Detected as a riboswitch by 15 out of 20 classifiers
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5HSAA085570 Similarity: 0. Similarity: 0.892 Similarity: 0.891
UTR: 5HSAA085570
Gene: PSMC2_3
MFE: -85.
ENS: 0.713
Length: 300.
Predicted Ligands:
cobalamin - 19/20
glucosamine - 1/20

 RS: URS000232E33F_1777132
MFE: -117.733
Ligand: cobalamin
Species: Caballeronia peredens Cobalamin riboswitch
 RS: URS000232FFF2_1777139
MFE: -121.229
Ligand: cobalamin
Species: Caballeronia calidae Cobalamin riboswitch
 RS: URS0002322B36_555779
MFE: -117.232
Ligand: cobalamin
Species: Desulfonatronospira thiodismutans ASO3-1 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 5HSAA085570 URS000232E33F_1777132 URS000232FFF2_1777139 URS0002322B36_555779
Length 300. 300. 300. 298.
Similarity - 0.900 0.892 0.891
Ensemble Norm 0.713 - - -
MFE -85. -117.733 -121.229 -117.232
Ligands - cobalamin cobalamin cobalamin
Gene PSMC2 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 17.001 39. 5.
Length SE - 0. 0. 4.
Lev Distance - 126. 124. 138.
UBS 17. 20. 21. 17.
BS 0. 0. 0. 0.
ILL 7. 7. 5. 6.
ILR 4. 6. 7. 4.
H 5. 7. 8. 7.
BL 4. 4. 5. 4.
BR 4. 4. 4. 4.
UN 0.117 0.093 0.113 0.111

Sequences

Field Description
UTR seq + 25 aaucaguccaaaaaccagcgugccaaagcguuuccccagggcucuguccggacucugaagcacugcauaaaggggucugucugagcccaauuuacuuccgguggggaagggaaagggaagacaccaccggaagcaaggaaggugcuguguaaucauuaaggagcggaggcuuuuggagcugcuaaaaugccggauuaccucggugccgaucagcggaagaccaaagaggaugagaaggacgacaagcccauccgagcucuggaugagggggauauATGCCGGATTACCTCGGTGCCGATC
UTR dot + 25 …………….(((((……)))))……((((((.(..((((((((……………)))))))).).))))))……((((((((((……………….))))))))))…….(((((((.((((((…….(((…(((((…))))))))………))))))..)))))))((((.((…..(((…((((.(((…((……..((((((((…..)))))).))……….))…)))))))))))).))))
RS 1 seq UACACUUGCCGCACUUUUGGUGCUCGCAUUCGCGGAUCUCGCGAAUGCAGUCAAACGGGAAACAGGGAGCGAAGUCCUCGAAGCACACCGGGACGAGCCAACCUGUGCUGCCCCCGCAACGGUAAGCGACCGCAACGCAAGUUGCAAGUCGUCCCUUGCGCGUUUCUGCAUGACAGGCGCGUGUUUUCUCAUCACGCGAAACCACUGCAAGAAACGUGUCGAUGCCACUGCGCACGUUUGCGCGGGAAGGCGGGGCGAUGUGUCGCCAGCCCGGAUACCGGCCGGAGUUCGACGCGCACG
RS 1 dot ……….(((((…)))))..(((((((((…..)))))))))……..(((..(((((..((…((((.((……..))))))..))…)))))….))).(((((.((…(((((.(((((….)))))..))))).)))))))((((((((((…….((((((………))))))…….)))).))))))((((..((((.(((((((….)))))))…)))).))))..((((((..(((((((…….)))).)))))))))…..
RS 2 seq ACACUUGCCGCACUUUUUGGUGCUCGCAUUCGCGAAUCUCGCGGAUGCAGUCAAACGGGAAACAGGGAGCGAAGUCUCGAAGUCCGACCGGGACGAGCCAACCUGUGCUGCCCCCGCAACGGUAAGCGACCGCAACGCAAGUUGCAAGUCGUCUCAUGCGCGUUUUUGCAGCGCGAGCGUGUCGAAUUUCAUCGCACGGACUCGACUGCAAGAAACGUGUCGACGCCACUGCGCACGAUGCGCGGGAAGGCGAGACGAUCCGUCGCCAGCCCGGAUACCGGCCAAAGCUCGACGCAUCGG
RS 2 dot ………(((((….)))))..((((((((((…))))))))))……..(((..(((((..((…((((((………))))))..))…)))))….)))(((…)))…(((((.(((((….)))))..)))))…..((((((((((((((((.(..((((.(((……)))))))..).)).))))))))).)))))…((((.(((((((…)))))))…))))…((((.(((((..(((((((…))))…..)))))))).)))).
RS 3 seq UUAAGGACAGUCGUCUCAGGUUUUCCCCAGUCAGGGGAAAUGAAAAGGGAAUCCCGUGUAAAUCGGGAACCGGCCCGCGGCUGUGAGCGGGGACGAAAGCCGCAUUAAGCCACUCUGGACAGAAACAGGGGAAGGCGCGGCAAGCCCAGCACUCACUUCAUUUCUGUUUGUUGCUUAUAAUCAGGUUGUACUGCAAGGAGCCAACCGGUUUAACUGGCAACAAUUAGUACCUGAAGUGAGUGCUGGGCAAGUAGGACGAUCCGCAAGUCAGAAGACCUGCCUGAGACCUUAUUGGACC
RS 3 dot ….((((….))))…..(((((((…..)))))))…….((..(((((…….))))).))..(((((……..)))))…….(((((…..(((.(((((……..)))))…))))))))..(((((((((((((((((…(((.((((((((…((((.(((((..((……)).)))))))))…..)))))))).)))….))))))))))))))))).((((((…….(((.(((….))).)))…….))))))…..

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