Detected as a riboswitch by 1 out of 20 classifiers
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5HSAA115304 Similarity: 0.980 Similarity: 0.979 Similarity: 0.978
UTR: 5HSAA115304
Gene: TXLNA
MFE: -19.855
ENS: 0.778
Length: 90.
Predicted Ligands:
TPP - 9/20
Ni/Co - 7/20
zmp-ztp - 2/20
 RS: URS0000D8C9B6_1572656
MFE: -28.853
Ligand: Ni/Co
Species: Ruminococcaceae bacterium CPB6 NiCo riboswitch
 RS: URS0000D8D044_1986702
MFE: -22.894
Ligand: TPP
Species: Flavobacteriaceae bacterium TMED120 TPP riboswitch (THI element)
 RS: URS0000D6BC87_12908
MFE: -33.462
Ligand: Ni/Co
Species: unclassified sequences NiCo 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 5HSAA115304 URS0000D8C9B6_1572656 URS0000D8D044_1986702 URS0000D6BC87_12908
Length 90. 89. 91. 91.
Similarity - 0.980 0.979 0.978
Ensemble Norm 0.778 - - -
MFE -19.855 -28.853 -22.894 -33.462
Ligands - Ni/Co TPP Ni/Co
Gene TXLNA - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 9.017 6.002 3.025
Length SE - 1. 1. 1.
Lev Distance - 23. 25. 27.
UBS 7. 6. 6. 8.
BS 0. 0. 0. 0.
ILL 1. 0. 2. 1.
ILR 0. 1. 1. 0.
H 3. 4. 2. 4.
BL 3. 2. 2. 3.
BR 3. 1. 2. 2.
UN 0.289 0.157 0.242 0.132

Sequences

Field Description
UTR seq + 25 gagguggggaagccaucggacgucggcggugaggaucuucuccugacccagcaucgcucaucacaATGAAGAACCAAGACAAAAAGAACG
UTR dot + 25 ..(((((…..))))).((.((..(.(((.((((…..)))).)))).)).))..((((….))))…………………
RS 1 seq ACAGUACAAACUGAGCAGGCGAUAAACCCGAAAUGGGUUUAUGGGGCUGGGCCUUACGGCAACAGGGAAUCGGAACCUGUGGGACAGUA
RS 1 dot .((((….))))..(((.(.((((((((…..))))))))..).))).(((….))).(((((………)))))………
RS 2 seq UCCAUCUCAAAGGGGUGCCCUAGUGGCUGAGAUUAUACCCAUUGAACCUGGGCAGGUAAUGCUGCCAAGGGACAUUUUUNGCAAUUUAUUA
RS 2 dot ..((((((…))))))((((..((((.(..(((((.((((…….))))…))))).).))))))))………………..
RS 3 seq AAAGGUGCAUUGGAACAGGCGCUCCCCUUUCGAGGGAGGCGGCCGGGCUCCGUAGAGGGCAGCGGUGGCUGGACAGUCCCGUGGGACCAGA
RS 3 dot …(((((.(((…)))))))).((((((..(.((((.(…..).)))).)))))))((((….))))….((((….))))….

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