Detected as a riboswitch by 18 out of 20 classifiers
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5HSAA017096 Similarity: 0.985 Similarity: 0.984 Similarity: 0.984
UTR: 5HSAA017096
Gene: CASP14
MFE: -15.213
ENS: 0.948
Length: 73.
Predicted Ligands:
fluoride - 6/20
2'-dG-II - 3/20
GMP - 3/20
 RS: URS0000D6BFB8_12908
MFE: -17.094
Ligand: 2'-dG-II
Species: unclassified sequences 2'dG-II riboswitch
 RS: URS0000D862BF_1293890
MFE: -18.108
Ligand: SAM
Species: Thalassospira alkalitolerans SAM riboswitch (alpha-proteobacteria)
 RS: URS0000D699CD_12908
MFE: -22.660
Ligand: GMP
Species: unclassified sequences c-di-GMP-I-GGC 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 5HSAA017096 URS0000D6BFB8_12908 URS0000D862BF_1293890 URS0000D699CD_12908
Length 73. 72. 72. 73.
Similarity - 0.985 0.984 0.984
Ensemble Norm 0.948 - - -
MFE -15.213 -17.094 -18.108 -22.660
Ligands - 2’-dG-II SAM GMP
Gene CASP14 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 2.006 4.022 7.002
Length SE - 1. 1. 0.
Lev Distance - 19. 19. 20.
UBS 4. 5. 4. 5.
BS 0. 0. 0. 0.
ILL 1. 2. 2. 0.
ILR 1. 1. 2. 2.
H 2. 2. 2. 2.
BL 1. 1. 0. 3.
BR 1. 1. 0. 1.
UN 0.260 0.181 0.111 0.301

Sequences

Field Description
UTR seq + 25 aggaucagacaagggugcugagagccgggacucacaaccaaaggagaaATGAGCAATCCGCGGTCTTTGGAAG
UTR dot + 25 …………((((.(((…..))).))))….(((((((……((….))…..)))))))…
RS 1 seq AUAACCUGUAAUCUUCGUAUAGGACGAAGAGCAUCCACCCUCAAACCGCUUAAUUUGAGGUCACCAGGGAGA
RS 1 dot ……(((..(((((((…..))))))))))….((((…(((.(…….).)))….))))…
RS 2 seq UCUGCCUAUCGUGGGAUUUGUCGACCGGCUUGCGGCCACGUAAAAAAUCGCUAAAGAGGGGAAUCGUGGCUU
RS 2 dot …(((..(((……….)))..)))….(((((((…….((……))…….))))))).
RS 3 seq CAAGAUAAAGCCAAACCUGCCGUGAGACAGGGCGGGAAGCAACGGGUCUCAAUAGAUAGCCGAGUUGCCUCUU
RS 3 dot ……………((((((.((…)).))))))..(((((.(((.((….))..)))..)))))…..

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