Overall information
FSDB ID PM1V0054 Type -1 frameshifting
Data PREDICTED Kingdom viruses
Definition Simian T-lymphotropic virus 2, complete genome. 8855 bp ss-RNA linear VRL 31-MAY-2006
Resource [1] predicted by FSFinder
[2] Van Brussel M, Salemi M, Liu HF, Gabriels J, Goubau P, Desmyter J, Vandamme AM. Virology. 1998 Apr 10;243(2):366-79.
Nucleic acid sequence NC_001815
Amino acid sequence
gene
756..5160
/locus_tag="STLV2gp01"
/db_xref="GeneID:1724974"
CDS Click for details
Graphical view

1736
TAGCCCCCTAGGGGACATGCTCCGAGCCTGCCAAGCATGGACACCCAAGGACAAAGCCCGGGTCCTCGTCGTCCAACCACGAAAGCCCCCGCCCACGCAGCCCTGCTTCCGCTGCGGGAAAACAGGGCATTGGAGCCGAGACTGCACCCTCCCACGCCCCCCCCCTGGTCCGTGTCCCTTGTGCAAGGACCCTTCCCATTGGAAACGAGATTGTCCACAGTTCAAACCCCCCCCAACGGAGGAGGAACCCCTCCTGCTGGACCTGCCCTCGGATGCCATTGCCACCGAGGA
AAAAAAC
TCCC
TGGGGGGGGAGATGTAATCTCCCCCCAACAAATCTCAATGCTCCCTGTCATTCCGTTAGAGCAACAGCACCAGCCCC
Stop codons TAG (1736),
Slippery sequence
AAAAAAC (2027 - 2033)
Spacer TCCC (4 nt)
Stimulatory structure
TGGGGGGGGAGATGTAATCTCCCCCCAACAAATCTCAATGCTCCCTGTCATTCCGTTAGAGCAACAGCACCAGCCCC (2038 - 2114)
PREDICTED STRUCTURE

Predicted by pknotsRG with the minimum energy option
Visualized by PseudoViewer

2560
TTTAAAC
CTGAGC
GCCTCCAGGCCTTGACTGACCTGGTCTCCAAGGCCCTGGAGGCTAGCTACATTGAACCTTACTCTGGA
Slippery sequence
TTTAAAC (2560 - 2566)
Spacer CTGAGC (6 nt)
Stimulatory structure
GCCTCCAGGCCTTGACTGACCTGGTCTCCAAGGCCCTGGAGGCTAGCTACATTGAACCTTACTCTGGA (2573 - 2640)
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<