Detected as a riboswitch by 18 out of 20 classifiers
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5HSAA023969 Similarity: 0.991 Similarity: 0.990 Similarity: 0.990
UTR: 5HSAA023969
Gene: COL9A3
MFE: -12.876
ENS: 0.907
Length: 42.
Predicted Ligands:
SAM - 16/20
preQ_1 - 4/20

 RS: URS00021EE04B_12908
MFE: -9.549
Ligand: SAM
Species: unclassified sequences SAM-SAH-Weickhmann-2018 RNA
 RS: URS00021EDED0_12908
MFE: -11.950
Ligand: SAM
Species: unclassified sequences SAM-SAH-Weickhmann-2018 RNA
 RS: URS00021EDF0D_12908
MFE: -9.782
Ligand: SAM
Species: unclassified sequences SAM-SAH-Weickhmann-2018 RNA
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 5HSAA023969 URS00021EE04B_12908 URS00021EDED0_12908 URS00021EDF0D_12908
Length 42. 43. 42. 43.
Similarity - 0.991 0.990 0.990
Ensemble Norm 0.907 - - -
MFE -12.876 -9.549 -11.950 -9.782
Ligands - SAM SAM SAM
Gene COL9A3 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 0.014 0.001 0.005
Length SE - 1. 0. 1.
Lev Distance - 11. 13. 12.
UBS 3. 3. 3. 3.
BS 0. 0. 0. 0.
ILL 1. 1. 1. 1.
ILR 1. 1. 1. 1.
H 2. 2. 2. 2.
BL 0. 0. 0. 0.
BR 0. 0. 0. 0.
UN 0.167 0.047 0.143 0.093

Sequences

Field Description
UTR seq + 25 aaauagguuugaacaccATGGCCGGGCCGCGCGCGTGCGCCC
UTR dot + 25 …..((((((..((…))..))))))((((….))))..
RS 1 seq UGUCACAACGGCUUCCUGGCGUGGCACUUUUUAUAAUGGAGCG
RS 1 dot ((((((..(((….)))..))))))((((…….))))..
RS 2 seq GCCACAACGGCUUCCUGGCGUGGCAAUUUUUCUAAUGGAGCG
RS 2 dot (((((..(((….)))..)))))….((((….))))..
RS 3 seq UGUCACAACGGCUUCCUGGCGUGGCAAUCUGUCUAAUGGAACG
RS 3 dot ((((((..(((….)))..)))))).(((((…)))))…

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