uAUG and uORFs in human and rodent 5′untranslated mRNAs

Gene

Volumn 349, Issue , 2005, Pages 97-105

  Iacono, Michele ^a   Mignone, Flavio ^a   Pesole, Graziano ^a,b  

^a UNIVERSITY OF MILAN   (Italy)

^b Sezione di Bioinformatica e Genomica   (Italy)

Author keywords

mRNA translation; Post transcriptional regulation; Ribosome shunting; Scanning model

Indexed keywords

MESSENGER RNA;

5' UNTRANSLATED REGION; ARTICLE; EUKARYOTE; GENE FREQUENCY; GENE REPRESSION; GENE SEQUENCE; GENOME ANALYSIS; HUMAN; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; RAT; RNA TRANSLATION; RODENT;

EID: 17044409660     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2004.11.041     Document Type: Article

References (40)

1. C.Y. Brown, G.J. Mize, M. Pineda, D.L. George, and D.R. Morris Role of two upstream open reading frames in the translational control of oncogene mdm2 Oncogene 18 1999 5631 5637
2. C.F. Calkhoven Translational control of SCL-isoform expression in hematopoietic lineage choice Genes Dev. 17 2003 959 964
3. R. Casadei mRNA 5′ region sequence incompleteness: a potential source of systematic errors in translation initiation codon assignment in human mRNAs Gene 321 2003 185 193
4. T. Castrignano, A. Canali, G. Grillo, S. Liuni, F. Mignone, and G. Pesole CSTminer: a web tool for the identification of coding and noncoding conserved sequence tags through cross-species genome comparison Nucleic Acids Res. 32 2004 W624 W627
5. S.J. Child, M.K. Miller, and A.P. Geballe Translational control by an upstream open reading frame in the HER-2/neu transcript J. Biol. Chem. 274 1999 24335 24341
6. R.V. Davuluri, Y. Suzuki, S. Sugano, and M.Q. Zhang CART classification of human 5′UTR sequences Genome Res. 10 2000 1807 1816
7. D. De Pietri Tonelli, M. Mihailovich, A. Di Cesare, F. Codazzi, F. Grohovaz, and D. Zacchetti Translational regulation of BACE-1 expression in neuronal and non-neuronal cells Nucleic Acids Res. 32 2004 1808 1817
8. J. Fernandez Regulation of internal ribosome entry site-mediated translation by eukaryotic initiation factor-2alpha phosphorylation and translation of a small upstream open reading frame J. Biol. Chem. 277 2002 2050 2058
9. U. Gopfert, M. Kullmann, and L. Hengst Cell cycle-dependent translation of p27 involves a responsive element in its 5′-UTR that overlaps with a uORF Hum. Mol. Genet. 12 2003 1767 1779
10. E. Griffin A link between diabetes and atherosclerosis: glucose regulates expression of CD36 at the level of translation Nat. Med. 7 2001 840 846
11. H.P. Harding Regulated translation initiation controls stress-induced gene expression in mammalian cells Mol. Cell 6 2000 1099 1108
12. X. Jin, E. Turcott, S. Englehardt, G.J. Mize, and D.R. Morris The two upstream open reading frames of oncogene mdm2 have different translational regulatory properties J. Biol. Chem. 278 2003 25716 25721
13. C. Jousse Inhibition of CHOP translation by a peptide encoded by an open reading frame localized in the chop 5′UTR Nucleic Acids Res. 29 2001 4341 4351
14. A. Kasprzyk EnsMart: a generic system for fast and flexible access to biological data Genome Res. 14 2004 160 169
15. M. Kozak An analysis of 5′-noncoding sequences from 699 vertebrate messenger RNAs Nucleic Acids Res. 15 1987 8125 8148
16. M. Kozak Initiation of translation in prokaryotes and eukaryotes Gene 234 1999 187 208
17. M. Kozak Do the 5′untranslated domains of human cDNAs challenge the rules for initiation of translation (or is it vice versa)? Genomics 70 2000 396 406
18. M. Kozak Constraints on reinitiation of translation in mammals Nucleic Acids Res. 29 2001 5226 5232
