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::General Information
ID U0021
Creation Date 30 July 2001
Updating Date 30 July 2001
Standard Name Barley yellow dwarf virus translation control element (BYDV_TE)
UTRSite Pattern
r1={au,ua,gc,cg,gu,ug}
p1=7...7 3...3 p2=ggauccug[1,0,0] p2:(4...4 p3=4...4) gnrna ~p3
2...2 p4=4...4 4...4 ~p4 4...4 p5=nn nnn (p6=6...6 c (u | c) a[0,1,0]
guc a[0,1,0] (a | c) r1~p6 | p8=5...5 n p9=3...3 nn
p10=6...6  c (u | c) a[0,1,0] guc a[0,1,0] (a | c) r1~p10 n ~p9 nn ~p8)
nnn r1~p5 6...6 r1~p1[1,0,1]
Random Expectation 0.0 hits/kb
::Taxonomy
UTR Region 3'
Taxon Range Viridiplantae
::Description
Description Efficient translation of Barley yellow dwarf virus (BYDV) RNA, lacking both a 5'cap and a poly(A) tail, is mediated by a cap-independent translation element (TE) located in the 3'UTR whose minimum length is obout 90 nt. Nuclease probing and structure directed mutagenesis has shown that TE is able to fold into a specific cruciform secondary structure containing four helices. Cap-independent translation requires all secondary structure elements and most primary sequences. Recent data suggest that TE base pairs to the 5'UTR unless the TE itself is located in the 5'UTR. Similar structures appear to be present in soybean dwarf luteovirus (SDV), and tobacco necrosis necrovirus (TNE). The TNV TE lacks a stem-loop present the BYDV TE. All have conserved loops that can base-pair to a stem-loop in the 5' UTR. TE mediates translation initiation at the AUG closest to the mRNA 5' end, possibly facilitating ribosome recruiting and 3'-5' communication.
::Features
Feature Key BYDV_TE
::References
ID [1]
Authors Gu, Allen and Allen Miller
Title Structure and function of a cap-independent translation element that functions in either the 3' or the 5' untranslated region
Citation RNA. Dec;6(12):1808-20
Year 2000
ID [2]
Authors Guo, Allen and Allen Miller
Title Base-Pairing between untranslated regions facilitates translation of uncapped, nonpolyadenylated viral RNA
Citation Mol Cell 2001 May;7:1103-1109
Year 2001