Detected as a riboswitch by 20 out of 20 classifiers
arrow left to previous 5prime UTR page
5HSAA079608 Similarity: 0.980 Similarity: 0.980 Similarity: 0.979
UTR: 5HSAA079608
Gene: PHF19_0
MFE: -27.899
ENS: 0.991
Length: 86.
Predicted Ligands:
GMP - 8/20
zmp-ztp - 5/20
glutamine - 2/20
 RS: URS0000C4AB5E_1341692
MFE: -15.248
Ligand: cyclic-di-GMP
Species: Clostridium autoethanogenum DSM 10061 Cyclic di-GMP-II riboswitch
 RS: URS0000D68377_12908
MFE: -28.037
Ligand: GMP
Species: unclassified sequences c-di-GMP-II-GAG riboswitch
 RS: URS0000D69A98_12908
MFE: -39.275
Ligand: GMP
Species: unclassified sequences c-di-GMP-II-GAG 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
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 5HSAA079608 URS0000C4AB5E_1341692 URS0000D68377_12908 URS0000D69A98_12908
Length 86. 85. 85. 85.
Similarity - 0.980 0.980 0.979
Ensemble Norm 0.991 - - -
MFE -27.899 -15.248 -28.037 -39.275
Ligands - cyclic-di-GMP GMP GMP
Gene PHF19 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 3.001 4.002 1.
Length SE - 1. 1. 1.
Lev Distance - 25. 25. 27.
UBS 6. 6. 7. 6.
BS 0. 0. 0. 0.
ILL 0. 1. 1. 0.
ILR 1. 1. 1. 1.
H 3. 2. 2. 2.
BL 3. 2. 3. 3.
BR 2. 2. 3. 2.
UN 0.140 0.176 0.188 0.118

Sequences

Field Description
UTR seq + 25 uuuucgaaaucucccugaacuuuggcggcccgaacgccuccgggggugucaggggaagcugATGCTGGTCTTGGTAATCCGTGGTC
UTR dot + 25 ………..(((((((.((((((.(((……))).))))))…))))))).(((….)))((((.(((….))).))))
RS 1 seq CGAUUAGAUGGAAGUGAUGAAGUAUAGCUUGUAUUUUGGACACUUAAGCUAUAUUGAGCUAGUAGUGUAACCGGCCUCGUAGUAU
RS 1 dot ………..(((((.(((((((((…)))))))))..)))))..(((((…(((((.((……)).))).)))))))..
RS 2 seq AUGAUCCGAGGAGACGCUGAUCCGCCGGGGCACGCGCGGUCACGAGAACCCGGCGGGGAGUCAAUCGUGAGACCGGCCUCUACGG
RS 2 dot …………(((.((…((((((((.(.((……..)).)..)))))))))).)))…((((((……))).))).
RS 3 seq CUGAACGCGGGAGGCUCUGACGCGUGGCCGUGCCCACGGCCGCUCGGACUGUGCGGAGCCACUGGCAAGACCGACCCGCGCGGUG
RS 3 dot ……((.((.(((((((.(((((((((((….))))))))…….)))))))))).)).))…((((…….)))).

Back to Ensemble of 20 Table

Back to Ensemble of 1 Table