19. H.S. Kwon, D.K. Lee, J.J. Lee, H.J. Edenberg, Y.H. Ahn, and M.W. Hur Posttranscriptional regulation of human ADH5/FDH and Myf6 gene expression by upstream AUG codons Arch. Biochem. Biophys. 386 2001 163 171
20. J. Lee, E.H. Park, G. Couture, I. Harvey, P. Garneau, and J. Pelletier An upstream open reading frame impedes translation of the huntingtin gene Nucleic Acids Res. 30 2002 5110 5119
21. A.J. Lincoln, Y. Monczak, S.C. Williams, and P.F. Johnson Inhibition of CCAAT/enhancer-binding protein alpha and beta translation by upstream open reading frames J. Biol. Chem. 273 1998 9552 9560
22. H.A. Meijer, and A.A. Thomas Control of eukaryotic protein synthesis by upstream open reading frames in the 5′-untranslated region of an mRNA Biochem. J. 367 2002 1 11
23. F. Mignone, C. Gissi, S. Liuni, and G. Pesole Untranslated regions of mRNAs Genome Biol. 3 2002 (REVIEWS0004)
24. D.R. Morris, and A.P. Geballe Upstream open reading frames as regulators of mRNA translation Mol. Cell Biol. 20 2000 8635 8642
25. A. Nomura Involvement of upstream open reading frames in regulation of rat V(1b) vasopressin receptor expression Am. J. Physiol., Endocrinol Metabol. 280 2001 E780 E787
26. M. Oyama Analysis of small human proteins reveals the translation of upstream open reading frames of mRNAs Genome Res. 14 2004 2048 2052
27. A.L. Parola, and B.K. Kobilka The peptide product of a 5′ leader cistron in the beta 2 adrenergic receptor mRNA inhibits receptor synthesis J. Biol. Chem. 269 1994 4497 4505
28. G. Pesole, S. Liuni, G. Grillo, and C. Saccone Structural and compositional features of untranslated regions of eukaryotic mRNAs Gene 205 1997 95 102
29. G. Pesole, C. Gissi, G. Grillo, F. Licciulli, S. Liuni, and C. Saccone Analysis of oligonucleotide AUG start codon context in eukariotic mRNAs Gene 261 2000 85 91
30. A. Raney, G.L. Law, G.J. Mize, and D.R. Morris Regulated translation termination at the upstream open reading frame in s-adenosylmethionine decarboxylase mRNA J. Biol. Chem. 277 2002 5988 5994
31. G.W. Rogers Jr., G.M. Edelman, and V.P. Mauro Differential utilization of upstream AUGs in the beta-secretase mRNA suggests that a shunting mechanism regulates translation Proc. Natl. Acad Sci. U. S. A. 101 2004 2794 2799
32. G. Schluter, D. Boinska, and S.C. Nieman-Seyde Evidence for translational repression of the SOCS-1 major open reading frame by an upstream open reading frame Biochem. Biophys. Res. Commun. 268 2000 255 261
33. Y. Suzuki Statistical analysis of the 5′ untranslated region of human mRNA using "Oligo-Capped" cDNA libraries Genomics 64 2000 286 297
34. Y. Suzuki, R. Yamashita, S. Sugano, and K. Nakai DBTSS, database of transcriptional start sites: progress report 2004 Nucleic Acids Res. 32 2004 D78 D81 (Database issue)
35. C. Touriol Generation of protein isoform diversity by alternative initiation of translation at non-AUG codons Biol. Cell 95 2003 169 178
36. X.Q. Wang, and J.A. Rothnagel 5′-untranslated regions with multiple upstream AUG codons can support low-level translation via leaky scanning and reinitiation Nucleic Acids Res. 32 2004 1382 1391
37. G.S. Wilkie, K.S. Dickson, and N.K. Gray Regulation of mRNA translation by 5′- and 3′-UTR-binding factors Trends Biochem. Sci. 28 2003 182 188
38. I. Yaman The zipper model of translational control: a small upstream ORF is the switch that controls structural remodeling of an mRNA leader Cell 113 2003 519 531
39. R. Yamashita, Y. Suzuki, K. Nakai, and S. Sugano Small open reading frames in 5′ untranslated regions of mRNAs CR Biol. 326 2003 987 991
40. A. Zimmer, A.M. Zimmer, and K. Reynolds Tissue specific expression of the retinoic acid receptor-beta 2: regulation by short open reading frames in the 5′-noncoding region J. Cell Biol. 127 1994 1111 1119