RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

General features for molecule RFA_00629 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00629 Molecule name [?]: RNase E 5 prime UTR element, RF00040, AJ414149.1/78777-78440 Source [?]: Rfam Database Source ID [?]: RF00040 AJ414149.1/78440-78777 Reference [?]: Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R. Eddy and Alex Bateman, Rfam: annotating non-coding RNAs in complete genomes, Nucleic Acids Res. 2005 33:D121-D124. Type [?]: RNase E 5 UTR [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: No Method for secondary structure determination [?]: Comparative sequence analysis Number of molecules [?]: 1 Length [?]: 338 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 3 Number of unpaired bases [?]: 164 Number of paired bases [?]: 174

Click on any header below for additional features.

Stem features Number of stems [?]: 15 Number of base pairs in stems [?]: 87 Maximum length of a stem [?]: 11 Average length of a stem [?]: 5.8 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -3.4 Average estimated free energy [?]: -9.74 Minimum estimated free energy [?]: -23.6

Hairpin loop features Number of hairpin loops [?]: 5 Maximum number of free bases in hairpin loops [?]: 10 Average number of free bases in hairpin loops [?]: 6.2 Minimum number of free bases in hairpin loop [?]: 4

Bulge loop features Number of bulge loops [?]: 1 Maximum number of free bases in bulge loops [?]: 1 Average number of free bases in bulge loops [?]: 0.5 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 8 Maximum number of free bases in internal loops: 17 Average number of free bases in internal loops: 5.56 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 9 Average internal loop absolute asymmetry: 3.38 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 4 Average internal loop relative asymmetry: 1.75 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 10 Average number of free bases in multi-loops: 5 Minimum number of free bases in multi-loop: 1 Maximum multi-loop absolute asymmetry: 9 Average multi-loop absolute asymmetry: 4.67 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 10 Average multi-loop relative asymmetry: 2.25 Minimum multi-loop relative asymmetry: 0.1 Maximum number of branches in multi-loops: 4 Average number of branches in multi-loops: 4 Minimum number of branches in multi-loops: 4

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 5 Total number of AA non-canonical base pairs: 1 Total number of AC non-canonical base pairs: 2 Total number of CU non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features

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