Detected as a riboswitch by 3 out of 20 classifiers
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5HSAA059176 Similarity: 0.988 Similarity: 0.985 Similarity: 0.985
UTR: 5HSAA059176
Gene: LITAF
MFE: -13.629
ENS: 0.744
Length: 64.
Predicted Ligands:
fluoride - 13/20
unknown - 4/20
cobalamin - 2/20
 RS: URS0000D790E4_392015
MFE: -15.832
Ligand: fluoride
Species: Alicyclobacillus macrosporangiidus Fluoride riboswitch
 RS: URS0000D6A91C_273116
MFE: -16.512
Ligand: fluoride
Species: Thermoplasma volcanium GSS1 Fluoride riboswitch
 RS: URS0000DB0620_1801964
MFE: -18.921
Ligand: fluoride
Species: Planctomycetes bacterium RBG_13_62_9 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 5HSAA059176 URS0000D790E4_392015 URS0000D6A91C_273116 URS0000DB0620_1801964
Length 64. 64. 63. 63.
Similarity - 0.988 0.985 0.985
Ensemble Norm 0.744 - - -
MFE -13.629 -15.832 -16.512 -18.921
Ligands - fluoride fluoride fluoride
Gene LITAF - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 7.009 10.004 8.001
Length SE - 0. 1. 1.
Lev Distance - 14. 15. 16.
UBS 6. 4. 4. 6.
BS 0. 0. 0. 0.
ILL 2. 1. 1. 0.
ILR 0. 0. 0. 0.
H 2. 2. 2. 2.
BL 2. 1. 1. 4.
BR 3. 2. 1. 3.
UN 0.141 0.234 0.206 0.111

Sequences

Field Description
UTR seq + 25 ggggcuaggaaggagggacgcgucugcagcaaagguaaaATGTCGGTTCCAGGACCTTACCAGG
UTR dot + 25 …(((.(…(((.(….).))).))))…(((((…(((……..))).)))))…
RS 1 seq AUCGAAUCCGGUGAUGGAGCUCACCGUAUAAAUGCCCAUUGAGGAUGAUGGCUCCUGUGCAUCU
RS 1 dot ……..((((((……))))))…..((((.((..(((……..))).)).))))..
RS 2 seq GUAAUGAUGAGGGAUGGAGUUCCCUAUGAUUGUCUCAUUGAGACUGAUAACUCCUGGACAGUA
RS 2 dot ………(((((……)))))…((((((.((..(((……..))).)))))))).
RS 3 seq ACUGAUCGUGGGGAUGGAGUCCCCCGGACAACCGCCUGCAGGGCUGAUGACUCCUACCGGUUU
RS 3 dot ..((.(((.((((((…))))))))).))…(((.(.((((……..)))).).)))..

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