Detected as a riboswitch by 1 out of 20 classifiers
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5HSAA091354 Similarity: 0.948 Similarity: 0.946 Similarity: 0.946
UTR: 5HSAA091354
Gene: RNF125
MFE: -60.433
ENS: 0.829
Length: 201.
Predicted Ligands:
cobalamin - 20/20 - 20/20


 RS: URS00023163F2_742766
MFE: -38.015
Ligand: cobalamin
Species: Dysgonomonas gadei ATCC BAA-286 Cobalamin riboswitch
 RS: URS0002322C7F_1229726
MFE: -54.538
Ligand: cobalamin
Species: Gramella flava JLT2011 Cobalamin riboswitch
 RS: URS00023332DE_544644
MFE: -50.372
Ligand: cobalamin
Species: Butyricimonas synergistica 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 5HSAA091354 URS00023163F2_742766 URS0002322C7F_1229726 URS00023332DE_544644
Length 201. 201. 200. 201.
Similarity - 0.948 0.946 0.946
Ensemble Norm 0.829 - - -
MFE -60.433 -38.015 -54.538 -50.372
Ligands - cobalamin cobalamin cobalamin
Gene RNF125 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 4.004 14.002 4.002
Length SE - 0. 1. 0.
Lev Distance - 68. 63. 71.
UBS 13. 13. 13. 14.
BS 1. 0. 0. 1.
ILL 3. 4. 1. 3.
ILR 3. 2. 3. 3.
H 6. 5. 6. 5.
BL 3. 3. 3. 4.
BR 4. 4. 1. 3.
UN 0.114 0.179 0.160 0.154

Sequences

Field Description
UTR seq + 25 gguuucaccguguuagccgggauggucucgaucuccugaccucgugauccgcccgccucggccucccaaagugcugggauuacaggcgugagccaccgcgcccggccguauaugcuuuuuagaagaaccaaauucaagaacuuaacaguuggaucuucuaaguuugccucagugaaATGGGCTCCGTGCTGAGCACCGACA
UTR dot + 25 (((…)))…..((.((((..((((.(((((….))..))).))))..)))).))((((((((((……)))))…..((((((……)))))).)))))…..((..(((((((((.((((……………..)))).)))))))))…))((((((…((((…))))))))))……..
RS 1 seq UAUCUUUGUUUUUGUAUUGGUGUUACAAGUCCGCAUUUGCCGGAUAGUAAUGAAAAGGGAAUCAGGUGUAAAUCCUGAACAGUCGCGCUGCUGUAAACUCAUGUAAGCGUUUAUACAAAUCCUCAAGCCACUGUUGUGAAAAACGGGAAGGUCGUAUAAACGGGAGUAAGUCAGAAGACCUGCCAAAGCAUAUAUUUUCAU
RS 1 dot ….(((.(((((……..(((((..((((((….)).)))).)))))))))).))).(((((…….)))))(((((……)))))………….(((((((((…((((…..(((….)))……))))…..))))))))).(.(((.(((….))).))))……………..
RS 2 seq UUUUCGCACUGAAAUUUUGGUUCGGUAUCGAAUUUCUGUACCGAUUAAAAGGGAAUCAGGUAAAUGCCUGAGCUGUUCCCGCAACUGUAAGCUAAGCCCGCACGGGCGGCUGCAAAACGCUUCAAACCACUGACGUUUUUUGUUGGGAAGGUAUUUUGCAGUACGCGAGCCAGGAGACCUGCCAGAGUUCAAACUAACAU
RS 2 dot …………..((((((.(((((((.((…)).)))))))))))))(((((((((((….))))))….)))))((……..))…((((….)))).((((((((((.((((……((((((…..))))))))))))..))))))))….((((((((…))))…..))))……….
RS 3 seq UACUUUUGCGAUGAUUUUGGUGUCACACCCUGUUUCAGGCGUGUGGUGAAAAGGGAAUCAGGUGCGAAUCCUGAACAGACCCGCUGCUGUAAGCUCCACUAAAGUCCACGGACACUACUCACUCCACUGUUUCAACUUGAAAUGGGAAGGACGUCCGGGGAUGGGGUAAGUCAGAAGACCUGCCAAUCAUUAUAUGUUUAA
RS 3 dot …………((((((((((((((((((((…)))).))))))……(((..(((((…….)))))…..)))(((……)))..))))))))))(.(((((…..((..(((.(.((((((…))))))))))..)).)))))).(((((((((.(((….))).))))..)))))……….

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