Detected as a riboswitch by 2 out of 20 classifiers
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5HSAA066559 Similarity: 0.953 Similarity: 0.944 Similarity: 0.942
UTR: 5HSAA066559
Gene: MLPH
MFE: -18.039
ENS: 0.737
Length: 172.
Predicted Ligands:
cobalamin - 8/20
glucosamine - 7/20
Mg2+ - 3/20
 RS: URS0002328656_1535422
MFE: -33.661
Ligand: cobalamin
Species: Thalassotalea sp. ND16A Cobalamin riboswitch
 RS: URS0002333234_797515
MFE: -28.672
Ligand: cobalamin
Species: Lactobacillus parafarraginis F0439 Cobalamin riboswitch
 RS: URS0002323480_84029
MFE: -34.877
Ligand: Mg2+
Species: Clostridium roseum M-box riboswitch (ykoK leader)
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 5HSAA066559 URS0002328656_1535422 URS0002333234_797515 URS0002323480_84029
Length 172. 173. 172. 172.
Similarity - 0.953 0.944 0.942
Ensemble Norm 0.737 - - -
MFE -18.039 -33.661 -28.672 -34.877
Ligands - cobalamin cobalamin Mg2+
Gene MLPH - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 16.005 16.057 12.085
Length SE - 1. 0. 0.
Lev Distance - 57. 70. 74.
UBS 5. 8. 8. 7.
BS 0. 0. 0. 0.
ILL 1. 2. 2. 2.
ILR 0. 2. 2. 2.
H 2. 3. 3. 3.
BL 2. 2. 1. 1.
BR 3. 2. 3. 2.
UN 0.442 0.370 0.203 0.151

Sequences

Field Description
UTR seq + 25 guggauaaauggguggguggguaggugaauagaugaauagauugauaaauagggggauggguggauugguagauggguagauggagggauacauugcuguguggauaggugggugaauggaugaaggagggagggaugggcagguagATGGGGAAGAAACTGGATCTTTCCA
UTR dot + 25 …………………………………………(((.((.((((…………………………..)))).)).)))………………………((((((((…(((…………….))).)))))))).
RS 1 seq UCGACGCGUAAAAUUUAAGGUGUCCUGAACUGUAACAAACUUCAAGACUUAAUAGGGAAUGUGGUGCAAUAGGCAAAAUGGCUUAUUAAUUCCACAGCUGUUCCCGCAACUGUAAAUAGAAUCAAUGAAAACAUUCUAUGAGUCAGAAAACCUGCCUUAAAUGUUAAUUAAUG
RS 1 dot ..(((((.(……..).)))))…………………………((((((((((…(((((((……)))))))….)))))….)))))……………………((((((…((((.(((…..))).))))))))))……..
RS 2 seq UCACAAAAUGCUAUAAUCAGCGAUGUUAAGAAGUAUAAUAAUCCGGAAAAAGGUGAAAAGCCUUUACAGCCCCUUCGCUACUGUAAGAUCGAUCAGAUUGUCACCACUCACUGGGUAAAGGACAAUUCUGGGAUGAAAUCAAGUCAGGAGACGCUUAUUAUACUGAUUGCAA
RS 2 dot ………………..((((.(((…((((………….((((((…..))))))………….)))).))).)))).(((((((((((((……..)))….)))))).))))……….((((((……………))))))….
RS 3 seq AAAAGUUUUUGUUAGGUGAGGCUCCUAUAUAGAUAUACGCUACUGCCCAGAAACAUCGAGAGAUGCCAACUUGGGUCAACAGAUAUUACCGAAUCAAGGUUUUAUCUAACGUAGCUGGAUUGUAUUCUGAUCUAAGCUAUAUAGUGCUAAAGCUCUACUGUCUAAUUUUAUU
RS 3 dot ……….(((((((((((((…………………((((((…((((….))))…..))))))…………………)))))))))))))(((((((((((…….)))))).))))).(((.((….)).)))……………

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