Detected as a riboswitch by 9 out of 20 classifiers
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5HSAA084121 Similarity: 0.988 Similarity: 0.987 Similarity: 0.986
UTR: 5HSAA084121
Gene: PRAF2
MFE: -13.145
ENS: 0.851
Length: 41.
Predicted Ligands:
SAM - 13/20
preQ_1 - 5/20
guanidine - 1/20
 RS: URS00021EE107_12908
MFE: -7.110
Ligand: SAM
Species: unclassified sequences SAM-SAH-Weickhmann-2018 RNA
 RS: URS00021EDBDC_12908
MFE: -10.217
Ligand: SAM
Species: unclassified sequences SAM-SAH-Weickhmann-2018 RNA
 RS: URS0000BE9AC2_1514904
MFE: -10.827
Ligand: SAM
Species: Ahrensia marina SAM riboswitch (alpha-proteobacteria)
image of 5prime UTR secondary structure image of the secondary structure of the first Riboswitch match image of the secondary structure of the second Riboswitch match image of the secondary structure of the third Riboswitch match
circular plot of the 5prime UTR base pairs circular plot of the 5prime UTR base pairs compared with the first Riboswitch base pairs circular plot of the 5prime UTR base pairs compared with the second Riboswitch base pairs circular plot of the 5prime UTR base pairs compared with the third Riboswitch base pairs
line plot comparing the structural features of the 5prime UTR with its first riboswitch match line plot comparing the structural features of the 5prime UTR with its second riboswitch match line plot comparing the structural features of the 5prime UTR with its third riboswitch match
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heatmap comparing sequence features of the 5prime UTR and top three riboswitch matches
Heatmap of base pair probabilities for 1000 computational NUPACK foldings of the 5prime UTR
Heatmap of base pair probabilities for computational NUPACK foldings of the 5prime UTR that leave the start codon unbound
Heatmap of base pair probabilities for computational NUPACK foldings of the 5prime UTR that leave the start codon bound
Heatmap of base pair probabilities for computational NUPACK foldings of the 5prime UTR with the bound and unbound conformers overlaid
ML ensemble output for the 5prime UTR

Information

  5’UTR RS match 1 RS match 2 RS match 3
Link - RNAcentral RNAcentral RNAcentral
ID 5HSAA084121 URS00021EE107_12908 URS00021EDBDC_12908 URS0000BE9AC2_1514904
Length 41. 43. 41. 41.
Similarity - 0.988 0.987 0.986
Ensemble Norm 0.851 - - -
MFE -13.145 -7.110 -10.217 -10.827
Ligands - SAM SAM SAM
Gene PRAF2 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 6.007 3.072 5.001
Length SE - 4. 0. 0.
Lev Distance - 11. 17. 17.
UBS 3. 4. 3. 2.
BS 0. 0. 0. 0.
ILL 0. 0. 1. 1.
ILR 0. 0. 1. 1.
H 2. 2. 2. 1.
BL 1. 2. 0. 0.
BR 0. 2. 0. 0.
UN 0.268 0.186 0. 0.244

Sequences

Field Description
UTR seq + 25 cacauuaaccggcaggATGTCGGAGGTGCGGCTGCCACCGC
UTR dot + 25 ……..((((((…)))))).((((.(….)))))..
RS 1 seq GCUACAACGGCUUCCUGGCGUAGUUUGAAAAUUAAUUGGAGCA
RS 1 dot ……(((.(…..).))).((((.((……)).)))).
RS 2 seq CCUACAACGGCUUCCUGAAGUAGGUGUUUUUUUUUGGAGCA
RS 2 dot (((((..(((….)))..)))))((((((…..))))))
RS 3 seq GUUAUUCAUUGUGGUGAUUUGGCCGGUCGGCUUGCAGCCAC
RS 3 dot ……….(((((…..((((….))))….)))))

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