Overall information
FSDB ID EM1V0029 Type -1 frameshifting
Data EXPERIMENTAL Kingdom viruses
Definition Cocksfoot Mottle Virus genes for polyprotein, RNA dependent RNA polymerase and coat protein. 4082 bp RNA linear VRL 18-APR-2005
Resource [1] Lucchesi J, Makelainen K, Merits A, Tamm T, Makinen K. Eur J Biochem. 2000 Jun;267(12):3523-9.
[2] Makinen K, Naess V, Tamm T, Truve E, Aaspollu A, Saarma M. Virology. 1995 Mar 10;207(2):566-71.
Nucleic acid sequence Z48630
Amino acid sequence
gene 
1603..3253
/product="RNA dependent RNA polymerase"
CDS Click for details
Graphical view

1601
TGACGAGGACACCCAAGAAACTGCAATCCGGCC
TTTAAAC
TACCA
GCGGGCGGGCTCCCTACGGGGCAGTCCGCCC
Stop codons TGA (1601),
Slippery sequence
TTTAAAC (1634 - 1640)
Spacer TACCA (5 nt)
Stimulatory structure
GCGGGCGGGCTCCCTACGGGGCAGTCCGCCC (1646 - 1676)
PREDICTED STRUCTURE

Predicted by pknotsRG with the minimum energy option
Visualized by PseudoViewer
Model -1 frameshift signal
FSFinder parameters

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(You can obtain the above result by running FSFinder with the sequence and parameter values. You may have to alternate frames to get the same result.)
Target gene genes in viruses
Sequence type Patial genome
Direction + strand
Pattern
Pattern
Match
Exceptions
spacer

nt
RNA structure
Stem
Pseudoknot
- Stem1 <
- Stem2<
- Loop1<
- Loop2 <
- Loop3<