Detected as a riboswitch by 19 out of 20 classifiers
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5HSAA006983 Similarity: 0.981 Similarity: 0.981 Similarity: 0.981
UTR: 5HSAA006983
Gene: ARPC2
MFE: -11.652
ENS: 0.953
Length: 81.
Predicted Ligands:
SAM - 15/20
GMP - 3/20
fluoride - 2/20
 RS: URS0000D680F8_12908
MFE: -30.123
Ligand: GMP
Species: unclassified sequences c-di-GMP-II-GCG riboswitch
 RS: URS0000D6A4A1_12908
MFE: -31.423
Ligand: GMP
Species: unclassified sequences c-di-GMP-II-GCG riboswitch
 RS: URS0000BE5B06_419475
MFE: -19.445
Ligand: SAM
Species: Ochrobactrum pseudogrignonense SAM riboswitch (alpha-proteobacteria)
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 5HSAA006983 URS0000D680F8_12908 URS0000D6A4A1_12908 URS0000BE5B06_419475
Length 81. 82. 82. 81.
Similarity - 0.981 0.981 0.981
Ensemble Norm 0.953 - - -
MFE -11.652 -30.123 -31.423 -19.445
Ligands - GMP GMP SAM
Gene ARPC2 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 0. 0. 3.002
Length SE - 1. 1. 0.
Lev Distance - 24. 24. 25.
UBS 4. 4. 4. 5.
BS 0. 0. 0. 0.
ILL 1. 1. 1. 1.
ILR 0. 0. 0. 1.
H 3. 3. 3. 3.
BL 0. 0. 0. 0.
BR 0. 0. 0. 1.
UN 0.284 0.268 0.268 0.235

Sequences

Field Description
UTR seq + 25 gugaaugaacucagaggaauacaaccacccuuucuacaacaagaguccucgacaagATGATCCTGCTGGAGGTGAACAACC
UTR dot + 25 ………….(((((………….((((……)))))))))……….(((….)))(((…..)))
RS 1 seq UCUCCGCCGGCUGCGAUAAGGCACGGUUCAUAUCCCGGCCGCCCGGACCGUGCAUAGCUACUGGCGAGCCCGCCAGCAUCGA
RS 1 dot ….(((…..)))…..(((((((…….((((….)))))))))))…….((((((….))))))……
RS 2 seq UCUCCGCUGGCUGCGAUAAGGCACGGUUCAUAUCCCGGCCGCCCGGACCGUGCAUAGCUACUGGCGAGCCCGCCAGCAUCGA
RS 2 dot ….(((…..)))…..(((((((…….((((….)))))))))))…….((((((….))))))……
RS 3 seq AAAGUGUUCCGUGGUGAUUUGGCCGGCCGGCUUGCAGCCACGUUAAAGAAUUCGCUAAAAUAAGGCCGCGGUUCGUUACCG
RS 3 dot ………((((((…..((((….))))….))))))……….((((…….))).)((((…..))))

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