Detected as a riboswitch by 3 out of 20 classifiers
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5HSAA090367 Similarity: 0.986 Similarity: 0.985 Similarity: 0.984
UTR: 5HSAA090367
Gene: RFFL
MFE: -4.485
ENS: 0.682
Length: 36.
Predicted Ligands:
SAM - 9/20
preQ_1 - 7/20
fluoride - 1/20
 RS: URS0000D87AB1_1686310
MFE: -13.459
Ligand: SAM
Species: Bartonella apis SAM riboswitch (alpha-proteobacteria)
 RS: URS0000D92E6B_1802287
MFE: -9.182
Ligand: fluoride
Species: Syntrophobacterales bacterium GWC2_56_13 Fluoride riboswitch
 RS: URS0001A24B6D_1907202
MFE: -12.438
Ligand: unknown
Species: Chains: A,B,C,D,E,F,G,H,I,J,K,L from Roseobacter sp. (PDB 6YL5, chain G)
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 5HSAA090367 URS0000D87AB1_1686310 URS0000D92E6B_1802287 URS0001A24B6D_1907202
Length 36. 36. 38. 35.
Similarity - 0.986 0.985 0.984
Ensemble Norm 0.682 - - -
MFE -4.485 -13.459 -9.182 -12.438
Ligands - SAM fluoride unknown
Gene RFFL - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 1.028 2.029 1.001
Length SE - 0. 4. 1.
Lev Distance - 19. 16. 21.
UBS 2. 2. 3. 2.
BS 0. 0. 0. 0.
ILL 0. 1. 0. 1.
ILR 1. 1. 1. 1.
H 1. 1. 1. 1.
BL 0. 0. 0. 0.
BR 0. 0. 1. 0.
UN 0.222 0.056 0.053 0.257

Sequences

Field Description
UTR seq + 25 cagauuuuaucATGTGGGCAACCTGCTGCAACTGGT
UTR dot + 25 ……..(((((((((……..)))))..))))
RS 1 seq CGUGGUGAUUUGGGCCGGCCGGCUUGCAGCCACGCU
RS 1 dot ((((((…..(((((….)))))…))))))..
RS 2 seq GGGGUUCACCGCAACCGCCGCUCGGCUGAUAACUCCUA
RS 2 dot (((((((((((………..))).)))..)))))..
RS 3 seq GGUCACAACGGCUUCCUGGCGUGACCAUUGGAGCA
RS 3 dot ((((((..(((….)))..))))))………

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