Detected as a riboswitch by 20 out of 20 classifiers
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5HSAA039154 Similarity: 0.983 Similarity: 0.981 Similarity: 0.981
UTR: 5HSAA039154
Gene: FAM8A1
MFE: -23.191
ENS: 0.983
Length: 80.
Predicted Ligands:
cobalamin - 11/20
SAM - 4/20
Ni/Co - 3/20
 RS: URS0002318E2C_1618499
MFE: -13.903
Ligand: cobalamin
Species: Microgenomates group bacterium GW2011_GWA2_40_6 AdoCbl variant RNA
 RS: URS0002324461_12908
MFE: -18.120
Ligand: cobalamin
Species: unclassified sequences AdoCbl variant RNA
 RS: URS000231BA33_12908
MFE: -18.120
Ligand: cobalamin
Species: unclassified sequences AdoCbl variant 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 5HSAA039154 URS0002318E2C_1618499 URS0002324461_12908 URS000231BA33_12908
Length 80. 79. 79. 79.
Similarity - 0.983 0.981 0.981
Ensemble Norm 0.983 - - -
MFE -23.191 -13.903 -18.120 -18.120
Ligands - cobalamin cobalamin cobalamin
Gene FAM8A1 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 7.011 3. 3.
Length SE - 1. 1. 1.
Lev Distance - 19. 24. 24.
UBS 5. 4. 4. 4.
BS 0. 0. 0. 0.
ILL 3. 1. 2. 2.
ILR 2. 1. 1. 1.
H 2. 2. 2. 2.
BL 0. 1. 0. 0.
BR 0. 0. 0. 0.
UN 0.237 0.342 0.253 0.253

Sequences

Field Description
UTR seq + 25 gggggagggaaacggagcaguaacaaguaucccagagggugcugcugaggcgacgATGGCCGAGGGGCCCGAGGAAGCCC
UTR dot + 25 ……………..((((….(((((((….))))))))))).(((..(…((((….))))….)..))).
RS 1 seq AAGAAAAAUAGUUCAUUGGUGAAUUGGGUGUAAUUCCCAAACAGGGCCGCUACGGUUAUAGUCCGAACCCAAAAAUCUU
RS 1 dot ……………((((.((((((….))))))))))…(((……(((…….)))..)))………
RS 2 seq AUACUGAAAUUUGGUGGGGAAUCAGUGUGAAAUUCAUUGGCUCUACCUGGAACCGUAAAGUCGGAGCGCCACCCAGUAU
RS 2 dot …………(((((((..((((((…….)))))))))))))(((..(((……)))….)))……..
RS 3 seq AUAUUGAAGUUUGGUGGGGAAUCAGUGUGAAAUUCAUUGGCUCUACCUGGAACCGUAAAGUCGGAGCGCCACCCAAUAU
RS 3 dot …………(((((((..((((((…….)))))))))))))(((..(((……)))….)))……..

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