Detected as a riboswitch by 4 out of 20 classifiers
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5HSAA067084 Similarity: 0.984 Similarity: 0.983 Similarity: 0.981
UTR: 5HSAA067084
Gene: MPI_2
MFE: -32.341
ENS: 0.836
Length: 86.
Predicted Ligands:
GMP - 6/20
cyclic-di-GMP - 4/20
SAM - 2/20
 RS: URS0000D6600A_12908
MFE: -38.937
Ligand: GMP
Species: unclassified sequences c-di-GMP-II-GAG riboswitch
 RS: URS0000D69C60_12908
MFE: -28.686
Ligand: GMP
Species: unclassified sequences c-di-GMP-II-GAG riboswitch
 RS: URS0000C47B14_1112204
MFE: -27.386
Ligand: SAM
Species: Gordonia polyisoprenivorans VH2 SAM riboswitch (S box leader)
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 5HSAA067084 URS0000D6600A_12908 URS0000D69C60_12908 URS0000C47B14_1112204
Length 86. 86. 85. 85.
Similarity - 0.984 0.983 0.981
Ensemble Norm 0.836 - - -
MFE -32.341 -38.937 -28.686 -27.386
Ligands - GMP GMP SAM
Gene MPI - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 6.002 6.001 6.002
Length SE - 0. 1. 1.
Lev Distance - 20. 20. 23.
UBS 6. 8. 8. 8.
BS 0. 0. 0. 0.
ILL 3. 3. 3. 2.
ILR 2. 3. 2. 3.
H 2. 2. 2. 2.
BL 1. 2. 2. 1.
BR 2. 2. 3. 2.
UN 0.058 0.012 0.082 0.106

Sequences

Field Description
UTR seq + 25 auacgugcuuaauccuggugcagggggcgagcauggccgcuccgcgaguaugccugggggaATGGGTTCCAACAGCGAAGTGGCGC
UTR dot + 25 …(((((((..((((……))))..)))))))((((((.(((..((..(((((……)))))….)).))).))))))..
RS 1 seq UCGUUCUCGGAAGGCGUCGACGCGCGGCCUAUGAAGCGUGCCGCCGGGACCGCGCCGAGCUACUGGCGAGACCGGUCCGAGGGGCA
RS 1 dot .((((.(((..((((..((…))..)))).)))))))((((.(..(((((((((((……)))))….))))))..).))))
RS 2 seq ACGCACUCGGGAGGCUCUGACACGCAGCCCAUGCCCACGGCCGCCGGGACCGCGCCGAGCCACUGGCGAGACCGACCCGUCGCCA
RS 2 dot ..(((…(((..((……..))..))).)))….((.((.((((..(((((((……)))))….)).)))).)))).
RS 3 seq CGACCAUCUGGAGCGACCGAGAGACCCGGCUCGUCGACGUCGCAGCAACCCCAGAGGAGGGUGCUAACGCCGGGAUCGAUGGGAG
RS 3 dot …….((((..(……..)..))))((((((((..(((((((.(((((….).)))))))…)).))..))))))))..

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