Overall information
FSDB ID
PM1V0001
Type
-1 frameshifting
Data
PREDICTED
Kingdom
viruses
Definition
Human astrovirus serotype 2, complete sequence of genomic RNA. 6828 bp ss-RNA linear VRL 08-MAR-1994
Resource
[1]
Jiang B, Monroe SS, Koonin EV, Stine SE, Glass RI. Proc Natl Acad Sci U S A. 1993 Nov 15;90(22):10539-43.
Nucleic acid sequence
L13745
Amino acid sequence
CDS
Click for details
2773..2842 /note="putative" /function="ribosomal frameshifting signals"
Graphical view
2770
TAAATCGAAAAACAAGGC
CCCAAAA
AACTACAAA
GGGCCCCAGAAGACCAAGGGGCCC
Stop codons
TAA (
2770
),
Slippery sequence
CCCAAAA
(2788 - 2794)
Spacer
AACTACAAA (9 nt)
Stimulatory structure
GGGCCCCAGAAGACCAAGGGGCCC
(2804 - 2827)
PREDICTED STRUCTURE
Predicted by
pknotsRG
with the minimum energy option
Visualized by
PseudoViewer
2791
AAAAAAC
TACAAA
GGGCCCCAGAAGACCAAGGGGCCC
Slippery sequence
AAAAAAC
(2791 - 2797)
Spacer
TACAAA (6 nt)
Stimulatory structure
GGGCCCCAGAAGACCAAGGGGCCC
(2804 - 2827)
PREDICTED STRUCTURE
Predicted by
pknotsRG
with the minimum energy option
Visualized by
PseudoViewer
Model
-1 frameshift signal
FSFinder parameters
Run FSFinder
(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
AAA UUU
spacer
nt
RNA structure
Stem
Pseudoknot
- Stem1
<
- Stem2
<
- Loop1
<
- Loop2
<
- Loop3
<