Detected as a riboswitch by 7 out of 20 classifiers
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5HSAA085243 Similarity: 0.986 Similarity: 0.984 Similarity: 0.984
UTR: 5HSAA085243
Gene: PRRX1
MFE: -23.577
ENS: 0.841
Length: 72.
Predicted Ligands:
homocysteine - 9/20
fluoride - 6/20
2'-dG-II - 2/20
 RS: URS0002329798_256318
MFE: -20.294
Ligand: homocysteine
Species: metagenome sequence S-adenosyl-L-homocysteine riboswitch
 RS: URS0000D67914_12908
MFE: -20.031
Ligand: 2'-dG-II
Species: unclassified sequences 2'dG-II riboswitch
 RS: URS0000C27349_1454005
MFE: -20.294
Ligand: homocysteine
Species: Candidatus Accumulibacter sp. BA-94 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 5HSAA085243 URS0002329798_256318 URS0000D67914_12908 URS0000C27349_1454005
Length 72. 72. 72. 73.
Similarity - 0.986 0.984 0.984
Ensemble Norm 0.841 - - -
MFE -23.577 -20.294 -20.031 -20.294
Ligands - homocysteine 2’-dG-II homocysteine
Gene PRRX1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 6. 6.001 6.001
Length SE - 0. 0. 1.
Lev Distance - 17. 19. 18.
UBS 7. 6. 6. 6.
BS 0. 0. 0. 0.
ILL 4. 3. 2. 3.
ILR 3. 1. 3. 1.
H 1. 1. 1. 1.
BL 2. 2. 2. 2.
BR 3. 3. 2. 3.
UN 0.111 0.125 0.083 0.137

Sequences

Field Description
UTR seq + 25 ugauucgagcgggaagaggggggugggugggaucggugggggagaccATGACCTCCAGCTACGGGCACGTTC
UTR dot + 25 …..((.((..(.((..((((((..((((..((…….))..)))).))))))..)).)..)).))…
RS 1 seq AAUCCGAGGAGCGCUGCAAGGCUGUCGUCCCACAGUUUCAGGCUCGGAUUCAUCAAACGGCGCUCAUCCCAC
RS 1 dot …..((.((((((((…((.((..((((…((((…)))).)))).))))…)))))))).))….
RS 2 seq GAACCCUGUAAUCGCCGGAAUUGGCCGGCGGGCAUCCACCGUUAGACCUCAAAUCCAACGUCACCAGGGGAA
RS 2 dot …(((((….((..(((.(((((.(((((…….))))).)…)))).)))..))….)))))…
RS 3 seq CAGUCCGAGGAGCGCUGCAAGGCUGUCGUCCAACAGUUUCAGGCUCGGAUUCAUCAAACGGCGCUCAUCCCAC
RS 3 dot ……((.((((((((…((.((..((((…((((…)))).)))).))))…)))))))).))….

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