BMC genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.
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Who cites it
22 citing papers in PubMed, 1 synthesis or guideline pooled it, 36 citations in OpenAlex.
- Pooled it
- Alternatively Spliced Dual-Coding Regions Contribute to the Human Gene Regulatory Program.bioRxiv : the preprint server for biology · 2026Article
- Systematic Detection of Alternative Open Reading Frames (altORFs) in Cancer Driver Genes.Journal of molecular evolution · 2026Article
- HexSE: Simulating evolution in overlapping reading frames.Virus evolution · 2023Article
- Understanding small ORF diversity through a comprehensive transcription feature classification.DNA research : an international journal for rapid publication of reports on genes and genomes · 2021Review
- The HIV-1 Antisense Gene ASP: The New Kid on the Block.Vaccines · 2021Review
- A conserved Neurite Outgrowth and Guidance motif with biomimetic potential in neuronal Cell Adhesion Molecules.Computational and structural biotechnology journal · 2021Article
- New insights into the evolutionary features of viral overlapping genes by discriminant analysis.Virology · 2020Article
- Article
- Overlapping genes and the proteins they encode differ significantly in their sequence composition from non-overlapping genes.PloS one · 2018Article
- Mitochondrial dual-coding genes in Trypanosoma brucei.PLoS neglected tropical diseases · 2017Article
- An Alternative Nested Reading Frame May Participate in the Stress-Dependent Expression of a Plant Gene.Frontiers in plant science · 2017Article
- Death of a dogma: eukaryotic mRNAs can code for more than one protein.Nucleic acids research · 2016Review
- Emerging evidence for functional peptides encoded by short open reading frames.Nature reviews. Genetics · 2014Review
- The A2A adenosine receptor is a dual coding gene: a novel mechanism of gene usage and signal transduction.The Journal of biological chemistry · 2014Article
- Observation of dually decoded regions of the human genome using ribosome profiling data.Genome research · 2012Article
- HAltORF: a database of predicted out-of-frame alternative open reading frames in human.Database : the journal of biological databases and curation · 2012Article
- Is there a twelfth protein-coding gene in the genome of influenza A? A selection-based approach to the detection of overlapping genes in closely related sequences.Journal of molecular evolution · 2011Article
- Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes.Genome research · 2011Article
- Detection of functional overlapping genes: simulation and case studies.Journal of molecular evolution · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundExceptionally, a single nucleotide sequence can be translated in vivo in two different frames to yield distinct proteins. In the case of the G-protein alpha subunit XL-alpha-s transcript, a frameshifted open reading frame (ORF) in exon 1 is translated to yield a structurally distinct protein called Alex, which plays a role in platelet aggregation and neurological processes. We carried out a novel bioinformatics screen for other possible dual-frame translated sequences, based on comparative genomics.
resultsOur method searched human, mouse and rat transcripts in frames +1 and -1 for ORFs which are unusually well conserved at the amino acid level. We name these conserved frameshifted overlapping ORFs 'matreshkas' to reflect their nested character. Select findings of our analysis revealed that the G-protein coupled receptor GPR27 is entirely contained within a frame -1 matreshka, thrombopoietin contains a matreshka which spans ~70% of its length, platelet glycoprotein IIIa (ITGB3) contains a matreshka with the predicted characteristics of a secreted peptide hormone, while the potassium channel KCNK12 contains a matreshka spanning >400 amino acids.
conclusionAlthough the in vivo existence of translated matreshkas has not been experimentally verified, this genome-wide analysis provides strong evidence that substantial overlapping coding sequences exist in a number of human and rodent transcripts.
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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.