Retrieve PseudoKnots by class
PseudoBase is a collection of RNA pseudoknots that we make available
for retrieval to the scientific community.
If you used our database for your research, kindly mention this,
referring to its publication
(see Batenburg et al. (2000) ).
On this page you can pick a pseudoknot by first selecting the appropriate class...
Viral ribosomal frameshifting signals
ALFV (Alfuy virus)
BChV (beet chlorosis virus)
BEV (Berne virus)
BLV (Bovine leukemia virus)
BWYV (Beet western yellows virus)
BYDV-NY-RPV (barley yellow dwarf virus)
CABYV (cucurbit aphid-borne yellows virus)
EAV (equine arteritis virus)
EIAV (Equine infectious anemia virus)
FIV (Feline immunodeficiency virus)
HCV_229E (human coronavirus 229E)
Hs_Ma3 (Homo sapiens)
IBV (infectious bronchitis virus)
JEV (Japanese encephalitis virus)
KUNV (West Nile virus, Kunijn subtype)
LDV-C (lactate dehydrogenase-elevating virus, strain C)
MIDV (Middelburg virus)
MMTV_gag/pro (mouse mammary tumor virus)
MVEV (Murray Valley encephalitis virus)
Mm_Edr (Mus musculus (mouse))
PEMV (pea enation mosaic virus)
PLRV-S (potato leafroll virus)
PLRV-W (potato leafroll virus)
PRRSV-16244B (Porcine reproductive and respiratory syndrome virus, North American isolate (16244B))
PRRSV-LV (Porcine reproductive and respiratory syndrome virus, European Lelystad strain (LV))
RSV (Rous sarcoma virus)
SARS-CoV (SARS coronavirus)
SESV (Seal louse virus)
SRV1_gag/pro (simian retrovirus-1)
ScYLV (sugarcane yellow leaf virus)
USUV (Usutu virus)
VMV (Visna-Maedi virus)
WBV (White Bream Virus)
WNV (West Nile virus)
Viral ribosomal readthrough signals
AKV-MuLV (AKV murine leukemia virus)
BaEV (baboon endogenous virus)
Cas-Br-E-MuLV (Cas-Br-E murine leukemia virus)
FeLV (Feline leukemia virus)
GaLV (gibbon ape leukemia virus)
Mo-MuLV (Moloney murine leukemia virus)
SNV (spleen necrosis virus)
Viral tRNA like structures
AMV3 (alfalfa mosaic virus)
APLPV3 (American plum line pattern virus)
APLV (andean potato latent virus)
AV-2_3 (Asparagus virus 2)
ApMV3 (Apple mosaic virus)
BBMV3 (broad bean mottle virus)
BCRV1 (Blackberry chlorotic ringspot virus)
BMV3 (brome mosaic virus)
BSBV1 (beet soil-borne virus)
BSBV2 (beet soil-borne virus)
BSBV3 (beet soil-borne virus)
BSMVbeta (barley stripe mosaic virus)
BVQ1 (beet virus Q)
BVQ2 (beet virus Q)
BVQ3 (beet virus Q)
CCMV3 (cowpea chlorotic mottle virus)
CGMMV (cucumber green mottle mosaic virus)
CGMMV_PKbulge (cucumber green mottle mosaic virus)
CMV3 (cucumber mosaic virus)
CVV3 (Citrus variegation virus)
CYVV (clitoria yellow vein virus)
CaYMV (cacao yellow mosaic virus)
CaYVV (calopogonium yellow vein virus)
CcTMV (tobacco mosaic virus)
CiLRV3 (Citrus leaf rugose virus)
DYMV (desmodium yellow mottle virus)
EMV (eggplant mosaic virus)
EMoV3 (Elm mottle virus)
FCiLV3 (Fragaria chiloensis latent virus)
HJLV3 (Humulus japonicus latent virus)
IPCV1 (Indian peanut clump virus)
KYMV-BP (kennedya yellow mosaic virus )
LRSVbeta (lychnis ringspot virus)
LiRMV3 (Lilac ring mottle virus)
NeRNV_PKa (Nemesia ring necrosis virus)
NeRNV_PKb (Nemesia ring necrosis virus)
OMV (okra mosaic virus)
ORMV (oilseed rape mosaic virus)
ORSV-S1 (odontoglossum ringspot virus)
ORSV-S1_PKbulge1 (odontoglossum ringspot virus)
ORSV-S1_PKbulge2 (odontoglossum ringspot virus)
ORSV-S1_PKbulge3 (odontoglossum ringspot virus)
OYMV (ononis yellow mosaic virus)
PCV1 (peanut clump virus)
PCV2 (peanut clump virus)
PDV3 (Prune dwarf virus)
PMMV-I (pepper mild mottle virus)
PMMV-S (pepper mild mottle virus)
PMMV-S_PKbulge (pepper mild mottle virus)
PMTV2 (potato mop-top virus)
PMoV3 (Parietaria mottle virus)
PNRSV3 (Prunus necrotic ringspot virus)
PSLVbeta (poa semilatent virus)
PaMMV (paprika mild mottle virus)
PhyMV (physalis mottle virus)
SBRMV1-PKa (soil-borne rye mosaic virus)
SBWMV1 (soil-borne wheat mosaic virus)
SBWMV2 (soil-borne wheat mosaic virus)
SNSV1 (Strawberry necrotic shock virus)
STMV (satellite tobacco mosaic virus)
STMV_PKbulge (satellite tobacco mosaic virus)
SpLV3 (Spinach latent virus)
TAMV1 (Tulare apple mosaic virus)
TCV1 (Tobacco streak virus)
TMGMV (tobacco mild green mosaic virus)
TMGMV_PKbulge (tobacco mild green mosaic virus)
TMV (tobacco mosaic virus)
TMV_PKbulge (tobacco mosaic virus)
TMV-L (tobacco mosaic virus)
TMV-L_PKbulge (tobacco mosaic virus)
TMVcg (tobacco mosaic virus)
TRV-PSG (tobacco rattle virus)
TVCV (turnip vein-clearing virus)
TYMV (turnip yellow mosaic virus)
WCMV (wild cucumber mosaic virus)
rRNA pseudoknot entries are representatives for many similar pseudoknots in diverse species.
See the database of RNA families Rfam (http://rfam.sanger.ac.uk/ ),
accessions RF00177; RF01960; RF01118.
for all others.
tmRNA pseudoknot entries are representatives for many similar pseudoknots in diverse species.
See the database of RNA families Rfam (http://rfam.sanger.ac.uk/ ),
accession RF00023.
RNaseP RNA and HDV pseudoknot entries are representatives for many similar pseudoknots in diverse species.
See the database of RNA families Rfam (http://rfam.sanger.ac.uk/),
accessions RF00010; RF00094.
The SRP and telomerase pseudoknot entries are representatives for many similar pseudoknots in diverse species.
See the database of RNA families Rfam (http://rfam.sanger.ac.uk/ ),
accessions RF00017; RF00024; RF00025.
Contact:
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Prototyping: Jacky Ng & Jan Oliehoek.
© final design and maintenance: F.H.D.(Eke) van Batenburg, 1998-12-18;...;
.