Detected as a riboswitch by 4 out of 20 classifiers
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5HSAA029178 Similarity: 0.860 Similarity: 0.857 Similarity: 0.853
UTR: 5HSAA029178
Gene: DDX5
MFE: -110.327
ENS: 0.739
Length: 300.
Predicted Ligands:
cobalamin - 18/20
glucosamine - 2/20

 RS: URS0000E345E4_156406
MFE: -123.908
Ligand: cobalamin
Species: uncultured spirochete Cobalamin
 RS: URS00023185F5_1798267
MFE: -155.483
Ligand: cobalamin
Species: Gammaproteobacteria bacterium RBG_16_66_13 Cobalamin riboswitch
 RS: URS00023195C5_468056
MFE: -58.944
Ligand: cobalamin
Species: Flavobacterium sp. H7 Cobalamin 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 5HSAA029178 URS0000E345E4_156406 URS00023185F5_1798267 URS00023195C5_468056
Length 300. 298. 302. 296.
Similarity - 0.860 0.857 0.853
Ensemble Norm 0.739 - - -
MFE -110.327 -123.908 -155.483 -58.944
Ligands - cobalamin cobalamin cobalamin
Gene DDX5 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 58.025 69.033 61.002
Length SE - 4. 4. 16.
Lev Distance - 151. 149. 141.
UBS 13. 19. 19. 16.
BS 5. 3. 2. 0.
ILL 1. 2. 5. 5.
ILR 1. 4. 3. 4.
H 7. 9. 7. 7.
BL 5. 7. 5. 4.
BR 5. 5. 7. 4.
UN 0.240 0.081 0.060 0.199

Sequences

Field Description
UTR seq + 25 gggggcgguuugggaaguuuagagaccauucuccgccgaccaaaacccgucaaaggauuaucagacacgcgggucggacgguccacaucagccggcagcccgggcgggucccggggugcgagcagcgcacuuccgugcagcuucggcuggugucaucgguguccuuccuccgcugccgcccccgcaaggcuucgccgucaucgaggccauuuccagcgacuugucgcacgcuuuucuauauacuucguuccccgccaaccgcaaccauugacgccATGAAAGCGGGACGCTTCGAGGCAG
UTR dot + 25 (((((((((..((((((….((.(((…..(((((((((…….(((…………)))…..)))))).)))…(((((((((((((.((((((…..)))))).)))((((.((((……)))).))))))))))))))….))).))))))))…..)))))))))….(((((((…….)))))))…….((((….))))……………………..((…..))……….(((.((.(((((…))))))).)))..
RS 1 seq CUUCUCUACGCGCUCCGUGGUGCCUCUCCGUCCAGCGUCGCUGGGGAGGGGAAAAGGGAAAACGGUGCAAGACCGUUGCAGCCCCCGCUACUGUGAGCCGGUAUUCGUUCAGUCCGGCGGAAUGUUCCGCCGCAGGCACGUGCGCGGUACGCAUCGCUUUGAAGAACGCACCUCUGCCUGAUCCACUGGCUUCGCUCUGCGGGCCGGGAAGGGGGAUUGAGCGAAGCGCCCCGAUGCCAUAAAGGCGACGAGGCGCGGCCGGCAAGCCAGGAAACCUGCCAGGAGCCGCAGCAUCCUU
RS 1 dot …(.(((((…..))))).)(((((((..(((((…))))))))))))….(((..((((((…..))))))….)))……..((..((((((.((((((((((((((((((….)))))).((((((.(((((((((….)))))……….))))…)))))).(((.(((((.((((…)))))))))…)))))))))))))))(((((.((.((((…..)))).)).))))).))))))..))((((…))))..((((((….)).)))).
RS 2 seq AACCGACCCCUGGGCAGGGGUGGCCUGUCGCCCGGAUGCGACGGCCGACGUUGGGGAAGCCGGUGACCGCCCGUUGGUGGAAGUCCGGCACUGUCCCGCAACUGUAAGGGCAGCUAUCAGCCGUCAGCCAUCAGCCGUCAGCUAGCGCUUUAGCUGACCGCUGAGAGCUGACACUUGCACCCCGUUCGGGCCGGGAGACCCGGUCCGCCGGGGCGAGACGGCCUGCGCUGCACUCCGGCGCAAGUGCAGGUGAAGCUGAAGGCUGUUCAAGUCAGGAUACCCGCCUCUGCCCCGGCGCUUGA
RS 2 dot …..((((((….))))))((((.(((((……))))))))).((((((((((.((((((..(((((….)))))..).)))))….)))).)))).))..((((((((.(((((.((((((..(((((.(((((((((….))))))))).)))))..)))))).(((((..((((..(((((((((…))))))))).)))))))))…(((((((((((……..))).))))))))…))))).))))))))…(((((…..((((……..)))))))))
RS 3 seq CAUUUGCAGCCGUAUUGAGGUUGCUGUUUUUAAUUUUAAAACCGCAUUAAAAGGGAAUCAGGUGAAAGAUUGCAGAUUGCAGAUUUUAGAUUGUAACAAUCAAAAAAAUCUAAAUCGAAAAUCCAGAAUCCUGGGCUGUACCCGCAACUGUAAGCUGUCAAGCUUGUUGUUAUCUACAAAACCACUGUUCAAAAUUUUAGAAUUGAGAUUUCAGAUUUUAUCAAAUCGGAAAUCAAGAAUGGGAAGGUAAACAACAAGACGCAAGCCAGGAGACCUGCCUAUUACAUCGAGUAUCA
RS 3 dot …..((((((…….)))))).(((((…….)))))………..(.((((……..)))).).((((..(((((((.(((((…)))))…))))))).))))………((((..(((..((((…(((((…(((((….))))))))))….))))…)))..))))…………….((((((.(((((….))))).))))))…((((((.((((……………………)))).))))))………….

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