TY - CHAP

T1 - Evaluation of Eukaryotic mRNA Coding Potential

AU - Kochetov, Alex V.

N1 - Acknowledgments This work was supported by the Institute of Cytology and Genetics budget project.

PY - 2025

Y1 - 2025

N2 - It is widely discussed that eukaryotic mRNAs can encode several functional polypeptides. Recent progress in NGS and proteomics techniques has resulted in a huge volume of information on potential alternative translation initiation sites and open reading frames (altORFs). However, these data are still incomprehensive, and the vast majority of eukaryotic mRNAs annotated in conventional databases (e.g., GenBank) contain a single ORF (CDS) encoding a protein larger than some arbitrary threshold (commonly 100 amino acid residues). Indeed, some gene functions may relate to the polypeptides encoded by unannotated altORFs, and insufficient information in nucleotide sequence databanks may limit the interpretation of genomics and transcriptomics data. However, despite the need for special experiments to predict altORFs accurately, there are some simple methods for their preliminary mapping.

AB - It is widely discussed that eukaryotic mRNAs can encode several functional polypeptides. Recent progress in NGS and proteomics techniques has resulted in a huge volume of information on potential alternative translation initiation sites and open reading frames (altORFs). However, these data are still incomprehensive, and the vast majority of eukaryotic mRNAs annotated in conventional databases (e.g., GenBank) contain a single ORF (CDS) encoding a protein larger than some arbitrary threshold (commonly 100 amino acid residues). Indeed, some gene functions may relate to the polypeptides encoded by unannotated altORFs, and insufficient information in nucleotide sequence databanks may limit the interpretation of genomics and transcriptomics data. However, despite the need for special experiments to predict altORFs accurately, there are some simple methods for their preliminary mapping.

KW - Gene engineering

KW - Translation

KW - mRNA features

KW -  ORF prediction

UR - https://www.mendeley.com/catalogue/3481c810-d65e-3d51-a591-c2d14c0b74ef/

UR - https://www.scopus.com/record/display.uri?eid=2-s2.0-85206960409&origin=inward&txGid=cccd41cc7e1432886fe4cb7e186b4bf3

UR - https://pubmed.ncbi.nlm.nih.gov/39436610/

U2 - 10.1007/978-1-0716-4152-1_18

DO - 10.1007/978-1-0716-4152-1_18

M3 - Article in an anthology

C2 - 39436610

VL - 2859

T3 - Methods in molecular biology (Clifton, N.J.)

SP - 319

EP - 331

BT - Methods in Molecular Biology

ER -