Detected as a riboswitch by 12 out of 20 classifiers
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5HSAA078541 Similarity: 0.986 Similarity: 0.986 Similarity: 0.986
UTR: 5HSAA078541
Gene: PDK2_0
MFE: -15.494
ENS: 0.869
Length: 63.
Predicted Ligands:
fluoride - 8/20
homocysteine - 6/20
glutamine - 4/20
 RS: URS0000C56965_12908
MFE: -11.238
Ligand: glutamine
Species: unclassified sequences Glutamine riboswitch
 RS: URS0000DB2FF0_1895817
MFE: -22.577
Ligand: fluoride
Species: Rhizobiales bacterium 68-8 Fluoride riboswitch
 RS: URS0000C8610A_12908
MFE: -8.
Ligand: glutamine
Species: unclassified sequences Glutamine 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 5HSAA078541 URS0000C56965_12908 URS0000DB2FF0_1895817 URS0000C8610A_12908
Length 63. 61. 62. 63.
Similarity - 0.986 0.986 0.986
Ensemble Norm 0.869 - - -
MFE -15.494 -11.238 -22.577 -8.
Ligands - glutamine fluoride glutamine
Gene PDK2 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 15. 3. 7.091
Length SE - 4. 1. 0.
Lev Distance - 9. 17. 17.
UBS 5. 3. 5. 4.
BS 0. 0. 0. 0.
ILL 0. 0. 1. 1.
ILR 1. 2. 1. 0.
H 1. 1. 2. 1.
BL 2. 1. 2. 2.
BR 3. 0. 2. 1.
UN 0.079 0.098 0.081 0.381

Sequences

Field Description
UTR seq + 25 ucgaggcgccaugacgagccgauuggcugggcguuggaATGAAAGAGATCAACCTGCTTCCCG
UTR dot + 25 ..(((((((((((.(.((((….)))).).))).))……………..))))))…
RS 1 seq AUCGUUCAUCCUUAUUUUUGGGGACGGAAGUAGGUAAAAAAUCAAACCGAAGGAACGCAUC
RS 1 dot ..(((((.((((((((((((….))))))))))…………..))..)))))….
RS 2 seq AUGCGUGGCGGGGAUGGGGUCCCCCGUAUAACCGCCCUGUGGCUGAUGACUCCUGCCAGCGC
RS 2 dot ..(((.(((((..(((.((….)).)))..))))).))).((((………..))))..
RS 3 seq AUCGUUCAUCUCACUUAAUGGAGACGGAAGUAGGUAACGGGAGAAUUACUAAAGGAACGCAAC
RS 3 dot .(((((.((((.((((..((….)).)))))))))))))…………………..

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