Detected as a riboswitch by 20 out of 20 classifiers
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5HSAA098020 Similarity: 0.987 Similarity: 0.985 Similarity: 0.985
UTR: 5HSAA098020
Gene: SHCBP1
MFE: -20.729
ENS: 0.969
Length: 65.
Predicted Ligands:
fluoride - 18/20
purine - 1/20
Ni/Co - 1/20
 RS: URS0000DA3B4A_1797881
MFE: -15.085
Ligand: fluoride
Species: Deltaproteobacteria bacterium RIFCSPLOWO2_02_FULL_50_16 Fluoride riboswitch
 RS: URS0000DA2125_146922
MFE: -23.951
Ligand: fluoride
Species: Streptomyces griseofuscus Fluoride riboswitch
 RS: URS0000BF90D1_323259
MFE: -17.140
Ligand: fluoride
Species: Methanospirillum hungatei JF-1 Fluoride 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 5HSAA098020 URS0000DA3B4A_1797881 URS0000DA2125_146922 URS0000BF90D1_323259
Length 65. 66. 65. 63.
Similarity - 0.987 0.985 0.985
Ensemble Norm 0.969 - - -
MFE -20.729 -15.085 -23.951 -17.140
Ligands - fluoride fluoride fluoride
Gene SHCBP1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 7.004 6.001 2.005
Length SE - 1. 0. 4.
Lev Distance - 14. 18. 15.
UBS 5. 4. 5. 5.
BS 0. 0. 0. 0.
ILL 0. 0. 2. 0.
ILR 1. 2. 0. 1.
H 1. 1. 1. 1.
BL 2. 1. 1. 3.
BR 3. 1. 3. 2.
UN 0.185 0.121 0.215 0.111

Sequences

Field Description
UTR seq + 25 aucacgucguugccugggcugccguccgcggaaauuugaaATGGCTGACGGGTCGCTGACGGGCG
UTR dot + 25 ………..((((((((.((((((.((…………..)).))))).).)))..))))).
RS 1 seq GAAAACUUUGGCGAUGGAGUUCGCCGUAUAACCGCCUCAACACGGGCUGAUAACUCCUACUCGUUA
RS 1 dot ……..((((((.((((((((((……………….))).))..)))))…))))))
RS 2 seq CGACGCGCCGGUGAUGGGGCUCACCGCAACCGCGGCACCAUGCCGCUGACGGUCCCUGGUCGAAC
RS 2 dot ………..((((.(((…((((((…((((((…)))))))).)))).))).))))…
RS 3 seq GUAAACCAGGGUGAUGGGGUUCACCUGUAACCGCUUUUUCCAGCUGAUGACUCCUCUUCCUGU
RS 3 dot ……(((((.((.((((((((.(((………….))).)))..))))))).))))).

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