Detected as a riboswitch by 17 out of 20 classifiers
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5HSAA122766-1 Similarity: 0.986 Similarity: 0.983 Similarity: 0.983
UTR: 5HSAA122766-1
Gene: ZNF346_0
MFE: -27.605
ENS: 0.923
Length: 84.
Predicted Ligands:
cyclic-di-GMP - 11/20
homocysteine - 5/20
GMP - 3/20
 RS: URS0000C0D8D4_1629715
MFE: -22.921
Ligand: cyclic-di-GMP
Species: Peptococcaceae bacterium BRH_c8a Cyclic di-GMP-II riboswitch
 RS: URS0000ABB0DC_373903
MFE: -18.627
Ligand: cyclic-di-GMP
Species: Halothermothrix orenii H 168 Cyclic di-GMP-II riboswitch
 RS: URS0000D85077_1111071
MFE: -19.692
Ligand: homocysteine
Species: Rhodoferax antarcticus ANT.BR S-adenosyl-L-homocysteine 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 5HSAA122766-1 URS0000C0D8D4_1629715 URS0000ABB0DC_373903 URS0000D85077_1111071
Length 84. 84. 84. 83.
Similarity - 0.986 0.983 0.983
Ensemble Norm 0.923 - - -
MFE -27.605 -22.921 -18.627 -19.692
Ligands - cyclic-di-GMP cyclic-di-GMP homocysteine
Gene ZNF346 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 4. 8. 6.015
Length SE - 0. 0. 1.
Lev Distance - 18. 20. 20.
UBS 6. 6. 4. 5.
BS 0. 0. 0. 0.
ILL 2. 2. 2. 1.
ILR 2. 2. 2. 3.
H 2. 2. 2. 1.
BL 0. 2. 0. 1.
BR 2. 2. 0. 1.
UN 0.071 0.083 0.083 0.193

Sequences

Field Description
UTR seq + 25 aaaucucgcgauaccuaggcgccugagaggcucucuaccggugaggguuugcggggaagATGGAGTATCCCGCGCCGGCCACGG
UTR dot + 25 ……(((((((((((….((((..((((((((…….)))))))).))))…..))).)))))..)))(((….)))
RS 1 seq UAUGAAUUAGGAAGCUAUGAAUCCAGGGUUUAAUUGGACGCUUAUACCUUGGAGGAGCUAGUAGCGUAACCGGCCAUGUGGUCG
RS 1 dot ……(((.(..((((….((((((((.(((……..))).))))))))…..))))..).))).(((((….)))))
RS 2 seq UAUUGAAUGGGAAGCUAUGAACUCUUCUUUGUACGUGGUCACUUGAAGGAGAGGGAGCUAGUAGUGAAACCGCCCCGACCGGGG
RS 2 dot …….(((…(((((…((((((((((…………))))))))))…….)))))….)))((((….))))
RS 3 seq CCCUCCAAGGAGCGUUGCAGCGAAACCAAGAUUUCGUCAGGCUUGGAAUGUGUUUGAGACCGCCGCAACGACGCUCACCUGCU
RS 3 dot ………(((((((((.(((….((((((((((…….))))))…))))….))).)))…))))))…….

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