Detected as a riboswitch by 17 out of 20 classifiers
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5HSAA039444 Similarity: 0.969 Similarity: 0.968 Similarity: 0.964
UTR: 5HSAA039444
Gene: FARP2
MFE: -52.971
ENS: 0.903
Length: 142.
Predicted Ligands:
cobalamin - 8/20
TPP - 5/20
SAM - 4/20
 RS: URS0000C46CD7_1690815
MFE: -58.135
Ligand: cobalamin
Species: Pseudonocardia sp. HH130630-07 Cobalamin riboswitch
 RS: URS0000DA3AB6_3775
MFE: -51.576
Ligand: TPP
Species: Cephalotus follicularis TPP riboswitch (THI element)
 RS: URS0002333E09_1839774
MFE: -49.072
Ligand: cobalamin
Species: Streptomyces sp. Ncost-T10-10d Cobalamin 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 5HSAA039444 URS0000C46CD7_1690815 URS0000DA3AB6_3775 URS0002333E09_1839774
Length 142. 142. 140. 141.
Similarity - 0.969 0.968 0.964
Ensemble Norm 0.903 - - -
MFE -52.971 -58.135 -51.576 -49.072
Ligands - cobalamin TPP cobalamin
Gene FARP2 - - -
Downstream protein Genecard - - -

Similarity metrics

  5’UTR RS match 1 RS match 2 RS match 3
Struct SE - 4.001 1. 8.
Length SE - 0. 4. 1.
Lev Distance - 40. 37. 43.
UBS 10. 11. 11. 11.
BS 0. 0. 0. 0.
ILL 2. 3. 2. 3.
ILR 3. 3. 3. 4.
H 3. 4. 3. 3.
BL 2. 2. 2. 4.
BR 3. 2. 3. 2.
UN 0.085 0.120 0.086 0.092

Sequences

Field Description
UTR seq + 25 ggcgacgccgacgcgagucuggcggcugcugcuugcgacugcggaggccgggcgaggccggugaggacgcggcgggcgagcgagaggccgagguguuuucuucacucauggugaagaATGGGGGAGATAGAAGGAACATACA
UTR dot + 25 …….(((((….))).))(((((.((((((((..(((((…(((((……)))))…..)))))…)))))).)).)))))..(((((((((((.(((((……..))))))))))……))))))…
RS 1 seq AAGAGGGAACCCGGUGGGAAUCCGGGACUGCCCCGCAGCGGUGAGUGGGAACGACCGCCGUCAUGAGCACUGGGAGCGAUCCCGGGAAGCGACGGCCAGUAGGUGGGCACGCGAGUGUCCGGGCCCGCGAGUCCGAAGACCU
RS 1 dot ………(((…)))..(((((((.(((((((..((.((((((((……))))..))))..))..)))).))).)))))))..(((..((((……(((((((….))))))))))))))..(((….)))..
RS 2 seq GAGAAGCACCAGGGGUGCCUGUAUCUGCCUCAGCACUGGCUAAUAUGGCCGGGAAGCUGGUACUGGCGGGUCAGGCUGAGAAAGUCCCUUUGAACCUGAACAGGGUAAUGCCUGCGUAGGGAGUGUGCAUUUUUUCUUUC
RS 2 dot ……((((…))))((((.((((((((((((.(((((((…)))))))…)))))….)))))))))))..(((((((((((((….((((..((((……))))..))))))).).).))))))))….
RS 3 seq GGCCCCCACAUGUAUGCUCGUGCUCGCUGUCGCCGCAGGGAAAUCCGGUGCGAAUCCGGAACUGUCCCGCAACGGUGUAUUCGGUGCGCUUUUGCGCACCCUCAAGUAAGUCCGAGGACCUGCCGACAGCGCAUCCGGCUC
RS 3 dot …….(((.((..((….))..)))))(((((..((((..(((((…….)))))….))))….)))))…((((((((((.(((.(((.((((……….))))…)))))).)))))).))))…

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