Detected as a riboswitch by 1 out of 20 classifiers
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5HSAA113824 Similarity: 0.983 Similarity: 0.979 Similarity: 0.976
UTR: 5HSAA113824
Gene: TRIT1
MFE: -5.942
ENS: 0.643
Length: 30.
Predicted Ligands:
SAM - 9/20
preQ_1 - 6/20
unknown - 2/20
 RS: URS0000ABD446_1313296
MFE: -4.722
Ligand: preQ_1
Species: Paenibacillus uliginis N3/975 PreQ1 riboswitch
 RS: URS000080E32E_119072
MFE: -6.098
Ligand: preQ_1
Species: PREQ1 RIBOSWITCH from Caldanaerobacter subterraneus subsp. tengcongensis (PDB 6VUH, chain A)
 RS: URS0001A24B50_1907202
MFE: -10.
Ligand: unknown
Species: Chains: A,C,F,I,M,O from Roseobacter sp. (PDB 6YLB, chain F)
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 5HSAA113824 URS0000ABD446_1313296 URS000080E32E_119072 URS0001A24B50_1907202
Length 30. 32. 33. 26.
Similarity - 0.983 0.979 0.976
Ensemble Norm 0.643 - - -
MFE -5.942 -4.722 -6.098 -10.
Ligands - preQ_1 preQ_1 unknown
Gene TRIT1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 3.008 3.002 4.188
Length SE - 4. 9. 16.
Lev Distance - 18. 18. 15.
UBS 2. 1. 1. 2.
BS 0. 0. 0. 0.
ILL 0. 0. 0. 1.
ILR 0. 0. 0. 1.
H 1. 1. 1. 1.
BL 1. 0. 0. 0.
BR 1. 0. 0. 0.
UN 0.433 0.344 0.394 0.

Sequences

Field Description
UTR seq + 25 auaagATGGCGTCCGTGGCGGCTGCACGAG
UTR dot + 25 ……..(((.(((…))).)))…..
RS 1 seq AGAGGUUCGUGAACUCCCUCUAUAAAAAACUA
RS 1 dot (((((………..)))))………..
RS 2 seq CUGGGUCGCAGUAACCCCAGUUAACAAAACAAG
RS 2 dot (((((……….)))))………….
RS 3 seq GGUCACAACGGCUUCCUGGCGUGACC
RS 3 dot ((((((..(((….)))..))))))

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