Detected as a riboswitch by 11 out of 20 classifiers
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5HSAA113299 Similarity: 0.991 Similarity: 0.991 Similarity: 0.991
UTR: 5HSAA113299
Gene: TRAPPC1
MFE: -12.075
ENS: 0.868
Length: 44.
Predicted Ligands:
preQ_1 - 14/20
SAM - 6/20

 RS: URS00021EE109_12908
MFE: -5.992
Ligand: SAM
Species: unclassified sequences SAM-SAH-Weickhmann-2018 RNA
 RS: URS0000AB4DC1_362948
MFE: -4.776
Ligand: preQ_1
Species: Lactobacillus salivarius UCC118 PreQ1 riboswitch
 RS: URS0000AB8C73_887898
MFE: -9.546
Ligand: preQ_1
Species: Lautropia mirabilis ATCC 51599 PreQ1 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 5HSAA113299 URS00021EE109_12908 URS0000AB4DC1_362948 URS0000AB8C73_887898
Length 44. 43. 45. 45.
Similarity - 0.991 0.991 0.991
Ensemble Norm 0.868 - - -
MFE -12.075 -5.992 -4.776 -9.546
Ligands - SAM preQ_1 preQ_1
Gene TRAPPC1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 2.001 2.004 2.002
Length SE - 1. 1. 1.
Lev Distance - 10. 10. 11.
UBS 3. 2. 2. 3.
BS 0. 0. 0. 0.
ILL 1. 1. 1. 1.
ILR 1. 1. 1. 1.
H 1. 1. 1. 1.
BL 0. 0. 0. 1.
BR 1. 0. 0. 0.
UN 0.205 0.233 0.267 0.156

Sequences

Field Description
UTR seq + 25 aguuccggugaguccguggATGACTGTCCACAACCTGTACCTGT
UTR dot + 25 ……((((((…((((((….))))))…)).))))…
RS 1 seq UCUACAACGGCUUCCUGAAGUAGGCAAAUUUAUUAAUGGAGCA
RS 1 dot ………(((((….(((((……)))))…))))).
RS 2 seq UCCACACUGGUUCGUAAACAUCCCAGUUAAAAAAACUAGAAAGCA
RS 2 dot ……((((((….(((……)))…..))))))……
RS 3 seq GCCCCCGUGGUUCGAAAAACGCCCACGUUAAAAAACUAGGGAAGA
RS 3 dot …(((.(((((…..((((….))))….))))))))….

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