Overall information
FSDB ID PM1V0055 Type -1 frameshifting
Data PREDICTED Kingdom viruses
Definition Simian-Human immunodeficiency virus, complete genome. 10000 bp ss-RNA linear VRL 30-MAR-2006
Resource [1] predicted by FSFinder
[2] Reimann KA, Li JT, Voss G, Lekutis C, Tenner-Racz K, Racz P, Lin W, Montefiori DC, Lee-Parritz DE, Lu Y, Collman RG, Sodroski J, Letvin NL. J Virol. 1996 May;70(5):3198-206.
Nucleic acid sequence NC_001870
Amino acid sequence
gene
536..2068
/gene="gag"
/locus_tag="Sivgp01"
/db_xref="GeneID:1446392"
CDS Click for details
gene
1714..4893
/gene="pol"
/locus_tag="Sivgp02"
/db_xref="GeneID:1446393"
CDS Click for details
Graphical view

1834
TTTTTTA
GGCC
TTGGTCCATGGGGAAAGAAGCCCCGCAATTTCCCCATGGCTCAAGTGCATCAGGGGCTGATGCCAACTGCTCCCCCAGAGGACC
Slippery sequence
TTTTTTA (1834 - 1840)
Spacer GGCC (4 nt)
Stimulatory structure
TTGGTCCATGGGGAAAGAAGCCCCGCAATTTCCCCATGGCTCAAGTGCATCAGGGGCTGATGCCAACTGCTCCCCCAGAGGACC (1845 - 1928)
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

spacer

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