Detected as a riboswitch by 18 out of 20 classifiers
arrow left to previous 5prime UTR page
5HSAA029351 Similarity: 0.988 Similarity: 0.988 Similarity: 0.987
UTR: 5HSAA029351
Gene: DDX58_0
MFE: -14.984
ENS: 0.927
Length: 55.
Predicted Ligands:
unknown - 13/20
glutamine - 5/20
homocysteine - 1/20
 RS: URS0000E60855_1294143
MFE: -18.729
Ligand: unknown
Species: Pseudomonas denitrificans ATCC 13867 nhaA-I RNA
 RS: URS0000E605F8_1797572
MFE: -20.270
Ligand: unknown
Species: Burkholderiales bacterium RIFOXYC12_FULL_65_23 nhaA-I RNA
 RS: URS000080DDCD_305
MFE: -13.342
Ligand: homocysteine
Species: S-ADENOSYLHOMOCYSTEINE RIBOSWITCH from Ralstonia solanacearum (PDB 3NPN, chain A)
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
arrow right to the next 5prime UTR page
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 5HSAA029351 URS0000E60855_1294143 URS0000E605F8_1797572 URS000080DDCD_305
Length 55. 55. 54. 54.
Similarity - 0.988 0.988 0.987
Ensemble Norm 0.927 - - -
MFE -14.984 -18.729 -20.270 -13.342
Ligands - unknown unknown homocysteine
Gene DDX58 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 2. 5.003 6.005
Length SE - 0. 1. 1.
Lev Distance - 15. 14. 14.
UBS 5. 4. 4. 3.
BS 0. 0. 0. 0.
ILL 3. 3. 2. 2.
ILR 2. 2. 1. 1.
H 1. 1. 1. 1.
BL 0. 0. 1. 0.
BR 1. 0. 0. 1.
UN 0.218 0.218 0.167 0.148

Sequences

Field Description
UTR seq + 25 gaacguagcuagcugcaagcagaggccggcATGACCACCGAGCAGCGACGCAGCC
UTR dot + 25 ………..(((((..(..(..(((((……..))).))..)..)))))).
RS 1 seq GGGUGUCUGCUGCAAGGGUGGCGAGACAGGUCAAUGCGCAGGUCGGGCCGCCGCG
RS 1 dot ………..((…((((((..(((..((……))..)))..)))))))).
RS 2 seq GGGUGUCGGUGGCAUUGGGUCUCGGCAGGUUUUUGCGCAGGUCGGGCCGCCGCG
RS 2 dot ……..(((((….((((.((((..((……))..))))))))))))).
RS 3 seq GGACGAGGAGCGUUGCAAGCGAAAGCCCAGGCUAGUCCGUUCAAACGGCGCUCA
RS 3 dot …….((((((((..((((…((……..)).))))….)))))))).

Back to Ensemble of 20 Table

Back to Ensemble of 1 Table