Presence of ATG triplets in 5′ untranslated regions of eukaryotic cDNAs correlates with a 'weak' context of the start codon

Bioinformatics

Volumn 17, Issue 10, 2001, Pages 890-900

  Rogozin, Igor B ^a,b,d   Kochetov, Alexey V ^b   Kondrashov, Fyodor A ^a   Koonin, Eugene V ^a   Milanesi, Luciano ^c  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b INSTITUTE OF CYTOLOGY AND GENETICS   (Russian Federation)

^c CNR   (Italy)

^d NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; COMPLEMENTARY DNA; GUANINE; MESSENGER RNA; THYMINE; TRINUCLEOTIDE; URACIL;

5' UNTRANSLATED REGION; ACCURACY; ALTERNATIVE RNA SPLICING; ARTICLE; CONTROLLED STUDY; CORRELATION FUNCTION; EUKARYOTE; HUMAN; NONHUMAN; PREDICTION; PRIORITY JOURNAL; REGULATORY MECHANISM; START CODON; SYSTEM ANALYSIS; TRANSLATION REGULATION; TRINUCLEOTIDE REPEAT;

EUKARYOTA;

EID: 0034781576     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/17.10.890     Document Type: Article

References (51)

1. The ribosome scanning model for translation initiation: Implications for gene prediction and full-length cDNA detection
2. The isochore organization of the human genome
3. Go hunting in sequence databases but watch out for the traps
4. Eukaryotic start and stop translation sites
5. Translation start sites and mRNA leaders
6. Mutational analysis of the HIS4 translational initiator region in Saccharomyces cerevisiae
7. CART classification of human 5′ UTR sequences
8. LUCA-1, a candidate tumor suppressor gene on chromosome 3p21.3, is inactivated in head and neck squamous cell carcinomas by aberrant splicing of pre-mRNA
9. Translation in plants-rules and exceptions
10. Prediction of function in DNA sequence analysis
11. Initiation codons within 5′-leaders of mRNAs as regulators of translation
12. Compilation and comparison of the sequence context around the AUG start codons in Saccharomyces cerevisiae mRNAs
13. Interspecific comparisons of the unusually long 5′ leader of the Drosophila ecdysone-inducible gene E74A
14. An inspection of the domain between putative TATA box and translation start site in 79 plant genes
15. Context sequence of translation initiation codon in plants
16. Eukaryotic mRNAs encoding abundant and scarce proteins are statistically dissimilar in many structural features
17. Prediction of eukaryotic mRNA translational properties
18. An analysis of 5′-noncoding sequences from 699 vertebrate messenger RNAs
19. The scanning model for translation: An update
20. A short leader sequence impairs the fidelity of initiation by eukaryotic ribosomes
21. Determinants of translation fidelity and efficiency in vertebrate mRNAs
22. Interpreting cDNA sequences: Some insights from studies on translation. Mamm
23. Recognition of AUG and alternative initiation codons is augmented by G in position +4 but is not generally affected by the nucleotide in positions +5 and +6
24. Do the 5′ untranslated domains of human cDNAs challenge the rules for initiation of translation (or is it vice versa)?
25. New ways of initiating translation in eukaryotes?
26. A common RNA structural motif involved in the internal initiation of translation of cellular mRNAs
27. Posttranscriptional control of gene expression in yeast
28. Internal initiation of translation mediated by the 5′ leader of a cellular mRNA
29. Translational activation of the lck proto-oncogene
30. The isochore organization and the compositional distribution of homologous coding sequences in the nuclear genome of plants
31. Prediction of human gene structure
32. Frequent alternative splicing of human genes
33. Calculation of contributions of individual monomeric units to biopolymer function
34. Initiation of protein synthesis in eukaryotic cells
35. Sequence analysis and compositional properties of untranslated regions of human mRNAs
36. Databases of mRNA untranslated regions for Metazoa
37. Structural and compositional features of untranslated regions of eukaryotic mRNAs
38. Isochore specificity of AUG initiator context of human genes
39. Analysis of oligonucleotide AUG start codon context in eukaryotic mRNAs
40. Protein-coding regions prediction combining similarity searches and conservative evolutionary properties of protein-coding sequences
41. Prediction and phylogenetic analysis of mammalian Short Interspersed Elements (SINEs)
42. Cell cycle-dependent translation initiation: IRES elements prevail
43. Information content of binding sites on nucleotide sequences
44. Computer methods to locate signals in nucleic acid sequences
45. Searching for patterns in protein and nucleic acid sequences
46. Computer methods for analyzing sequence recognition of nucleic acids
47. Statistical analysis of the 5′ untranslated region of human mRNA using 'Oligo-Capped' cDNA libraries
48. Ultrabithorax and Antennapedia 5′ untranslated regions promote developmentally regulated internal translation initiation
49. mRNA sequences influencing translation and the selection of AUG initiator codons in the yeast Saccharomyces cerevisiae
50. The role of the 5′ untranslated region of an mRNA in translation regulation during development
51. Translational control of growth factor and proto-oncogene expression