Detected as a riboswitch by 14 out of 20 classifiers
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5HSAA081680 Similarity: 0.989 Similarity: 0.985 Similarity: 0.985
UTR: 5HSAA081680
Gene: PMF1_1
MFE: -5.366
ENS: 0.
Length: 35.
Predicted Ligands:
SAM - 9/20
preQ_1 - 7/20
unknown - 1/20
 RS: URS0000D87AB1_1686310
MFE: -13.459
Ligand: SAM
Species: Bartonella apis SAM riboswitch (alpha-proteobacteria)
 RS: URS000080E037_32630
MFE: -4.622
Ligand: preQ_1
Species: PreQ1 riboswitch from None (PDB 3K1V, chain A)
 RS: URS000080E020_32630
MFE: -4.622
Ligand: preQ_1
Species: PreQ1 riboswitch from None (PDB 3FU2, chain A)
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 5HSAA081680 URS0000D87AB1_1686310 URS000080E037_32630 URS000080E020_32630
Length 35. 36. 34. 34.
Similarity - 0.989 0.985 0.985
Ensemble Norm 0. - - -
MFE -5.366 -13.459 -4.622 -4.622
Ligands - SAM preQ_1 preQ_1
Gene PMF1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 1.119 2.002 2.002
Length SE - 1. 1. 1.
Lev Distance - 13. 19. 19.
UBS 2. 2. 1. 1.
BS 0. 0. 0. 0.
ILL 1. 1. 0. 0.
ILR 0. 1. 0. 0.
H 1. 1. 1. 1.
BL 0. 0. 0. 0.
BR 0. 0. 0. 0.
UN 0. 0.056 0.353 0.353

Sequences

Field Description
UTR seq + 25 caacuucaacATGGCCGAAGCAAGTAGCGCCAATC
UTR dot + 25 ………..((((….((…..))))))…
RS 1 seq CGUGGUGAUUUGGGCCGGCCGGCUUGCAGCCACGCU
RS 1 dot ((((((…..(((((….)))))…))))))..
RS 2 seq AGAGGUUCUAGCACAUCCCUCUAUAAAAAACUAA
RS 2 dot (((((…………)))))…………
RS 3 seq AGAGGUUCUAGCUACACCCUCUAUAAAAAACUAA
RS 3 dot (((((…………)))))…………

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