Cited by 4Genomics and Phylogenetic StudiesRNA Research and SplicingRNA and protein synthesis mechanisms

Difficulty in obtaining the complete mRNA coding sequence at 5′ region (5′ end mRNA artifact): Causes, consequences in biology and medicine and possible solutions for obtaining the actual amino acid sequence of proteins (Review)

Open access
Vitale, Lorenza, Caracausi, Maria, Casadei, Raffaella, Pelleri, Maria Chiara, Piovesan, Allison·2017·International Journal of Molecular Medicine

Abstract

The known difficulty in obtaining the actual full length, complete sequence of a messenger RNA (mRNA) may lead to the erroneous determination of its coding sequence at the 5' region (5' end mRNA artifact), and consequently to the wrong assignment of the translation start codon, leading to the inaccurate prediction of the encoded polypeptide at its amino terminus. Among the known human genes whose study was affected by this artifact, we can include disco interacting protein 2 homolog A (DIP2A; KIAA0184), Down syndrome critical region 1 (DSCR1), SON DNA binding protein (SON), trefoil factor 3 (TFF3) and URB1 ribosome biogenesis 1 homolog (URB1; KIAA0539) on chromosome 21, as well as receptor for activated C kinase 1 (RACK1, also known as GNB2L1), glutaminyl‑tRNA synthetase (QARS) and tyrosyl-DNA phosphodiesterase 2 (TDP2) along with another 474 loci, including interleukin 16 (IL16). In this review, we discuss the causes of this issue, its quantitative incidence in biomedical research, the consequences in biology and medicine, and the possible solutions for obtaining the actual amino acid sequence of proteins in the post-genomics era.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.3892/ijmm.2017.2942

Cites

82 of 82 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

3 of the 85 references couldn’t be matched to a known paper.

Research works printed but not linked: 3

  1. Sambrook J and Russel DW (eds): Molecular Cloning: A Laboratory Manual. Vol 2. 3rd edition. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, 2001.
  2. Sambrook J and Russel DW (eds): Rapid amplification of 5' cDNA ends. In: Molecular Cloning: A Laboratory Manual. Vol 3. 3rd edition. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp8.54-8.60, 2001.
  3. Piovesan A, Caracausi M, Antonaros F, Pelleri MC and Vitale L: GeneBase 1.1: A tool to summarise data from NCBI gene datasets and its application to an update of human gene statistics. Database (Oxford) 2016: pii: baw153, 2016.

Cited by

Sorted by citations

Authors
Vitale, L., Caracausi, M., Casadei, R., Pelleri, M. C., & Piovesan, A.
Affiliations
University of Bologna (IT)
Venue
International Journal of Molecular Medicine
Published
2017-04-06
Volume
39
Issue
5
Pages
1063-1071
ISSN
  • 1107-3756 (ISSN-L)
  • 1791-244X
OpenAlex
W2604121640
Cited by
4
References
85
Citations by year
2023: 1 · 2022: 1 · 2019: 1 · 2018: 1
FWCI
0.05
Type
journal article
Language
en
Open access
Locations
  • International Journal of Molecular Medicine (publishedVersion)
  • PubMed (publishedVersion)
  • Archivio istituzionale della ricerca (Alma Mater Studiorum Università di Bologna) (submittedVersion)
Funders
  • Fondazione del Monte di Bologna e Ravenna
  • Università di Bologna
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
Keywords
translation start codon, amino acid sequence prediction, DSCR1, sons, TFF3, RACK1, TDP2, interleukin-16, chromosome 21, ribosome biogenesis, post-genomic era
MeSH terms
Amino Acid Sequence, Animals, Base Sequence, Humans, RNA, Messenger, Open Reading Frames, Artifacts, Sequence Analysis, DNA, DNA, Complementary, Reverse Transcription

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review