Detected as a riboswitch by 3 out of 20 classifiers
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5HSAA102389 Similarity: 0.966 Similarity: 0.965 Similarity: 0.964
UTR: 5HSAA102389
Gene: SOD1
MFE: -49.147
ENS: 0.771
Length: 129.
Predicted Ligands:
cobalamin - 10/20
FMN - 3/20
TPP - 3/20
 RS: URS0002327BF8_883161
MFE: -31.306
Ligand: cobalamin
Species: Propionimicrobium lymphophilum ACS-093-V-SCH5 Cobalamin riboswitch
 RS: URS0000AB5A04_12908
MFE: -26.179
Ligand: cobalamin
Species: unclassified sequences AdoCbl variant RNA
 RS: URS0000D9D0F2_1797495
MFE: -55.607
Ligand: glycine
Species: Betaproteobacteria bacterium RIFCSPLOWO2_12_FULL_62_13 Glycine riboswitch
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 5HSAA102389 URS0002327BF8_883161 URS0000AB5A04_12908 URS0000D9D0F2_1797495
Length 129. 129. 129. 129.
Similarity - 0.966 0.965 0.964
Ensemble Norm 0.771 - - -
MFE -49.147 -31.306 -26.179 -55.607
Ligands - cobalamin cobalamin glycine
Gene SOD1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 8.004 16.009 7.002
Length SE - 0. 0. 0.
Lev Distance - 42. 40. 45.
UBS 10. 11. 12. 9.
BS 0. 0. 0. 0.
ILL 3. 4. 4. 3.
ILR 1. 2. 0. 2.
H 2. 3. 2. 2.
BL 3. 3. 6. 2.
BR 5. 3. 6. 3.
UN 0.008 0.070 0.101 0.047

Sequences

Field Description
UTR seq + 25 guagucgcggagacggggugcugguuugcgucguagucuccugcagcgucugggguuuccguugcaguccucggaaccaggaccucggcguggccuagcgaguuATGGCGACGAAGGCCGTGTGCGTGC
UTR dot + 25 .((((((((….((((((.(((((((….((.((….((((((((………..))))))))..))))))))))).)))))).)))))).))(((.((((((((…….)))))).)).)))
RS 1 seq UUCACAUAUUGCUGAUAGGUUCUAUGUAGUUAGCCACAGGGGAAUUCUGGUUUGUAUCCAGAACUGUCGCGCAACGGUGAAGUCGCUUAGCGAACAAGUCCGAAAACCUGGGCUGUCGAAUAUUUUUGU
RS 1 dot ……..(((((((..(((((..(((.((..((.((((…..((((((…….)))))))))).)))).)))..))).))..)))))))((.((((((……))))))))((((….)))).
RS 2 seq AUGCUGAAUCUUGGUGGGGAAUCAAUGUGUAAAUCGUUGACUGUACCUGCAACCGUAAAGUCGGAGUGCCACCCAGCAAGUCCGUUGAUGAAUGAAGGCCAGGAAAAGUCUAGUUCUUCUAAUAUUUUA
RS 2 dot ..((.((..((((.((((…….((.(((…(.((((((.(((……..))).)))))).)))))))))).)))))).)).((.((((..((((……..)))).)))).))……….
RS 3 seq CGUGGCGACUCUGGAGAGCGUCGAGCCCGGCUGCGGGUUCGUCCACCGAAGGGGCACGCAGCGGCUUGAUCGCCGCCGCAAUCUCUCAGGUUAGGGUCGAAGAGGACUCUUAAGGACAGAGGGGUGAAG
RS 3 dot .((((((……….((((((((((..((((((.((((.((….))..)))).))))))))))))).))))))))).(((((((..(((((((((……))))))….))).)))))))….

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